Predicted mutation | |||||||
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evidence | seq id | position | mutation | freq | annotation | gene | description |
RA | CP000730 | 2,610,079:1 | (T)7→8 | 100% | coding (447/795 nt) | USA300HOU_2473 ← | lipoprotein |
Read alignment evidence... | |||||||||||
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seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
* | CP000730 | 2,610,072 | 1 | . | T | 57.4% | 108.4 / 88.4 | 54 | coding (454/795 nt) | USA300HOU_2473 | lipoprotein |
Reads supporting (aligned to +/- strand): ref base . (10/13); new base T (12/19); total (22/32) | |||||||||||
Fisher's exact test for biased strand distribution p-value = 7.84e-01 | |||||||||||
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 | |||||||||||
Rejected as polymorphism: Polymorphic indel expands or contracts a homopolymer stretch. |
ACATTATAATCATCATTATTCAATTGATATTTTGCCGAATAACTTGGTACATTAGGATTATATGAAATATCACCATCTTTATAATCATTAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TC‑TTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCATTTTTACCGGATACCTTTTTTCATCATCCTTTGGTCTGCCGTTACTGTCATCTGTCATTTCACTTATAAAATAATAC > CP000730/2609933‑2610205 | aCATTATAATCATCATTATTCAATTGATATTTTGCCGAATAACTTGGTACATTAGGATTATATGAAATATCACCATCTTTATAATCATTACTATCTTTAAAGGTGCCATAGTGTACAAAGAACTTAAAGTTTTCAATc‑tc‑t > 1:340045/1‑141 (MQ=255) aCATTATAATCATCATTATTCAATTGATATTTTGCCGAATAACTTGGTACATTAGGATTATATGAAATATCACCATCTTTATAATCATTAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATc‑tc‑t > 1:704951/1‑141 (MQ=255) cATTATAATCATCATTATTCAATTGATATTTTGCCGAATAACTTGGTACATTAGGATTATATGAAATATCACCATCTTTATAATCATTAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TC‑tt < 2:578802/141‑1 (MQ=255) cATTATAATCATCATTATTCAATTGATATTTTGCCGAATAACTTGGTACATTAGGATTATATGAAATATCACCATCTTTATAATCATTAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TC‑tt < 1:681185/141‑1 (MQ=255) ataATCATCATTATTCAATTGATATTTTGCCGAATAACTTGGTACATTAGGATTATATGAAATATCACCATCTTTATAATCATTAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TC‑ttttt‑t > 2:98608/1‑141 (MQ=255) aaTCATCATTATTCAATTGATATTTTGCCGAATAACTTGGTACATTAGGATTATATGAAATATCACCATCTTTATAATCATTAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TC‑ttttt‑t‑tt > 1:684931/1‑140 (MQ=255) atcatcATTATTCAATTGATATTTTGCCGAATAACTTGGTACATTAGGATTATATGAAATATCACCATCTTTATAATCATTAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TC‑ttttt‑t‑tta > 1:747815/1‑139 (MQ=255) catcatTATTCAATTGATATTTTGCCGAATAACTTGGTACATTAGGATTATATGAAATATCACCATCTTTATAATCATTAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TC‑ttttt‑t‑ttaat > 2:135609/1‑137 (MQ=255) catTATTCAATTGATACTTTGCCGAATAACTTGGTACATTACGATTATATGAAATATCACCATCTTTATAATCCTTAATATCTCTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TC‑ttttt‑t‑ttcacttg < 2:341887/141‑8 (MQ=14) attattCAATTGATATTTTGCCGAATAACTTGGTACATTAGGATTATATGAAATATCACCATCTTTATAATCATTAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TC‑TTTTT‑T‑TAACTTGTc < 1:21242/141‑1 (MQ=255) ttCAATTGATATTTTGCCGAATAACTTGGTACATTAGGATTATATGAAATATCACCATCTTTATAATCATTAATATCTTTAAAGTTGCCATATTGTACACAGAACTTAAAGTTTTCAATC‑TCTTTTTT‑T‑TAACTTGTCCtt > 1:708034/1‑141 (MQ=255) tCAATTGATATTTTGCCGAATAACTTGGTACATTAGGATTATATGAAATATCACCATCTTTATAATCATTAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TC‑TTTTT‑TGTAACTTGTCATTc > 1:690855/1‑141 (MQ=255) tCAATTGATATTTTGCCGAATAACTTGGTACATTAGGATTATATGAAATATCACCATCTTTATAATCATTAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TC‑TTTTT‑T‑TAACTTGTCATTCg > 2:65610/1‑141 (MQ=255) tCAATTGATACTTCGCCGAATAACTTGGTACTTTAGGATTATATGAAATATCACCATCTTTATAATCATTAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TCTTTTTT‑T‑TAACTTGTCATTc < 1:592367/141‑1 (MQ=17) aTTGATATTTTGCCGAATAACTTGGTACATTAGGATTATATGAAATATCACCATCTTTATAATCATTAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TC‑TTTTT‑T‑TAACTTGTCATTCGGTa < 2:335259/141‑1 (MQ=255) tGAAATTTTGCCGAATAACTTGGTACATTAGGATTATATGAAATATCACCATCTTTATAATCATTAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TCTTTTTT‑T‑TAACTTGTCATTCGGTAg < 2:309517/141‑1 (MQ=255) gATATTTTGCCGAATAACTTGGTACATTAGGATTATATGAAATATCACCATCTTTATAATCATTAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TCTTTTTT‑T‑TAACTTGTCATTCGGTAGt < 1:597805/141‑1 (MQ=255) atatTTTGCCGAATAACTTGGTACATTAGGATTATATGAAATATCACCATCTTTATAATCATTAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TCTTTTTT‑T‑TAACTTGTCATTCGGTAGTg < 1:418870/141‑1 (MQ=255) tttGCCGAATAACTTGGTACATTAGGATTATATGAAATATCACCATCTTTATAATCATTAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TC‑TTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTc < 2:347475/141‑1 (MQ=255) ttGCCGAATAACTTGGTACATTAGGATTATATGAAATATCACCATCTTTATAATCATTAATATCTTTAAAGTTGCCATATTGTACAATGCACTTAAAGTTTTCAATC‑TCTTTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTc < 2:284649/141‑1 (MQ=255) gAATAACTTGGTACATTAGGATTATATGAAATATCACCATCTTTATAATCATTAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TC‑TTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGt > 1:612961/1‑141 (MQ=255) aaTAACTTGGTACATTAGGATTATATGAAATATCACCATCTTTATAATCATTAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TC‑TTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTa < 2:287876/141‑1 (MQ=255) aTAACTTGGTACATTAGGATTATATGAAATATCACCATCTTTATAATCATTAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TC‑TTTTT‑T‑TAACTTGTCATGCGGTGGTGGCTTCGTTGGttt > 1:83161/1‑139 (MQ=255) tAACTTGGTACATTAGGATTATATGAAATATCACCATCTTTATAATCATTAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TC‑TTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGAATg > 2:222122/1‑141 (MQ=255) gTACATTAGGATTATATGAAATATCACCATCTTTATAATCATTAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TCTTTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGATATGAttttt > 1:762843/1‑140 (MQ=255) aTTAGGATTATATGAAATATCACCATCTTTATAATCATTAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TA‑TTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATg > 1:257479/1‑141 (MQ=255) ttATATGAAATATCACCATCTTTATAATCATTAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TCTTTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCAt < 2:240502/141‑1 (MQ=255) atatGAAATATCACCATCTTTATAATCATTAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TCTTTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCAttt < 1:654913/141‑1 (MQ=255) atGAAATATCACCATCTTTATAATCATTAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TCTTTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCAttttt < 2:504651/141‑1 (MQ=255) aaaTATCACCATCTTTATGATCATTAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TCTTTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCATTTTTAcc < 1:161842/141‑1 (MQ=255) cACCATCTTTATAATCATTAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCACTC‑TCTTTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCATTTTTACCGGATAc < 1:682955/141‑1 (MQ=255) aCCATCTTTATAATCATTAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TCTTTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCATTTTTACCGGATAcc > 2:312122/1‑141 (MQ=255) tataATCATTAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TCTTTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCATTTTTACCGGATACCTTTTTtca < 1:173028/141‑1 (MQ=255) ataATCATTAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TCTTTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCATTTTTACCGGATACCTTTTTtctt > 2:278060/1‑139 (MQ=255) taTTAATATCGTTAAAGTTGCCATTTTGTACAAAGAACTTAAAGTTTTCAATC‑TCTTTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCATTTTTACCGGATACCTTTTTTCATCATcc < 2:230068/140‑1 (MQ=255) tAATATCTTTAAAGTTGCCATTTTGTACAAAGAACTTAAAGTTTTCAATC‑TC‑TTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCATTTTTACCGGATACCTTTTTTCATCATCCTTTg < 2:699927/141‑1 (MQ=255) tAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TC‑TTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCATTTTTACCGGATACCTTTTTTCATCATCCTTTg < 2:700324/141‑1 (MQ=255) atCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TC‑TTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCATTTTTACCGGATACCTTTTTTTTTCTTTCTTTGTTCt > 2:737715/1‑141 (MQ=25) atCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TC‑TTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCATTTTTACCGGATACCTTTTTTCATCATCCTTTGGTCt > 2:737707/1‑141 (MQ=255) atCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TC‑TTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCATTTTTACCGGATACCTTTTTTCATCATCCTTTGGTCt > 2:87205/1‑141 (MQ=255) tttAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TCTTTTTT‑T‑TAACTTTTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCATTTTTACCGGATACCTTTTTTCATCATCCTTTGGTCTGc > 2:663236/1‑141 (MQ=255) tcaaGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TC‑TTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCATTTTTACCGGATACCTTTTTTCATCATCCTTTGGTCTGCCGt < 2:294636/139‑1 (MQ=255) aaaGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TCTTTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCATTTTTACCGGATACCTTTTTTCATCATCCTTTGGTCTGCCGt < 1:488764/141‑1 (MQ=255) aGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TCTTTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCATTTTTACCGGATACCTTTTTTCATCATCCTTTGGTCTGCCGTTa > 1:752097/1‑141 (MQ=255) aGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TCTTTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCATTTTTACCGGATACCTTTTTTCATCATCCTTTGGTCTGCCGTTa < 1:242631/141‑1 (MQ=255) tGTACAAAGAACTTAAAGTTTTCAATC‑TCTTTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTGTTCCGTTCCATCTCTACCTTAGACCTTTTCTCATCATCCTTTGGTCTGCCGTTActgtcatctgt < 2:166298/141‑1 (MQ=25) tGTAAAAAGAACTTAAAGTTTTCAATC‑TTTTTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCATTTTTACCGGATACCTTTTTTCATCATCCTTTGGTCTGCCGTTActgtcatctgt < 2:106713/141‑1 (MQ=255) gAACTTAAATTTTTCAATC‑TCTTTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCATTTTTACCGGATACCTTTTTTCATCATCCTTTGGTCTGCCGTTACTGTCATCTGTCATTTCAc < 1:98608/141‑1 (MQ=255) gAACTTAAAGTTTTCAATC‑TC‑TTTTT‑T‑TAACCTCTCAATCCGTAGTTGCTGCCTTGGTATGATTTTATTATGTGCCATTTGTACCGGATACCTTTTTTCATCATCCTTTGGTCTGCCGTTACTGTCATCTGTCATTTCACt < 2:542478/141‑1 (MQ=255) aaaCTTAAAGTTTTCAATC‑TC‑TTTTT‑T‑TAACTTTTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCATTTTTACCGGATACCTTTTTTCATCATCCTTTGGTCTGCCGTTActgtcatctgccctctctcg < 2:398918/140‑11 (MQ=255) aCTTAAAGTTTTCAATC‑TCTTTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCATTTTTACCGGATACCTTTTTTTTTTTTTTTTTGGTCTGCCATTTCTGTCTTCTGTCTTTTCTCtt > 2:546373/1‑141 (MQ=25) aCTTAAAGTTTTCAATC‑TCTTTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCATTTTTACCGGATACCTTTTTTCATCATCCTTTGGTCTGCCGTTACTGTCATCTGTCATTTCACtt < 1:657069/141‑1 (MQ=255) aCTTAAAGTTTTCAATC‑TCTTTTTT‑T‑TAACTTGTCATTCGGTAGTAGCTTCGTTGGTATGATTTTATTATGTTCCATTTTTACCGGATACCTTTTTTCATCATCCTTTGGTCTGCCGTTACTGTCATCTGTCCTTTCACtt > 2:180571/1‑141 (MQ=255) aCTTAAAGTTTTCAATC‑TC‑TTTTTCG‑TAACTTTTCAATTGGTCGACCAATCCTTGTTATGATTTTATTATGTTCCATTTTTACCGGATACCTTTTTTCATCATCCTTTGGTCTGCCGTTACTGTCATCTGTCATTTCACtt < 1:569764/141‑1 (MQ=255) cTTAAAGTTTTCAATC‑TCTTTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCATTTTTACCGGATACCTTTTTTCATAATCCTTTGGTCTGCCGTTACTGTCATCTGTCTTTTCACttt > 1:657128/1‑140 (MQ=255) ttAAAGTTTTCAATC‑TCTTTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCATTTTTACCGGATACCTTTTTTCATCATCCTTTGGTCTGCCGTTACTGTCATCTGTCATTTCACTtat > 1:270704/1‑141 (MQ=255) tAAAGTTTTCAATC‑TCTTTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCATTTTTACCGGATACCTTTTTTCATCATCCTTTGGTCTGCCGTTACTGTCATCTGTCATTTCACTtata > 1:518591/1‑141 (MQ=255) taaGTTTTCAATC‑TCTTTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCATTTTTACCGGATACCTTTTTTCATCATCCTTTGGTCTGCCGTTACTGTCATCTGTCATTTCACTTATaa < 2:67978/140‑1 (MQ=255) aaaGTTTTCAATCTTT‑TTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCATTTTTACCGGATACCTTTTTTCATCATCCTTTGGTCTGCCGTTACTGTCATCTGTCATTTCACTTATaa < 2:658932/141‑1 (MQ=255) aaaGTTTTCAATC‑TC‑TTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCATTTTTACCGGATACCTTTTTTCATCATCCCTTGGTCTGCCGTTACTGTCATCTGTCATTTCACTTATaaa > 1:422993/1‑141 (MQ=255) accttttCAACT‑CC‑TTTTT‑T‑TACCTTGTCATTCGGTAGTGGTCTCGTTGGTATGATTTTATTATGTTCCATTTTTACCGGATACCTTTTTTCAGCATCCTTTGGTCTGCCGTTACTGTCATCTGTCATTTCACTTATaaaa < 1:222122/138‑1 (MQ=255) ttCAATC‑TCTTTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCATTTTTACCGGATACCTTTTTTCATCATCTTTTGATCTGCCGCTACTGTCACCGGTCATTCCACGTCTAAaatata > 2:55719/1‑139 (MQ=255) tCAATC‑TC‑TTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCATTTTTACCGGATACCTTTTTTCATCATCCTTTGGTCTGCCGTTACTGTCATCTGTCATTTCACTTATAAAATAATAc < 2:612961/141‑1 (MQ=255) | ACATTATAATCATCATTATTCAATTGATATTTTGCCGAATAACTTGGTACATTAGGATTATATGAAATATCACCATCTTTATAATCATTAATATCTTTAAAGTTGCCATATTGTACAAAGAACTTAAAGTTTTCAATC‑TC‑TTTTT‑T‑TAACTTGTCATTCGGTAGTGGCTTCGTTGGTATGATTTTATTATGTTCCATTTTTACCGGATACCTTTTTTCATCATCCTTTGGTCTGCCGTTACTGTCATCTGTCATTTCACTTATAAAATAATAC > CP000730/2609933‑2610205 |
Alignment Legend |
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Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |