Predicted mutation | |||||||
---|---|---|---|---|---|---|---|
evidence | seq id | position | mutation | freq | annotation | gene | description |
RA | USA300TCH1516_ALE | 1,711,515 | T→C | 5.2% | M383V (ATG→GTG) | mntH_2 ← | Divalent metal cation transporter MntH |
Read alignment evidence... | |||||||||||
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seq id | position | ref | new | freq | score (cons/poly) | reads | annotation | genes | product | ||
* | USA300TCH1516_ALE | 1,711,515 | 0 | T | C | 5.2% | 737.9 / 21.7 | 232 | M383V (ATG→GTG) | mntH_2 | Divalent metal cation transporter MntH |
Reads supporting (aligned to +/- strand): ref base T (129/91); new base C (2/10); total (131/101) | |||||||||||
Fisher's exact test for biased strand distribution p-value = 5.72e-03 | |||||||||||
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.36e-01 |
Only 100 of 234 total aligned reads displayed.
ATGTCTTTTAAAATAACTGAAGTACTTCTTTGAATGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATTGCACCTAACGTAATAGGTAAAATCCATCCAT > USA300TCH1516_ALE/1711425‑1711604 | aTGTCTTTTAAAATAACTGAAGTACTTCTTTGAATGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACAt < 2:82463/91‑1 (MQ=255) gTCTTTTAAAATAACTGAAGTACTTCTTTGAATGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATcc < 1:1709635/91‑1 (MQ=255) tCTTTTAAAATAACTGAAGTACTTCTTTGAATGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCa > 1:1325375/1‑91 (MQ=255) cTTTTAAAATAACTGAAGTACTTCTTTGAATGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCaa > 1:1136572/1‑91 (MQ=255) tttAAAATAACTGAAGTACTTCTTTGAATGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAAtt < 1:204925/91‑1 (MQ=255) ttAAAATAACTGAAGTACTTCTTTGAATGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACACCCaaatt < 2:2599395/91‑4 (MQ=255) ttAAAATAACTGAAGTACTTCTTTGAATGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACACCCaaatt < 1:3536767/91‑4 (MQ=255) ttAAAATAACTGAAGTACTTCTTTGAATGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACACCCaaatt < 1:884988/91‑4 (MQ=255) tAAAATAACTGAAGTACTTCTTTGAATGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTg < 2:2465386/91‑1 (MQ=255) aaaaTAACTGAAGTACTTCTTTGAATGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTgg < 1:2479875/91‑1 (MQ=255) aTAACTGAAGTACTTCTTTGAATGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGgtg < 1:284512/91‑1 (MQ=255) aTAACTGAAGTACTTCTTTGAATGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGgtg < 2:266261/91‑1 (MQ=255) aTAACTGAAGTACTTCTTTGAATGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACACCCAAATTggatg < 1:3515466/91‑4 (MQ=255) aTAACTGAAGTACTTCTTTGAATGAGAATATACCTGTCAATATTGTAACAAGTAATGCAACGATACCAAAGATGAACATCCAATTTGGgtg > 2:3057975/1‑91 (MQ=255) aaCTGAAGTACTTCTTTGAATGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGtt > 1:665231/1‑91 (MQ=255) cTGAAGTACTTCTTTGAATGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTta > 1:1690211/1‑91 (MQ=255) cTGAAGTACTTCTTTGAATGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTta > 1:3071756/1‑91 (MQ=255) gAAGTACTTCTTTGAATGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTtata > 1:953312/1‑91 (MQ=255) gAAGTACTTCTTTGAATGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTtata > 1:2497638/1‑91 (MQ=255) aaGTACTTCTTTGAATGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATaa > 2:1619096/1‑91 (MQ=255) aaGTACTTCTTTGAATGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATaa > 1:1302119/1‑91 (MQ=255) aaGTACTTCTTTGAATGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATaa < 1:2594175/91‑1 (MQ=255) aGTACTTCTTTGAATGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAAt > 1:507191/1‑91 (MQ=255) aGTACTTCTTTGAATGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAAt > 1:1053205/1‑91 (MQ=255) gTACTTCTTTGAATGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATc < 1:3847601/91‑1 (MQ=255) gTACTTCTTTGAATGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATc < 1:3848476/91‑1 (MQ=255) gTACTTCTTTGAATGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATc < 1:2016592/91‑1 (MQ=255) cttcttTGAATGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCAcc > 2:1111126/1‑91 (MQ=255) cttcttTGAATGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCAcc < 2:654969/91‑1 (MQ=255) tcttTGAATGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACcaa > 2:442133/1‑91 (MQ=255) gAATGAGAATATACCTGTCAATATTGGAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAAtt < 2:3540019/91‑1 (MQ=255) aaTGAGAATATACCTGTCAATATTGTAACAAGTGCTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTg < 1:3176992/91‑1 (MQ=255) aaTGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTg < 2:3807054/91‑1 (MQ=255) aaTGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTg < 1:1544692/91‑1 (MQ=255) aaTGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTg < 1:1785491/91‑1 (MQ=255) aaTGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTg < 1:396124/91‑1 (MQ=255) aTGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGa > 2:1235126/1‑91 (MQ=255) tGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGAt > 1:990009/1‑91 (MQ=255) agaATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGAttt < 2:3409570/91‑1 (MQ=255) agaATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGAttt < 1:624908/91‑1 (MQ=255) gaATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTc < 1:797998/91‑1 (MQ=255) gaATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTc > 2:1297033/1‑91 (MQ=255) gaATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTc < 1:1132781/91‑1 (MQ=255) gaATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTc < 1:3675254/91‑1 (MQ=255) gaATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGACTTc > 1:3000757/1‑91 (MQ=255) aaTATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCt < 2:1025522/91‑1 (MQ=255) aaTATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCt < 2:1626993/91‑1 (MQ=255) aaTATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCt < 1:2060820/91‑1 (MQ=255) aaTATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCt < 2:1690211/91‑1 (MQ=255) atatACCTGTCAATACTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTAGGGTGTTTATAATCACCAACAATTGATTTCtt > 1:3313507/1‑91 (MQ=255) ataCCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCtttt > 1:843358/1‑91 (MQ=255) ataCCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCtttt > 1:486067/1‑91 (MQ=255) ataCCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCtttt > 2:2064029/1‑91 (MQ=255) taCCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCttttt > 2:2871953/1‑91 (MQ=255) taCCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCttttt > 2:810842/1‑91 (MQ=255) taCCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCttttt > 1:279233/1‑91 (MQ=255) aCCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTa > 1:26718/1‑91 (MQ=255) cTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACt > 2:2815092/1‑91 (MQ=255) tGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACGTCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACtt > 2:2992136/1‑91 (MQ=255) atatTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAAt < 2:3513908/91‑1 (MQ=255) atTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTATTTTTACTTGCAATCa > 2:3704063/1‑91 (MQ=255) ttGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGTTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCaa > 1:3080523/1‑91 (MQ=255) ttGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCaa > 1:2741238/1‑91 (MQ=255) ttGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCaa > 2:514178/1‑91 (MQ=255) gTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCaaaa > 1:1665926/1‑91 (MQ=255) tAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAAt > 1:3697911/1‑91 (MQ=255) tAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAAt > 2:2989146/1‑91 (MQ=255) aaCAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAAtt < 1:1031754/91‑1 (MQ=255) aCAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATTg > 1:3532973/1‑91 (MQ=255) cAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATTGc < 2:1741342/91‑1 (MQ=255) aaGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATTGCa > 1:2827655/1‑91 (MQ=255) tACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATTGCACCt < 2:2825235/91‑1 (MQ=255) tACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATTGCACCt > 1:1422516/1‑91 (MQ=255) cTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATTGCACCTaa > 1:2990367/1‑91 (MQ=255) cTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATTGCACCTaa > 1:3431103/1‑91 (MQ=255) cTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATTGCACCTaa > 1:1064148/1‑91 (MQ=255) cTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGAGTTCTTTTTACTTGCAATCAAAATTGCACCTaa < 2:3814043/91‑1 (MQ=255) gCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATTGCACCTAACg > 2:682698/1‑91 (MQ=255) gCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATTGCACCTAACg > 1:1130658/1‑91 (MQ=255) aaCGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATTGCACCTAACGTa > 2:2494672/1‑91 (MQ=255) aaCGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATTGCACCTAACGTa > 2:2725370/1‑91 (MQ=255) aaCGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATTGCACCTAACGTa > 2:197514/1‑91 (MQ=255) aCGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATTGCACCTAACGTaa > 1:3825650/1‑91 (MQ=255) cGATACCAAAGATGAACATCCAGTTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATTGCACCTAACGTAAt < 2:3133971/91‑1 (MQ=255) aTACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATTGCACCTAACGTAATAg < 1:1235126/91‑1 (MQ=255) tACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATTGCACCTAACGTAATAgg < 2:2018791/91‑1 (MQ=255) aCCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATCGCACCTAACGTAATAGGt > 2:3694748/1‑91 (MQ=255) ccAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATTGCACCTAACGTAATAGGTa < 2:3313507/91‑1 (MQ=255) cAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATTGCACCTAACGTAATAGGTaa < 2:3429568/91‑1 (MQ=255) cAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATTGCACCTAACGTAATAGGTaa > 2:1084700/1‑91 (MQ=255) cAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATTGCACCTAACGTAATAGGTaa > 2:1066018/1‑91 (MQ=255) cAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATTGCACCTAACGTAATAGGTaa > 2:3176610/1‑91 (MQ=255) aaaGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATTGCACCTAACGTAATAGGTaaa > 1:3063443/1‑91 (MQ=255) aaGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATTGCACCTAACGTAAt < 2:1337086/83‑1 (MQ=255) aaGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATTGCACCTAACGTAAt > 1:1337086/1‑83 (MQ=255) gATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATTGCACCTAACGTAATAGGTAAAatc > 2:2313653/1‑91 (MQ=255) tGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATTGCACCTAACGTAATAGGTAAAatcca < 2:2110680/91‑1 (MQ=255) gAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATTGCACCTAACGTAATAGGTAAAatccat < 1:3809809/91‑1 (MQ=255) aaCACCCAAATTGGATGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATTGCACCTAACGTAATAGGTAAAatccatc > 2:185854/1‑91 (MQ=255) cATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATTGCACCTAACGTAATAGGTAAAAtccatcca < 1:3557250/91‑1 (MQ=255) | ATGTCTTTTAAAATAACTGAAGTACTTCTTTGAATGAGAATATACCTGTCAATATTGTAACAAGTACTGCAACGATACCAAAGATGAACATCCAATTTGGGTGTTTATAATCACCAACAATTGATTTCTTTTTACTTGCAATCAAAATTGCACCTAACGTAATAGGTAAAATCCATCCAT > USA300TCH1516_ALE/1711425‑1711604 |
Alignment Legend |
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Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |