Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP000730 2,027,561 G→C 49.8% T129S (ACC→AGC)  vraS ← sensor histidine kinase VraS

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0007302,027,5610GC49.8% ‑0.9 / 22.1 22T129S (ACC→AGC) vraSsensor histidine kinase VraS
Reads supporting (aligned to +/- strand):  ref base G (7/4);  new base C (6/5);  total (13/9)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TTGATAGCAGATAGCATCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGGTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTT  >  CP000730/2027426‑2027680
                                                                                                                                       |                                                                                                                       
ttGATAGCAGATAGCATCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTaat                                                                                                                    >  2:201586/1‑140 (MQ=255)
ttGATAGCAGATAGCATCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAg                                                                                                                    >  2:201491/1‑141 (MQ=255)
    tagcagatagcaTCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGGAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTCAGtttt                                                                                                                >  1:61908/1‑141 (MQ=255)
        agatagcaTCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGGTTAAGTTTTGAGt                                                                                                            >  2:75192/1‑141 (MQ=255)
            agcaTCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGGTTAAGTTTTGAGTTTTa                                                                                                        <  1:45541/141‑1 (MQ=255)
                     cTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAAc                                                                                               >  1:44886/1‑141 (MQ=255)
                            aaaaaaGTTGCTGACTAACAGAATCGAAAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCa                                                                                        <  2:126419/140‑1 (MQ=255)
                                 aGTTGCTGACTAACAGAATCATGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGGTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCt                                                                                   <  2:138059/141‑1 (MQ=255)
                                 aGTTGCTGACTAACAGAATCATGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGGTCAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCt                                                                                   <  2:137968/141‑1 (MQ=255)
                                           tAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACAACATTAATATTATAATTTTCATTGCTTAAGTTTTCAGTTTTAAGTCGCAACTTATGGAATTCTTGATTTAAAg                                                                         <  1:156213/141‑1 (MQ=255)
                                                         aGTTCTCGTGCTAGTCTTTCACGTTCATCTTCAATAATATTTTTAACTTTCACAGCATTAATATTATAATTTTGATTTCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATgg                                                           >  2:82064/1‑141 (MQ=255)
                                                            tctcGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTAAAAGTGTATGGtat                                                        >  2:163125/1‑141 (MQ=255)
                                                             ctcGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGtata                                                       <  1:153682/141‑1 (MQ=255)
                                                               cGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGGTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATaaa                                                     >  1:114737/1‑141 (MQ=255)
                                                                   ctcgTCTTTGACGTTCATCATCAATAATCTTTTTAACTTTCCCATCATTAATATTATCATTTTCATTGGTTAAGTTTTGAGTTTTAAATCGCAACTTATGCAATTCTTGAGTTAAAGATACAAGTGTATGGTATACAtgtc                                                 >  2:144500/4‑138 (MQ=255)
                                                                    tAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTaa                                                <  1:47305/141‑1 (MQ=255)
                                                                     aGTTTTTGACTTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGGTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAAc                                               <  2:242008/141‑1 (MQ=255)
                                                                      gTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGCTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACg                                              <  1:185317/141‑1 (MQ=255)
                                                                                         aataatCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGGTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACTATATATTTCtat                           >  1:44781/1‑141 (MQ=255)
                                                                                                 ttttAACTTTCACATCATTAATATTATAATTTTCATTGGTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTGAt                   >  1:26711/1‑141 (MQ=255)
                                                                                                          tCACATCATTAATATTATAATTTTCATTGGTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTGATCATTAATGc          >  1:15681/1‑141 (MQ=255)
                                                                                                                  ttAATATTATAATTTTCATTGGTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTGATCATTAATGACAACTGtt  >  2:147641/1‑141 (MQ=255)
                                                                                                                                       |                                                                                                                       
TTGATAGCAGATAGCATCATACTTGCCGCAAAAAGTTGCTGACTAACAGAATCGTGAAGTTCTCGTGCTAGTCTTTGACGTTCATCTTCAATAATCTTTTTAACTTTCACATCATTAATATTATAATTTTCATTGGTTAAGTTTTGAGTTTTAAGTCGCAACTTATGCAATTCTTGATTTAAAGGTACAAGTGTATGGTATAAATCTAACGTTTCACTATATATTTCTATATTTTGATCATTAATGCCAACTGTT  >  CP000730/2027426‑2027680

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: