Predicted mutation
evidence seq id position mutation annotation gene description
RA W3110S.gb 2,075,898 C→T N741N (AAC→AAT)  flu → antigen 43 (Ag43) phase‑variable biofilm formation autotransporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*W3110S.gb2,075,8980CT100.0% 289.5 / NA 101N741N (AAC→AAT) fluantigen 43 (Ag43) phase‑variable biofilm formation autotransporter
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (101/0);  total (101/0)

Only 100 of 104 total aligned reads displayed.

ATTGTGGCAGGCTCCCGCAGCCATCAGACCGGTGTAAATGGTGAAAACAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAT  >  W3110S.gb/2075851‑2075943
                                               |                                             
aTTGTGGCAGGCTCCCGCAGCCATCAGACCGGTGTAAATGGTGAAaac                                               >  1:1125111/1‑48 (MQ=255)
aTTGTGGCAGGCTCCCGCAGCCATCAGACCGGTGTAAATGGTGAAaac                                               >  1:1516410/1‑48 (MQ=255)
aTTGTGGCAGGCTCCCGCAGCCATCAGACCGGTGTAAATGGTGAAaac                                               >  1:359379/1‑48 (MQ=255)
                                tgtAAACGGTGAAAGTAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1572420/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTc                         >  1:1323295/1‑38 (MQ=38)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCgg                  >  1:1444742/1‑45 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCAtctc           >  1:891718/1‑52 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCAtct            >  1:373886/1‑51 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCAtc             >  1:1491865/1‑50 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:314414/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:475635/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:441266/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:43276/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:413111/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:402446/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:382839/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:347201/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:544279/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:288782/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:281118/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:280532/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:25944/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:235616/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:232494/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:222561/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:207757/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:185627/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:177583/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:754848/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:969385/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:949500/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:900378/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:884433/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:878865/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:874111/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:844944/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:833089/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:818959/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:802613/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:793385/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:773309/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:476377/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:745885/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:739587/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:732698/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:712029/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:706351/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:697892/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:697123/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:660869/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:591165/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1624160/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:529738/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1204205/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1383530/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1335984/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1335021/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1333017/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1330532/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1316812/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1285826/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1270911/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1224851/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1223302/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:121700/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1395863/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1175094/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:117423/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1147302/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1136157/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1122334/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1116271/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1106209/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:107282/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1031465/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1022742/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1015277/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1555388/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1650182/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1625191/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1010170/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1611949/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1592902/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1591192/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:157654/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1570600/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1568650/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1564704/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1562797/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:177008/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:155069/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1546397/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1523902/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1487573/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1480897/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1459783/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1443041/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1432532/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1422050/1‑61 (MQ=255)
                                tgtAAACGGTGAAAATAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAt  >  1:1407939/1‑61 (MQ=255)
                                               |                                             
ATTGTGGCAGGCTCCCGCAGCCATCAGACCGGTGTAAATGGTGAAAACAACAGCGTCCGTCTCAGCATTCAGGGCGGTCATCTCGGTCACGAT  >  W3110S.gb/2075851‑2075943

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑