data/bowtie2-2.4.2/NEWS:77: misinterpretted ==> misinterpreted
data/bowtie2-2.4.2/NEWS:263: lenght ==> length
data/bowtie2-2.4.2/NEWS:264: lenght ==> length
data/bowtie2-2.4.2/NEWS:272: formating ==> formatting
data/bowtie2-2.4.2/NEWS:324: paramteres ==> parameters
data/bowtie2-2.4.2/aligner_bt.cpp:1437: ned ==> need
data/bowtie2-2.4.2/aligner_bt.cpp:1437: ned ==> need
data/bowtie2-2.4.2/aligner_bt.cpp:1453: ned ==> need
data/bowtie2-2.4.2/aligner_bt.cpp:1463: ned ==> need
data/bowtie2-2.4.2/aligner_bt.cpp:1575: guarnateed ==> guaranteed
data/bowtie2-2.4.2/aligner_bt.cpp:1587: ned ==> need
data/bowtie2-2.4.2/aligner_bt.cpp:1593: ned ==> need
data/bowtie2-2.4.2/aligner_bt.cpp:1601: ned ==> need
data/bowtie2-2.4.2/aligner_bt.cpp:1602: ned ==> need
data/bowtie2-2.4.2/aligner_bt.h:105: becuase ==> because
data/bowtie2-2.4.2/aligner_bt.h:112: appropraite ==> appropriate
data/bowtie2-2.4.2/aligner_bt.h:130: checkpoing ==> checkpoint
data/bowtie2-2.4.2/aligner_cache.h:24: CACHEING ==> CACHING
data/bowtie2-2.4.2/aligner_cache.h:585: syncronization ==> synchronization
data/bowtie2-2.4.2/aligner_cache.h:611: sav ==> save
data/bowtie2-2.4.2/aligner_cache.h:612: sav ==> save
data/bowtie2-2.4.2/aligner_cache.h:613: sav ==> save
data/bowtie2-2.4.2/aligner_cache.h:616: sav ==> save
data/bowtie2-2.4.2/aligner_cache.h:616: sav ==> save
data/bowtie2-2.4.2/aligner_cache.h:616: sav ==> save
data/bowtie2-2.4.2/aligner_cache.h:616: sav ==> save
data/bowtie2-2.4.2/aligner_cache.h:617: sav ==> save
data/bowtie2-2.4.2/aligner_result.cpp:130: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:156: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:158: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:937: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:937: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:944: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:944: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:945: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:955: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:955: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:957: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:988: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:988: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:996: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:996: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:997: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:1007: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:1007: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:1009: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:1876: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:1878: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:1879: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:1880: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:1881: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:1882: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:1883: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:1884: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:1885: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:1886: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:1890: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:1905: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:1907: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:1908: ned ==> need
data/bowtie2-2.4.2/aligner_result.cpp:1912: ned ==> need
data/bowtie2-2.4.2/aligner_result.h:767: alginment ==> alignment
data/bowtie2-2.4.2/aligner_result.h:996: ned ==> need
data/bowtie2-2.4.2/aligner_result.h:998: ned ==> need
data/bowtie2-2.4.2/aligner_result.h:1313: oen ==> one
data/bowtie2-2.4.2/aligner_result.h:1316: oen ==> one
data/bowtie2-2.4.2/aligner_result.h:1335: oen ==> one
data/bowtie2-2.4.2/aligner_result.h:1361: ned ==> need
data/bowtie2-2.4.2/aligner_seed.cpp:218: canN ==> can
data/bowtie2-2.4.2/aligner_seed.cpp:630: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:679: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:686: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:689: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:708: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:784: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:842: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:853: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:855: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:863: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:866: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:890: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:907: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:910: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1083: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1109: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1115: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1123: ot ==> to, of, or
data/bowtie2-2.4.2/aligner_seed.cpp:1138: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1141: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1142: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1149: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1152: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1153: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1159: ot ==> to, of, or
data/bowtie2-2.4.2/aligner_seed.cpp:1161: ot ==> to, of, or
data/bowtie2-2.4.2/aligner_seed.cpp:1166: ot ==> to, of, or
data/bowtie2-2.4.2/aligner_seed.cpp:1174: ot ==> to, of, or
data/bowtie2-2.4.2/aligner_seed.cpp:1177: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1178: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1200: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1212: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1213: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1219: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1223: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1252: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1268: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1273: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1277: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1306: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1389: unititialized ==> uninitialized
data/bowtie2-2.4.2/aligner_seed.cpp:1390: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1390: unititialized ==> uninitialized
data/bowtie2-2.4.2/aligner_seed.cpp:1422: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1423: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1432: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1483: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1487: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1488: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1495: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1496: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1511: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1512: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1513: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1515: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1536: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1537: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1548: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1558: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1578: unititialized ==> uninitialized
data/bowtie2-2.4.2/aligner_seed.cpp:1579: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1579: unititialized ==> uninitialized
data/bowtie2-2.4.2/aligner_seed.cpp:1597: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1620: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1622: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.cpp:1652: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.h:65: penalities ==> penalties
data/bowtie2-2.4.2/aligner_seed.h:87: canN ==> can
data/bowtie2-2.4.2/aligner_seed.h:106: canN ==> can
data/bowtie2-2.4.2/aligner_seed.h:1367: offests ==> offsets
data/bowtie2-2.4.2/aligner_seed.h:1390: sumamry ==> summary
data/bowtie2-2.4.2/aligner_seed.h:1605: unititialized ==> uninitialized
data/bowtie2-2.4.2/aligner_seed.h:1606: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.h:1606: unititialized ==> uninitialized
data/bowtie2-2.4.2/aligner_seed.h:1614: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.h:1618: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.h:1651: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.h:1654: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.h:1656: bloc ==> block
data/bowtie2-2.4.2/aligner_seed.h:1657: bloc ==> block
data/bowtie2-2.4.2/aligner_seed2.cpp:657: guarnteed ==> guaranteed
data/bowtie2-2.4.2/aligner_seed2.cpp:1142: finsihed ==> finished
data/bowtie2-2.4.2/aligner_seed2.cpp:1251: bloc ==> block
data/bowtie2-2.4.2/aligner_seed2.cpp:1257: bloc ==> block
data/bowtie2-2.4.2/aligner_seed2.cpp:1270: bloc ==> block
data/bowtie2-2.4.2/aligner_seed2.cpp:1273: bloc ==> block
data/bowtie2-2.4.2/aligner_seed2.cpp:1274: bloc ==> block
data/bowtie2-2.4.2/aligner_seed2.cpp:1281: bloc ==> block
data/bowtie2-2.4.2/aligner_seed2.cpp:1284: bloc ==> block
data/bowtie2-2.4.2/aligner_seed2.cpp:1285: bloc ==> block
data/bowtie2-2.4.2/aligner_seed2.cpp:1289: bloc ==> block
data/bowtie2-2.4.2/aligner_seed2.cpp:1290: bloc ==> block
data/bowtie2-2.4.2/aligner_seed2.cpp:1309: ot ==> to, of, or
data/bowtie2-2.4.2/aligner_seed2.cpp:1348: bloc ==> block
data/bowtie2-2.4.2/aligner_seed2.cpp:1598: bloc ==> block
data/bowtie2-2.4.2/aligner_seed2.cpp:1600: bloc ==> block
data/bowtie2-2.4.2/aligner_seed2.cpp:1601: bloc ==> block
data/bowtie2-2.4.2/aligner_seed2.cpp:1612: bloc ==> block
data/bowtie2-2.4.2/aligner_seed2.cpp:1613: bloc ==> block
data/bowtie2-2.4.2/aligner_seed2.cpp:1621: bloc ==> block
data/bowtie2-2.4.2/aligner_seed2.cpp:1630: bloc ==> block
data/bowtie2-2.4.2/aligner_seed2.cpp:1631: bloc ==> block
data/bowtie2-2.4.2/aligner_seed2.cpp:1638: bloc ==> block
data/bowtie2-2.4.2/aligner_seed2.cpp:1656: bloc ==> block
data/bowtie2-2.4.2/aligner_seed2.cpp:1765: bloc ==> block
data/bowtie2-2.4.2/aligner_seed2.h:123: extened ==> extended
data/bowtie2-2.4.2/aligner_seed2.h:1014: potental ==> potential
data/bowtie2-2.4.2/aligner_seed2.h:1088: aligments ==> alignments
data/bowtie2-2.4.2/aligner_seed2.h:1318: bloc ==> block
data/bowtie2-2.4.2/aligner_seed2.h:1324: bloc ==> block
data/bowtie2-2.4.2/aligner_seed_policy.cpp:89: contriubtes ==> contributes
data/bowtie2-2.4.2/aligner_seed_policy.cpp:97: penalities ==> penalties
data/bowtie2-2.4.2/aligner_seed_policy.cpp:111: penalities ==> penalties
data/bowtie2-2.4.2/aligner_seed_policy.cpp:194: sqaure ==> square
data/bowtie2-2.4.2/aligner_seed_policy.cpp:626: sqaure ==> square
data/bowtie2-2.4.2/aligner_seed_policy.h:56: contriubtes ==> contributes
data/bowtie2-2.4.2/aligner_seed_policy.h:64: penalities ==> penalties
data/bowtie2-2.4.2/aligner_seed_policy.h:78: penalities ==> penalties
data/bowtie2-2.4.2/aligner_seed_policy.h:152: sqaure ==> square
data/bowtie2-2.4.2/aligner_sw.cpp:147: referece ==> reference
data/bowtie2-2.4.2/aligner_sw.cpp:168: upto ==> up to
data/bowtie2-2.4.2/aligner_sw.cpp:248: refence ==> reference
data/bowtie2-2.4.2/aligner_sw.cpp:249: upto ==> up to
data/bowtie2-2.4.2/aligner_sw.cpp:275: referece ==> reference
data/bowtie2-2.4.2/aligner_sw.cpp:389: refence ==> reference
data/bowtie2-2.4.2/aligner_sw.cpp:435: ned ==> need
data/bowtie2-2.4.2/aligner_sw.cpp:435: ned ==> need
data/bowtie2-2.4.2/aligner_sw.cpp:446: ned ==> need
data/bowtie2-2.4.2/aligner_sw.cpp:453: ned ==> need
data/bowtie2-2.4.2/aligner_sw.cpp:454: ned ==> need
data/bowtie2-2.4.2/aligner_sw.cpp:455: ned ==> need
data/bowtie2-2.4.2/aligner_sw.cpp:475: ned ==> need
data/bowtie2-2.4.2/aligner_sw.cpp:480: ned ==> need
data/bowtie2-2.4.2/aligner_sw.cpp:778: becuase ==> because
data/bowtie2-2.4.2/aligner_sw.cpp:787: becuase ==> because
data/bowtie2-2.4.2/aligner_sw.cpp:1520: penalities ==> penalties
data/bowtie2-2.4.2/aligner_sw.cpp:1543: penalities ==> penalties
data/bowtie2-2.4.2/aligner_sw.cpp:1615: ned ==> need
data/bowtie2-2.4.2/aligner_sw.cpp:1773: ned ==> need
data/bowtie2-2.4.2/aligner_sw.cpp:2779: penalities ==> penalties
data/bowtie2-2.4.2/aligner_sw.cpp:2839: ned ==> need
data/bowtie2-2.4.2/aligner_sw.cpp:2879: ned ==> need
data/bowtie2-2.4.2/aligner_sw.cpp:2912: ned ==> need
data/bowtie2-2.4.2/aligner_sw.cpp:2947: ned ==> need
data/bowtie2-2.4.2/aligner_sw.cpp:2982: ned ==> need
data/bowtie2-2.4.2/aligner_sw.cpp:3018: ned ==> need
data/bowtie2-2.4.2/aligner_sw.cpp:3084: ned ==> need
data/bowtie2-2.4.2/aligner_sw.cpp:3196: penalities ==> penalties
data/bowtie2-2.4.2/aligner_sw.h:271: referece ==> reference
data/bowtie2-2.4.2/aligner_sw.h:295: upto ==> up to
data/bowtie2-2.4.2/aligner_sw.h:300: referece ==> reference
data/bowtie2-2.4.2/aligner_sw_common.h:32: alginment ==> alignment
data/bowtie2-2.4.2/aligner_sw_driver.cpp:316: bloc ==> block
data/bowtie2-2.4.2/aligner_sw_driver.cpp:348: bloc ==> block
data/bowtie2-2.4.2/aligner_sw_driver.cpp:349: bloc ==> block
data/bowtie2-2.4.2/aligner_sw_driver.cpp:361: bloc ==> block
data/bowtie2-2.4.2/aligner_sw_driver.cpp:365: bloc ==> block
data/bowtie2-2.4.2/aligner_sw_driver.cpp:397: bloc ==> block
data/bowtie2-2.4.2/aligner_sw_driver.cpp:414: bloc ==> block
data/bowtie2-2.4.2/aligner_sw_driver.cpp:426: bloc ==> block
data/bowtie2-2.4.2/aligner_sw_driver.cpp:430: bloc ==> block
data/bowtie2-2.4.2/aligner_sw_driver.cpp:462: bloc ==> block
data/bowtie2-2.4.2/aligner_sw_driver.cpp:807: intialize ==> initialize
data/bowtie2-2.4.2/aligner_sw_driver.cpp:894: ther ==> there, their, the, other
data/bowtie2-2.4.2/aligner_sw_driver.cpp:1025: ned ==> need
data/bowtie2-2.4.2/aligner_sw_driver.cpp:1487: intialize ==> initialize
data/bowtie2-2.4.2/aligner_sw_driver.cpp:1583: ther ==> there, their, the, other
data/bowtie2-2.4.2/aligner_sw_driver.cpp:1731: ned ==> need
data/bowtie2-2.4.2/aligner_sw_driver.cpp:1937: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/aligner_sw_driver.cpp:2003: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/aligner_sw_driver.cpp:2013: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/aligner_sw_driver.cpp:2039: initilize ==> initialize
data/bowtie2-2.4.2/aligner_sw_driver.h:188: Initialze ==> Initialize
data/bowtie2-2.4.2/aligner_sw_nuc.h:182: fo ==> of, for
data/bowtie2-2.4.2/aligner_swsse.cpp:27: accomodate ==> accommodate
data/bowtie2-2.4.2/aligner_swsse.h:192: accomodate ==> accommodate
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:354: implmentation ==> implementation
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:820: implmentation ==> implementation
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1345: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1345: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1346: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1440: terimnate ==> terminate
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1498: terimnate ==> terminate
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1582: terimnate ==> terminate
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1592: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1601: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1637: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1669: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1669: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1670: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1698: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1698: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1699: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1708: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1723: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1723: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1724: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1733: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1747: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1747: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1748: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1757: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1771: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1771: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1772: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1781: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1833: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1833: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1834: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1850: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1856: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1878: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1882: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1883: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1891: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_i16.cpp:1897: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:357: implmentation ==> implementation
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:820: implmentation ==> implementation
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1330: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1330: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1331: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1426: terimnate ==> terminate
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1484: terimnate ==> terminate
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1568: terimnate ==> terminate
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1579: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1588: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1625: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1657: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1657: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1658: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1686: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1686: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1687: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1696: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1711: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1711: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1712: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1721: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1735: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1735: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1736: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1745: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1759: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1759: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1760: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1769: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1825: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1825: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1826: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1842: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1848: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1870: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1874: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1875: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1883: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_ee_u8.cpp:1889: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:356: implmentation ==> implementation
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:996: implmentation ==> implementation
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:1693: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:1693: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:1694: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:1794: terimnate ==> terminate
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:1855: terimnate ==> terminate
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:1939: terimnate ==> terminate
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:1956: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:1965: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:2001: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:2033: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:2033: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:2034: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:2062: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:2062: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:2063: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:2072: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:2087: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:2087: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:2088: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:2097: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:2111: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:2111: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:2112: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:2121: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:2135: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:2135: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:2136: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:2145: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:2199: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:2199: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:2200: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:2216: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:2222: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:2244: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:2248: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:2249: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:2257: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_i16.cpp:2263: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:369: implmentation ==> implementation
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:1005: implmentation ==> implementation
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:1702: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:1702: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:1703: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:1797: terimnate ==> terminate
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:1855: terimnate ==> terminate
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:1939: terimnate ==> terminate
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:1949: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:1958: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:1994: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:2026: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:2026: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:2027: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:2055: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:2055: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:2056: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:2065: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:2080: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:2080: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:2081: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:2090: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:2104: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:2104: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:2105: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:2114: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:2128: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:2128: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:2129: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:2138: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:2192: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:2192: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:2193: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:2209: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:2215: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:2237: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:2241: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:2242: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:2250: ned ==> need
data/bowtie2-2.4.2/aligner_swsse_loc_u8.cpp:2256: ned ==> need
data/bowtie2-2.4.2/aln_sink.cpp:263: non-existant ==> non-existent
data/bowtie2-2.4.2/aln_sink.h:916: aligments ==> alignments
data/bowtie2-2.4.2/bt2_dp.cpp:106: upto ==> up to
data/bowtie2-2.4.2/bt2_idx.cpp:206: bloc ==> block
data/bowtie2-2.4.2/bt2_idx.cpp:233: bloc ==> block
data/bowtie2-2.4.2/bt2_idx.cpp:240: bloc ==> block
data/bowtie2-2.4.2/bt2_idx.cpp:244: bloc ==> block
data/bowtie2-2.4.2/bt2_idx.cpp:258: bloc ==> block
data/bowtie2-2.4.2/bt2_idx.h:999: Succesfully ==> Successfully
data/bowtie2-2.4.2/bt2_idx.h:1832: occurences ==> occurrences
data/bowtie2-2.4.2/bt2_idx.h:1836: occurences ==> occurrences
data/bowtie2-2.4.2/bt2_idx.h:1934: occurences ==> occurrences
data/bowtie2-2.4.2/bt2_idx.h:1942: occurences ==> occurrences
data/bowtie2-2.4.2/bt2_idx.h:2483: auxilliary ==> auxiliary
data/bowtie2-2.4.2/bt2_idx.h:2512: auxilliary ==> auxiliary
data/bowtie2-2.4.2/bt2_idx.h:2561: auxilliary ==> auxiliary
data/bowtie2-2.4.2/dp_framer.cpp:463: calcualted ==> calculated
data/bowtie2-2.4.2/ds.h:392: allocat ==> allocate
data/bowtie2-2.4.2/ds.h:501: intialization ==> initialization
data/bowtie2-2.4.2/ds.h:510: intialization ==> initialization
data/bowtie2-2.4.2/ds.h:521: intialization ==> initialization
data/bowtie2-2.4.2/ds.h:1143: intialization ==> initialization
data/bowtie2-2.4.2/ds.h:1485: intialization ==> initialization
data/bowtie2-2.4.2/ds.h:2172: intialization ==> initialization
data/bowtie2-2.4.2/ds.h:2884: accomodate ==> accommodate
data/bowtie2-2.4.2/group_walk.h:532: refernce ==> reference
data/bowtie2-2.4.2/group_walk.h:704: bloc ==> block
data/bowtie2-2.4.2/group_walk.h:706: bloc ==> block
data/bowtie2-2.4.2/group_walk.h:706: bloc ==> block
data/bowtie2-2.4.2/group_walk.h:710: bloc ==> block
data/bowtie2-2.4.2/group_walk.h:726: bloc ==> block
data/bowtie2-2.4.2/group_walk.h:726: bloc ==> block
data/bowtie2-2.4.2/group_walk.h:885: bloc ==> block
data/bowtie2-2.4.2/group_walk.h:888: upto ==> up to
data/bowtie2-2.4.2/group_walk.h:889: upto ==> up to
data/bowtie2-2.4.2/group_walk.h:889: upto ==> up to
data/bowtie2-2.4.2/group_walk.h:890: upto ==> up to
data/bowtie2-2.4.2/group_walk.h:890: upto ==> up to
data/bowtie2-2.4.2/group_walk.h:891: bloc ==> block
data/bowtie2-2.4.2/group_walk.h:897: bloc ==> block
data/bowtie2-2.4.2/group_walk.h:897: upto ==> up to
data/bowtie2-2.4.2/group_walk.h:913: upto ==> up to
data/bowtie2-2.4.2/group_walk.h:945: upto ==> up to
data/bowtie2-2.4.2/group_walk.h:1034: bloc ==> block
data/bowtie2-2.4.2/group_walk.h:1072: bloc ==> block
data/bowtie2-2.4.2/multikey_qsort.h:246: paritioning ==> partitioning
data/bowtie2-2.4.2/multikey_qsort.h:285: paritioning ==> partitioning
data/bowtie2-2.4.2/multikey_qsort.h:327: thare ==> there
data/bowtie2-2.4.2/multikey_qsort.h:346: upto ==> up to
data/bowtie2-2.4.2/multikey_qsort.h:357: upto ==> up to
data/bowtie2-2.4.2/multikey_qsort.h:360: upto ==> up to
data/bowtie2-2.4.2/multikey_qsort.h:386: upto ==> up to
data/bowtie2-2.4.2/multikey_qsort.h:402: upto ==> up to
data/bowtie2-2.4.2/multikey_qsort.h:408: upto ==> up to
data/bowtie2-2.4.2/multikey_qsort.h:409: upto ==> up to
data/bowtie2-2.4.2/multikey_qsort.h:490: upto ==> up to
data/bowtie2-2.4.2/multikey_qsort.h:495: upto ==> up to
data/bowtie2-2.4.2/multikey_qsort.h:496: upto ==> up to
data/bowtie2-2.4.2/multikey_qsort.h:515: upto ==> up to
data/bowtie2-2.4.2/multikey_qsort.h:538: upto ==> up to
data/bowtie2-2.4.2/multikey_qsort.h:642: upto ==> up to
data/bowtie2-2.4.2/multikey_qsort.h:652: upto ==> up to
data/bowtie2-2.4.2/multikey_qsort.h:654: upto ==> up to
data/bowtie2-2.4.2/multikey_qsort.h:1123: upto ==> up to
data/bowtie2-2.4.2/pat.cpp:1627: incase ==> in case
data/bowtie2-2.4.2/pat.cpp:1882: upto ==> up to
data/bowtie2-2.4.2/pat.cpp:1884: upto ==> up to
data/bowtie2-2.4.2/pat.cpp:1885: upto ==> up to
data/bowtie2-2.4.2/pat.h:99: upto ==> up to
data/bowtie2-2.4.2/pat.h:119: upto ==> up to
data/bowtie2-2.4.2/pe.cpp:48: accomodate ==> accommodate
data/bowtie2-2.4.2/pe.cpp:143: cosntraint ==> constraint
data/bowtie2-2.4.2/pe.cpp:171: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/pe.cpp:191: accomodate ==> accommodate
data/bowtie2-2.4.2/pe.cpp:243: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/pe.cpp:245: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/pe.cpp:247: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/pe.cpp:249: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/pe.cpp:256: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/pe.cpp:264: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/pe.cpp:271: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/pe.cpp:274: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/pe.cpp:277: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/pe.cpp:319: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/pe.cpp:321: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/pe.cpp:326: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/pe.cpp:326: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/pe.cpp:327: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/pe.cpp:327: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/pe.cpp:328: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/pe.cpp:330: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/pe.cpp:335: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/pe.cpp:335: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/pe.cpp:336: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/pe.cpp:342: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/pe.cpp:342: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/pe.cpp:343: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/pe.cpp:346: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/pe.cpp:349: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/pe.cpp:437: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/pe.cpp:449: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/pe.cpp:457: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/pe.cpp:514: wheter ==> whether
data/bowtie2-2.4.2/pe.cpp:570: wheter ==> whether
data/bowtie2-2.4.2/pe.cpp:608: wheter ==> whether
data/bowtie2-2.4.2/pe.cpp:642: wheter ==> whether
data/bowtie2-2.4.2/pe.cpp:668: wheter ==> whether
data/bowtie2-2.4.2/pe.cpp:694: wheter ==> whether
data/bowtie2-2.4.2/pe.cpp:720: wheter ==> whether
data/bowtie2-2.4.2/pe.h:249: oll ==> all, ole, old, olly, oil
data/bowtie2-2.4.2/read_qseq.cpp:25: upto ==> up to
data/bowtie2-2.4.2/read_qseq.cpp:32: upto ==> up to
data/bowtie2-2.4.2/read_qseq.cpp:39: upto ==> up to
data/bowtie2-2.4.2/ref_read.h:285: referenece ==> reference
data/bowtie2-2.4.2/reference.cpp:595: parms ==> params, prams
data/bowtie2-2.4.2/reference.cpp:614: parms ==> params, prams
data/bowtie2-2.4.2/reference.cpp:616: parms ==> params, prams
data/bowtie2-2.4.2/reference.cpp:621: parms ==> params, prams
data/bowtie2-2.4.2/reference.cpp:622: parms ==> params, prams
data/bowtie2-2.4.2/reference.cpp:631: parms ==> params, prams
data/bowtie2-2.4.2/reference.cpp:636: parms ==> params, prams
data/bowtie2-2.4.2/reference.cpp:652: parms ==> params, prams
data/bowtie2-2.4.2/reference.cpp:654: parms ==> params, prams
data/bowtie2-2.4.2/reference.cpp:655: parms ==> params, prams
data/bowtie2-2.4.2/reference.cpp:659: parms ==> params, prams
data/bowtie2-2.4.2/reference.cpp:663: parms ==> params, prams
data/bowtie2-2.4.2/sam.cpp:161: referenece ==> reference
data/bowtie2-2.4.2/sam.cpp:176: ned ==> need
data/bowtie2-2.4.2/sam.cpp:177: ned ==> need
data/bowtie2-2.4.2/sam.cpp:179: ned ==> need
data/bowtie2-2.4.2/sam.cpp:182: ned ==> need
data/bowtie2-2.4.2/sam.cpp:183: ned ==> need
data/bowtie2-2.4.2/sam.cpp:183: ned ==> need
data/bowtie2-2.4.2/sam.cpp:184: ned ==> need
data/bowtie2-2.4.2/sam.cpp:189: ned ==> need
data/bowtie2-2.4.2/sam.cpp:192: ned ==> need
data/bowtie2-2.4.2/sam.cpp:193: ned ==> need
data/bowtie2-2.4.2/sam.cpp:193: ned ==> need
data/bowtie2-2.4.2/sam.cpp:194: ned ==> need
data/bowtie2-2.4.2/sam.cpp:224: ned ==> need
data/bowtie2-2.4.2/sam.cpp:438: succesful ==> successful
data/bowtie2-2.4.2/sam.cpp:443: succesful ==> successful
data/bowtie2-2.4.2/sam.cpp:791: succesful ==> successful
data/bowtie2-2.4.2/sam.cpp:796: succesful ==> successful
data/bowtie2-2.4.2/sam.h:368: referenece ==> reference
data/bowtie2-2.4.2/scoring.h:319: penalities ==> penalties
data/bowtie2-2.4.2/shmem.h:82: Deleteing ==> Deleting
data/bowtie2-2.4.2/shmem.h:120: Deleteing ==> Deleting
data/bowtie2-2.4.2/sstring.h:110: upto ==> up to
data/bowtie2-2.4.2/sstring.h:116: upto ==> up to
data/bowtie2-2.4.2/sstring.h:123: upto ==> up to
data/bowtie2-2.4.2/sstring.h:123: upto ==> up to
data/bowtie2-2.4.2/sstring.h:124: upto ==> up to
data/bowtie2-2.4.2/sstring.h:124: upto ==> up to
data/bowtie2-2.4.2/sstring.h:136: upto ==> up to
data/bowtie2-2.4.2/sstring.h:142: upto ==> up to
data/bowtie2-2.4.2/sstring.h:145: upto ==> up to
data/bowtie2-2.4.2/sstring.h:220: upto ==> up to
data/bowtie2-2.4.2/sstring.h:226: upto ==> up to
data/bowtie2-2.4.2/sstring.h:233: upto ==> up to
data/bowtie2-2.4.2/sstring.h:233: upto ==> up to
data/bowtie2-2.4.2/sstring.h:234: upto ==> up to
data/bowtie2-2.4.2/sstring.h:234: upto ==> up to
data/bowtie2-2.4.2/bt2_search.cpp:101: maching ==> machine, marching, matching
data/bowtie2-2.4.2/bt2_search.cpp:230: cacheing ==> caching
data/bowtie2-2.4.2/bt2_search.cpp:231: cacheing ==> caching
data/bowtie2-2.4.2/bt2_search.cpp:232: cacheing ==> caching
data/bowtie2-2.4.2/bt2_search.cpp:301: maching ==> machine, marching, matching
data/bowtie2-2.4.2/bt2_search.cpp:431: cacheing ==> caching
data/bowtie2-2.4.2/bt2_search.cpp:432: cacheing ==> caching
data/bowtie2-2.4.2/bt2_search.cpp:433: cacheing ==> caching
data/bowtie2-2.4.2/bt2_search.cpp:505: upto ==> up to
data/bowtie2-2.4.2/bt2_search.cpp:2437: succesful ==> successful
data/bowtie2-2.4.2/bt2_search.cpp:2500: succesful ==> successful
data/bowtie2-2.4.2/bt2_search.cpp:2563: succesful ==> successful
data/bowtie2-2.4.2/bt2_search.cpp:2626: succesful ==> successful
data/bowtie2-2.4.2/bt2_search.cpp:3321: Calcualte ==> Calculate
data/bowtie2-2.4.2/bt2_search.cpp:4383: Calcualte ==> Calculate
data/bowtie2-2.4.2/blockwise_sa.h:1132: iten ==> item
data/bowtie2-2.4.2/blockwise_sa.h:1132: iten ==> item
data/bowtie2-2.4.2/blockwise_sa.h:1132: iten ==> item
data/bowtie2-2.4.2/blockwise_sa.h:1133: iten ==> item
data/bowtie2-2.4.2/blockwise_sa.h:1138: iten ==> item
data/bowtie2-2.4.2/diff_sample.h:265: ist ==> is, it, its, it's, sit, list
data/bowtie2-2.4.2/bt2_build.cpp:76: multplier ==> multiplier
data/bowtie2-2.4.2/doc/website/old_news.ssi:94: lenght ==> length
data/bowtie2-2.4.2/doc/website/old_news.ssi:95: lenght ==> length
data/bowtie2-2.4.2/doc/website/old_news.ssi:103: formating ==> formatting
data/bowtie2-2.4.2/doc/website/old_news.ssi:172: paramteres ==> parameters
data/bowtie2-2.4.2/doc/website/recent_news.ssi:58: misinterpretted ==> misinterpreted
data/bowtie2-2.4.2/example/reads/longreads.fq:28: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:268: DED ==> DEAD
data/bowtie2-2.4.2/example/reads/longreads.fq:400: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:412: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:432: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:988: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:1064: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:1092: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:1168: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:1336: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:1368: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:1416: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:1464: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:1512: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:1720: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:1760: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:1944: EDE ==> EDGE
data/bowtie2-2.4.2/example/reads/longreads.fq:1976: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:1976: HDA ==> HAD
data/bowtie2-2.4.2/example/reads/longreads.fq:2264: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:2312: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:2328: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:2368: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:2476: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:2604: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:2608: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:2732: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:2912: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:2916: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:2924: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:3096: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:3100: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:3112: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:3328: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:3348: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:3404: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:3512: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:3628: EGE ==> EDGE
data/bowtie2-2.4.2/example/reads/longreads.fq:3680: HGE ==> HE
data/bowtie2-2.4.2/example/reads/longreads.fq:3772: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:3800: EGE ==> EDGE
data/bowtie2-2.4.2/example/reads/longreads.fq:3828: EGE ==> EDGE
data/bowtie2-2.4.2/example/reads/longreads.fq:3836: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:3844: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:3856: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:3888: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:4004: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:4016: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:4120: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:4188: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:4328: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:4348: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:4420: ADDD ==> ADD
data/bowtie2-2.4.2/example/reads/longreads.fq:4456: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:4512: EDE ==> EDGE
data/bowtie2-2.4.2/example/reads/longreads.fq:4576: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:4656: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:5172: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:5180: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:5236: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:5292: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:5408: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:5500: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:5504: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:5524: HGE ==> HE
data/bowtie2-2.4.2/example/reads/longreads.fq:5544: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:5604: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:5648: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:5672: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:5672: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:5700: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:5768: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:5828: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:5988: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:6204: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:6220: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:6360: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:6584: HGE ==> HE
data/bowtie2-2.4.2/example/reads/longreads.fq:6624: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:6628: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:6732: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:6748: AFE ==> SAFE
data/bowtie2-2.4.2/example/reads/longreads.fq:6780: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:6832: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:6900: DED ==> DEAD
data/bowtie2-2.4.2/example/reads/longreads.fq:6908: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:6980: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:7088: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:7100: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:7336: AFE ==> SAFE
data/bowtie2-2.4.2/example/reads/longreads.fq:7380: AFE ==> SAFE
data/bowtie2-2.4.2/example/reads/longreads.fq:7392: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:7404: EDE ==> EDGE
data/bowtie2-2.4.2/example/reads/longreads.fq:7420: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:7456: AFE ==> SAFE
data/bowtie2-2.4.2/example/reads/longreads.fq:7552: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:7636: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:7668: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:7720: AFE ==> SAFE
data/bowtie2-2.4.2/example/reads/longreads.fq:7756: EDE ==> EDGE
data/bowtie2-2.4.2/example/reads/longreads.fq:7800: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:7892: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:7952: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:7988: EDE ==> EDGE
data/bowtie2-2.4.2/example/reads/longreads.fq:8088: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:8116: EDE ==> EDGE
data/bowtie2-2.4.2/example/reads/longreads.fq:8164: EDE ==> EDGE
data/bowtie2-2.4.2/example/reads/longreads.fq:8176: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:8208: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:8312: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:8324: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:8324: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:8428: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:8608: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:8756: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:8776: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:8876: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:9156: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:9424: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:9440: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:9456: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:9460: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:9496: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:9532: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:9612: EDE ==> EDGE
data/bowtie2-2.4.2/example/reads/longreads.fq:9704: EDE ==> EDGE
data/bowtie2-2.4.2/example/reads/longreads.fq:9712: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:9780: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:9784: EGE ==> EDGE
data/bowtie2-2.4.2/example/reads/longreads.fq:9880: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:9924: EDE ==> EDGE
data/bowtie2-2.4.2/example/reads/longreads.fq:10140: EGE ==> EDGE
data/bowtie2-2.4.2/example/reads/longreads.fq:10152: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:10156: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:10204: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:10288: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:10424: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:10720: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:10868: EGE ==> EDGE
data/bowtie2-2.4.2/example/reads/longreads.fq:10956: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:10964: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:11100: HDA ==> HAD
data/bowtie2-2.4.2/example/reads/longreads.fq:11208: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:11232: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:11396: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:11480: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:11496: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:11520: EDE ==> EDGE
data/bowtie2-2.4.2/example/reads/longreads.fq:11564: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:11596: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:11676: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:11868: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:11868: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:11964: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:12004: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:12072: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:12144: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:12400: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:12520: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:12628: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:12712: HDA ==> HAD
data/bowtie2-2.4.2/example/reads/longreads.fq:12776: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:12832: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:12868: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:12940: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:12952: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:13048: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:13068: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:13132: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:13144: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:13212: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:13212: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:13304: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:13352: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:13376: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:13620: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:13676: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:13752: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:13836: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:13956: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:14004: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:14120: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:14172: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:14264: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:14332: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:14372: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:14560: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:14604: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:14616: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:14740: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:15140: DED ==> DEAD
data/bowtie2-2.4.2/example/reads/longreads.fq:15240: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:15356: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:15444: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:15524: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:15556: HDA ==> HAD
data/bowtie2-2.4.2/example/reads/longreads.fq:15592: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:15664: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:15728: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:15728: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:15844: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:15880: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:15920: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:15936: HDA ==> HAD
data/bowtie2-2.4.2/example/reads/longreads.fq:15980: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:16004: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:16084: CAHE ==> CACHE
data/bowtie2-2.4.2/example/reads/longreads.fq:16128: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:16248: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:16280: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:16304: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:16484: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:16496: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:16604: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:16620: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:16708: DED ==> DEAD
data/bowtie2-2.4.2/example/reads/longreads.fq:16724: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:16820: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:16856: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:16896: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:16908: AFE ==> SAFE
data/bowtie2-2.4.2/example/reads/longreads.fq:17216: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:17232: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:17300: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:17316: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:17328: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:17392: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:17500: DAA ==> DATA
data/bowtie2-2.4.2/example/reads/longreads.fq:17528: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:17544: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:17740: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:17776: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:17784: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:17932: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:18032: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:18040: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:18056: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:18160: HDA ==> HAD
data/bowtie2-2.4.2/example/reads/longreads.fq:18164: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:18176: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:18232: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:18252: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:18356: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:18624: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:18652: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:18824: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:18980: DAA ==> DATA
data/bowtie2-2.4.2/example/reads/longreads.fq:19148: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:19204: HAA ==> HAS
data/bowtie2-2.4.2/example/reads/longreads.fq:19240: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:19252: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:19388: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:19468: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:19484: EGE ==> EDGE
data/bowtie2-2.4.2/example/reads/longreads.fq:19552: EDE ==> EDGE
data/bowtie2-2.4.2/example/reads/longreads.fq:19684: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:19820: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:19980: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:20016: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:20088: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:20172: DED ==> DEAD
data/bowtie2-2.4.2/example/reads/longreads.fq:20220: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:20324: HGE ==> HE
data/bowtie2-2.4.2/example/reads/longreads.fq:20376: HAA ==> HAS
data/bowtie2-2.4.2/example/reads/longreads.fq:20424: HDA ==> HAD
data/bowtie2-2.4.2/example/reads/longreads.fq:20492: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:20640: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:20740: HGE ==> HE
data/bowtie2-2.4.2/example/reads/longreads.fq:20864: HGE ==> HE
data/bowtie2-2.4.2/example/reads/longreads.fq:20976: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:21064: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:21088: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:21120: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:21308: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:21440: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:21656: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:21676: AFE ==> SAFE
data/bowtie2-2.4.2/example/reads/longreads.fq:21708: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:21708: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:21828: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:21836: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:22004: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:22040: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:22196: EGE ==> EDGE
data/bowtie2-2.4.2/example/reads/longreads.fq:22244: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:22264: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:22412: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:22480: EDE ==> EDGE
data/bowtie2-2.4.2/example/reads/longreads.fq:22492: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:22564: EGE ==> EDGE
data/bowtie2-2.4.2/example/reads/longreads.fq:22652: HGE ==> HE
data/bowtie2-2.4.2/example/reads/longreads.fq:22696: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:22804: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:22816: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:22996: DED ==> DEAD
data/bowtie2-2.4.2/example/reads/longreads.fq:23136: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:23432: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:23456: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:23476: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:23524: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:23576: DAA ==> DATA
data/bowtie2-2.4.2/example/reads/longreads.fq:23596: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:23612: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/longreads.fq:23656: DAA ==> DATA
data/bowtie2-2.4.2/example/reads/longreads.fq:23804: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:28: HAA ==> HAS
data/bowtie2-2.4.2/example/reads/reads_1.fq:256: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:864: DAA ==> DATA
data/bowtie2-2.4.2/example/reads/reads_1.fq:1008: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:1024: DAA ==> DATA
data/bowtie2-2.4.2/example/reads/reads_1.fq:1072: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:1152: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:1364: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:1840: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:2024: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:2608: HAA ==> HAS
data/bowtie2-2.4.2/example/reads/reads_1.fq:2820: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:2836: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:3268: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:3464: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:3560: HDA ==> HAD
data/bowtie2-2.4.2/example/reads/reads_1.fq:3936: EDE ==> EDGE
data/bowtie2-2.4.2/example/reads/reads_1.fq:4264: HAA ==> HAS
data/bowtie2-2.4.2/example/reads/reads_1.fq:4976: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:5084: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:5824: HDA ==> HAD
data/bowtie2-2.4.2/example/reads/reads_1.fq:5832: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:6004: AFE ==> SAFE
data/bowtie2-2.4.2/example/reads/reads_1.fq:6352: EDE ==> EDGE
data/bowtie2-2.4.2/example/reads/reads_1.fq:6384: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:6516: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:7056: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:7132: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:7296: HAA ==> HAS
data/bowtie2-2.4.2/example/reads/reads_1.fq:7548: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:7608: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:7664: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:8072: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:8120: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:8200: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:8432: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:8440: HGE ==> HE
data/bowtie2-2.4.2/example/reads/reads_1.fq:8740: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:9240: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:9448: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:9448: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:9540: EGE ==> EDGE
data/bowtie2-2.4.2/example/reads/reads_1.fq:9636: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:9912: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:10096: EGE ==> EDGE
data/bowtie2-2.4.2/example/reads/reads_1.fq:10188: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:10576: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:10728: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:11420: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:11668: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:11736: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:11892: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:11896: HAA ==> HAS
data/bowtie2-2.4.2/example/reads/reads_1.fq:12372: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:13196: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:13200: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:13780: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:14180: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:14296: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:14996: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:15140: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:15400: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:15500: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:15752: AFE ==> SAFE
data/bowtie2-2.4.2/example/reads/reads_1.fq:16104: HGE ==> HE
data/bowtie2-2.4.2/example/reads/reads_1.fq:16124: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:16204: DED ==> DEAD
data/bowtie2-2.4.2/example/reads/reads_1.fq:16356: EGE ==> EDGE
data/bowtie2-2.4.2/example/reads/reads_1.fq:16504: EDE ==> EDGE
data/bowtie2-2.4.2/example/reads/reads_1.fq:16664: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:16892: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:17120: HGE ==> HE
data/bowtie2-2.4.2/example/reads/reads_1.fq:17128: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:17344: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:17440: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:17640: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:17852: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:17884: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:17928: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:18768: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:19324: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:19760: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:20024: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:20040: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:20160: AFE ==> SAFE
data/bowtie2-2.4.2/example/reads/reads_1.fq:20188: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:20352: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:20480: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:20636: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:20804: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:21104: AADD ==> ADD
data/bowtie2-2.4.2/example/reads/reads_1.fq:21164: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:21176: DAA ==> DATA
data/bowtie2-2.4.2/example/reads/reads_1.fq:21976: DAA ==> DATA
data/bowtie2-2.4.2/example/reads/reads_1.fq:22440: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:22516: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:22592: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:23068: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:23208: HAA ==> HAS
data/bowtie2-2.4.2/example/reads/reads_1.fq:23512: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:24224: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:24528: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:24988: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:24988: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:25628: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:25928: HGE ==> HE
data/bowtie2-2.4.2/example/reads/reads_1.fq:26144: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:26344: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:26456: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:26476: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:26948: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:27308: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:27772: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:27880: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:28040: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:28396: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:28724: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:28764: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:29156: DED ==> DEAD
data/bowtie2-2.4.2/example/reads/reads_1.fq:29428: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:29700: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:29944: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:30288: EDE ==> EDGE
data/bowtie2-2.4.2/example/reads/reads_1.fq:30432: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:30612: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:30644: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:30764: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:30844: EDE ==> EDGE
data/bowtie2-2.4.2/example/reads/reads_1.fq:31404: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:31404: HDA ==> HAD
data/bowtie2-2.4.2/example/reads/reads_1.fq:31676: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:31900: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:32064: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:32340: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:32732: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:32820: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:33196: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:33272: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:33356: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:33432: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:33756: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:34120: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:34160: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:34476: HAA ==> HAS
data/bowtie2-2.4.2/example/reads/reads_1.fq:34920: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:35164: HAA ==> HAS
data/bowtie2-2.4.2/example/reads/reads_1.fq:35196: DAA ==> DATA
data/bowtie2-2.4.2/example/reads/reads_1.fq:35440: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:35548: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:35912: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:36008: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:36068: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:36124: CACH ==> CATCH, CACHE
data/bowtie2-2.4.2/example/reads/reads_1.fq:36148: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:36476: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:36732: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:36764: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:36844: AADD ==> ADD
data/bowtie2-2.4.2/example/reads/reads_1.fq:36852: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:37064: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:37988: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:38548: HAA ==> HAS
data/bowtie2-2.4.2/example/reads/reads_1.fq:38800: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:38916: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:39368: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:39452: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:39668: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_1.fq:39812: DED ==> DEAD
data/bowtie2-2.4.2/example/reads/reads_2.fq:252: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:428: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:448: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:900: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:1360: HDA ==> HAD
data/bowtie2-2.4.2/example/reads/reads_2.fq:2144: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:2336: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:2380: EDE ==> EDGE
data/bowtie2-2.4.2/example/reads/reads_2.fq:2428: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:2448: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:2676: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:2940: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:3188: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:3240: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:3392: HAA ==> HAS
data/bowtie2-2.4.2/example/reads/reads_2.fq:3432: HAA ==> HAS
data/bowtie2-2.4.2/example/reads/reads_2.fq:3948: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:4148: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:4160: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:4332: HGE ==> HE
data/bowtie2-2.4.2/example/reads/reads_2.fq:5120: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:5676: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:5828: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:6264: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:7032: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:7092: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:7112: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:7124: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:7140: EGE ==> EDGE
data/bowtie2-2.4.2/example/reads/reads_2.fq:7476: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:7640: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:8428: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:8560: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:8580: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:8668: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:9296: EDE ==> EDGE
data/bowtie2-2.4.2/example/reads/reads_2.fq:9392: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:9724: AFE ==> SAFE
data/bowtie2-2.4.2/example/reads/reads_2.fq:9984: EDE ==> EDGE
data/bowtie2-2.4.2/example/reads/reads_2.fq:10248: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:10868: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:10944: HDA ==> HAD
data/bowtie2-2.4.2/example/reads/reads_2.fq:11064: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:11244: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:11436: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:11940: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:12484: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:13456: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:13460: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:13480: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:13500: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:13588: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:13616: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:13828: EGDE ==> EDGE
data/bowtie2-2.4.2/example/reads/reads_2.fq:14292: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:14336: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:15084: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:15276: AFE ==> SAFE
data/bowtie2-2.4.2/example/reads/reads_2.fq:15400: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:15864: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:16456: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:16524: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:16752: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:17660: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:17732: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:17920: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:18036: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:18064: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:18328: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:18368: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:18368: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:18744: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:18872: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:19060: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:19212: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:19224: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:19368: DAA ==> DATA
data/bowtie2-2.4.2/example/reads/reads_2.fq:20036: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:20216: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:20268: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:20348: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:20828: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:21244: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:21688: DED ==> DEAD
data/bowtie2-2.4.2/example/reads/reads_2.fq:22232: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:22276: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:22528: DED ==> DEAD
data/bowtie2-2.4.2/example/reads/reads_2.fq:22804: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:22856: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:22940: EDE ==> EDGE
data/bowtie2-2.4.2/example/reads/reads_2.fq:23132: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:23168: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:23196: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:23220: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:23420: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:23556: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:23572: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:23572: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:23584: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:24180: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:24212: EGE ==> EDGE
data/bowtie2-2.4.2/example/reads/reads_2.fq:24220: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:24288: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:24532: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:25108: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:25280: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:25424: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:25484: DED ==> DEAD
data/bowtie2-2.4.2/example/reads/reads_2.fq:25732: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:25756: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:25892: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:26648: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:27392: HAA ==> HAS
data/bowtie2-2.4.2/example/reads/reads_2.fq:27496: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:27516: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:27540: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:27544: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:27676: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:27972: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:28548: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:28624: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:29320: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:29508: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:29768: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:30124: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:30560: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:32008: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:32152: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:32832: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:33048: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:33528: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:33580: EDE ==> EDGE
data/bowtie2-2.4.2/example/reads/reads_2.fq:33592: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:33684: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:34400: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:34640: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:34944: EGE ==> EDGE
data/bowtie2-2.4.2/example/reads/reads_2.fq:35068: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:35336: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:35364: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:35532: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:35716: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:35932: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:36296: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:36320: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:36544: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:36560: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:36900: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:36940: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:37540: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:37576: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:37744: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:38052: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:38176: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:38196: HAA ==> HAS
data/bowtie2-2.4.2/example/reads/reads_2.fq:38228: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:38640: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:38764: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:38860: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:38980: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:39180: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:39264: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:39448: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:39560: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:39624: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:39648: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:39652: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:39720: BA ==> BY, BE
data/bowtie2-2.4.2/example/reads/reads_2.fq:39776: BA ==> BY, BE
data/bowtie2-2.4.2/scripts/infer_fraglen.pl:42: upto ==> up to
data/bowtie2-2.4.2/scripts/infer_fraglen.pl:71: upto ==> up to
data/bowtie2-2.4.2/scripts/infer_fraglen.pl:71: upto ==> up to
data/bowtie2-2.4.2/scripts/sim/AlignmentCheck.pm:235: ned ==> need
data/bowtie2-2.4.2/scripts/sim/AlignmentCheck.pm:236: ned ==> need
data/bowtie2-2.4.2/scripts/sim/AlignmentCheck.pm:237: ned ==> need
data/bowtie2-2.4.2/scripts/sim/AlignmentCheck.pm:429: alread ==> already
data/bowtie2-2.4.2/scripts/sim/AlignmentCheck.pm:463: alread ==> already
data/bowtie2-2.4.2/scripts/sim/AlignmentCheck.pm:471: alread ==> already
data/bowtie2-2.4.2/scripts/sim/AlignmentCheck.pm:483: alread ==> already
data/bowtie2-2.4.2/scripts/sim/AlignmentCheck.pm:492: alread ==> already
data/bowtie2-2.4.2/scripts/sim/AlignmentCheck.pm:500: alread ==> already
data/bowtie2-2.4.2/scripts/sim/AlignmentCheck.pm:526: ned ==> need
data/bowtie2-2.4.2/scripts/sim/AlignmentCheck.pm:527: ned ==> need
data/bowtie2-2.4.2/scripts/sim/AlignmentCheck.pm:533: ned ==> need
data/bowtie2-2.4.2/scripts/sim/AlignmentCheck.pm:533: ned ==> need
data/bowtie2-2.4.2/scripts/sim/AlignmentCheck.pm:535: ned ==> need
data/bowtie2-2.4.2/scripts/sim/AlignmentCheck.pm:535: ned ==> need
data/bowtie2-2.4.2/scripts/sim/AlignmentCheck.pm:550: Referemce ==> Reference
data/bowtie2-2.4.2/scripts/sim/AlignmentCheck.pm:551: referemce ==> reference
data/bowtie2-2.4.2/scripts/sim/AlignmentCheck.pm:562: Referemce ==> Reference
data/bowtie2-2.4.2/scripts/sim/AlignmentCheck.pm:563: referemce ==> reference
data/bowtie2-2.4.2/scripts/sim/AlignmentCheck.pm:654: alread ==> already
data/bowtie2-2.4.2/scripts/sim/AlignmentCheck.pm:656: alread ==> already
data/bowtie2-2.4.2/scripts/sim/AlignmentCheck.pm:751: als ==> also
data/bowtie2-2.4.2/scripts/sim/AlignmentCheck.pm:756: als ==> also
data/bowtie2-2.4.2/scripts/sim/AlignmentCheck.pm:766: als ==> also
data/bowtie2-2.4.2/scripts/sim/AlignmentCheck.pm:776: als ==> also
data/bowtie2-2.4.2/scripts/sim/AlignmentCheck.pm:824: als ==> also
data/bowtie2-2.4.2/scripts/sim/AlignmentCheck.pm:834: als ==> also
data/bowtie2-2.4.2/scripts/sim/AlignmentCheck.pm:834: als ==> also
data/bowtie2-2.4.2/scripts/sim/AlignmentCheck.pm:856: als ==> also
data/bowtie2-2.4.2/scripts/sim/Sim.pm:770: sqaure ==> square
data/bowtie2-2.4.2/scripts/sim/Sim.pm:883: als ==> also
data/bowtie2-2.4.2/scripts/sim/Sim.pm:883: als ==> also
data/bowtie2-2.4.2/scripts/sim/Sim.pm:884: als ==> also
data/bowtie2-2.4.2/scripts/sim/Sim.pm:885: als ==> also
data/bowtie2-2.4.2/scripts/sim/Sim.pm:886: reord ==> record
data/bowtie2-2.4.2/scripts/sim/Sim.pm:886: als ==> also
data/bowtie2-2.4.2/scripts/sim/Sim.pm:911: als ==> also
data/bowtie2-2.4.2/scripts/sim/Sim.pm:916: als ==> also
data/bowtie2-2.4.2/scripts/test/simple_tests.pl:4940: formate ==> format
data/bowtie2-2.4.2/scripts/test/benchmark/benchmarks.py:154: formating ==> formatting
data/bowtie2-2.4.2/scripts/test/benchmark/benchmarks.py:167: parm ==> param, pram, parma
data/bowtie2-2.4.2/scripts/test/benchmark/benchmarks.py:168: parm ==> param, pram, parma
data/bowtie2-2.4.2/debian/changelog:219: smoe ==> some
data/bowtie2-2.4.2/debian/changelog:476: availbale ==> available
data/bowtie2-2.4.2/debian/changelog:481: waring ==> warning
data/bowtie2-2.4.2/debian/filter.pl:9: substitude ==> substitute
data/bowtie2-2.4.2/.pc/wrong-interpreter-path.patch/scripts/test/benchmark/benchmarks.py:154: formating ==> formatting
data/bowtie2-2.4.2/.pc/wrong-interpreter-path.patch/scripts/test/benchmark/benchmarks.py:167: parm ==> param, pram, parma
data/bowtie2-2.4.2/.pc/wrong-interpreter-path.patch/scripts/test/benchmark/benchmarks.py:168: parm ==> param, pram, parma
data/bowtie2-2.4.2/.pc/reproducible.patch/bt2_build.cpp:76: multplier ==> multiplier
data/bowtie2-2.4.2/.pc/reproducible.patch/bt2_search.cpp:101: maching ==> machine, marching, matching
data/bowtie2-2.4.2/.pc/reproducible.patch/bt2_search.cpp:230: cacheing ==> caching
data/bowtie2-2.4.2/.pc/reproducible.patch/bt2_search.cpp:231: cacheing ==> caching
data/bowtie2-2.4.2/.pc/reproducible.patch/bt2_search.cpp:232: cacheing ==> caching
data/bowtie2-2.4.2/.pc/reproducible.patch/bt2_search.cpp:301: maching ==> machine, marching, matching
data/bowtie2-2.4.2/.pc/reproducible.patch/bt2_search.cpp:431: cacheing ==> caching
data/bowtie2-2.4.2/.pc/reproducible.patch/bt2_search.cpp:432: cacheing ==> caching
data/bowtie2-2.4.2/.pc/reproducible.patch/bt2_search.cpp:433: cacheing ==> caching
data/bowtie2-2.4.2/.pc/reproducible.patch/bt2_search.cpp:505: upto ==> up to
data/bowtie2-2.4.2/.pc/reproducible.patch/bt2_search.cpp:2437: succesful ==> successful
data/bowtie2-2.4.2/.pc/reproducible.patch/bt2_search.cpp:2500: succesful ==> successful
data/bowtie2-2.4.2/.pc/reproducible.patch/bt2_search.cpp:2563: succesful ==> successful
data/bowtie2-2.4.2/.pc/reproducible.patch/bt2_search.cpp:2626: succesful ==> successful
data/bowtie2-2.4.2/.pc/reproducible.patch/bt2_search.cpp:3321: Calcualte ==> Calculate
data/bowtie2-2.4.2/.pc/reproducible.patch/bt2_search.cpp:4383: Calcualte ==> Calculate
data/bowtie2-2.4.2/.pc/silence_tbb_deprecation_warning.patch/blockwise_sa.h:1133: iten ==> item
data/bowtie2-2.4.2/.pc/silence_tbb_deprecation_warning.patch/blockwise_sa.h:1133: iten ==> item
data/bowtie2-2.4.2/.pc/silence_tbb_deprecation_warning.patch/blockwise_sa.h:1133: iten ==> item
data/bowtie2-2.4.2/.pc/silence_tbb_deprecation_warning.patch/blockwise_sa.h:1134: iten ==> item
data/bowtie2-2.4.2/.pc/silence_tbb_deprecation_warning.patch/blockwise_sa.h:1139: iten ==> item
data/bowtie2-2.4.2/.pc/silence_tbb_deprecation_warning.patch/diff_sample.h:266: ist ==> is, it, its, it's, sit, list
data/bowtie2-2.4.2/.pc/no_sanity/bt2_build.cpp:76: multplier ==> multiplier
data/bowtie2-2.4.2/.pc/no_sanity/scripts/test/simple_tests.pl:4940: formate ==> format