Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP009273 2,017,857 T→C 8.0% S137P (TCA→CCA)  rcsA → transcriptional regulator of colanic acid capsular biosynthesis

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0092732,017,8570TC 8.0% 124.2 / 3.3 51S137P (TCA→CCA) rcsAtranscriptional regulator of colanic acid capsular biosynthesis
Reads supporting (aligned to +/- strand):  ref base T (20/26);  new base C (2/2);  total (23/28)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 2.85e-01

ATGTTCATTTTGATGAATATCTATTGGTCAGAAAAAATTTATTGATCAGTTCTAAATCGATTAAACCGGAATCTCTCGACGATATCCTTGGCGATATTCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTATCATTGAGCCGAACCGAATCGAGTATGTTGCGAATGTGGATGGCAGGTCAGGGAACCATTCAAATCTCTGACCAAATGAATATCAAAGCCAAGACCGTTTCATCGCATAAAGGTAATATTAAACGTAAGATCAAAACGCATAATAAAC  >  CP009273/2017711‑2018004
                                                                                                                                                  |                                                                                                                                                   
aTGTTCATTTTGATGAATATCTATTGGTCAGAAAAAATTTATTGATCAGTTCTAAATCGATTAAACCGGAATCTCTCGACGATATCCTTGGCGATATTCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTATCa                                                                                                                                                   <  2:237432/149‑1 (MQ=255)
     cATTTTGATGAATATCTATTGGTCAGAAAAAATTTATTGATCAGTTCTAAATCGATTAAACCGGAATCTCTCGACGATATCCTTGGCGATATTCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTATCATTGAg                                                                                                                                              <  2:130756/149‑1 (MQ=255)
       ttttGATGAATATCTATTGGGCAGAAAAAATTTATTGATCAGTTCGAAATCGATTAAACCGGAATCTCTCGACGATATCCTTGGCGATATTCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTATCATTGAGcc                                                                                                                                            <  2:188699/149‑1 (MQ=255)
       ctttGCTGAATATCTATTAGTCAGAAAAAAGTTATTGATCAGTTCTAAATCGATTAAACCGGAATCTCTCGACGATATCCTTGGCGATATTCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTATCATTGAGcc                                                                                                                                            <  2:845289/148‑1 (MQ=255)
            atgaATATCTATTGGTCAGAAAAAATTTATTGATCAGTTCTAAATCGATTAAACCGGAATCTCTCGACGATATCCTTGGCGATATTCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTATCATTGAGccgaacc                                                                                                                                       <  2:779027/149‑1 (MQ=255)
            atgaATATCTATTGGTCAGAAAAAATTTATTGATCAGTTCTAAATCGATTAAACCGGAATCTCTCGACGATATCCTTGGCGATATTCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTATCATTGAGccgaacc                                                                                                                                       <  2:778733/149‑1 (MQ=255)
               aaTATCTATTGGTCAGAAAAAATTTATTGATCAGTTCTAAATCGATTAAACCGGAATCTCTCGACGATATCCTTGGCGATATTCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTATCATTGAGccgaaccgaa                                                                                                                                    <  2:5494/149‑1 (MQ=255)
                 tatGTATTGGTCAGAAAAAATTTATTGATCCGTCTTAACTCGATCAAACCGTAATCTCTCGACGATATCCTTGGCGATATTCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTATCATTGAGCCGAACCGAATc                                                                                                                                  <  1:325866/149‑1 (MQ=255)
                  atCTATTGGTCAGAAAAAATTTATTGATCAGTTCTAAATCGATTAAACCGGAATCTCTCGACGATATCCTTGGCGATATTCTGGAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTAGCATTGAGCCGAACCGAATCg                                                                                                                                 >  2:744110/1‑149 (MQ=255)
                    cTATTGGTCAGAAAAAATTTATTGATCAGTTCTAAATCGATTAAACCGGAATCTCTCGACGATATCCTTGGCGATATTCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTATCATTGAGCCGAACCGAATCGAg                                                                                                                               <  2:493883/149‑1 (MQ=255)
                    cTATTGGTCAGAAAAAATTTATTGATCAGTTCTAAATCGATTAAACCGGAATCAACAAACGGCAGCCTTGGCGATATTCTGAAAAAAGAGACAACGATGCCCTCGTAATTGAAGATGCCGACGTTATCAGTGAGCCGAACCGAATCGAg                                                                                                                               >  2:506826/1‑149 (MQ=255)
                     tATTGGTCAGAAAAAATTTATTGATCAGTTCTAAATCGATTAAACCGGAATCTCTCGACGATATCCTTGGCGATATTCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTATCATTGAGacgaaccgacactcgt                                                                                                                              >  1:607087/1‑142 (MQ=255)
                          gTCAGAAAAAATTTATTGATCAGTTCTAAATCGATTAAACCGGAATCTCTCGACGATATCCTTGGCGATATTCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTATCATTGAGCCGAACCGAATCGAGTATGtt                                                                                                                         >  2:468336/1‑149 (MQ=255)
                             aGAAAAAATTTATTGATCAGTTCTAAATCGATTAAACCGGAATCTCTCGACGATATCCTTGGCGATATTCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTATCATTGAGCCGAACCGAATCGAGTATGTTGCg                                                                                                                      >  2:809550/1‑149 (MQ=255)
                             aGAAAAAATTTATTGATCAGTTCTAAATCGATTAAACCGGAATCTCTCGACGATATCCTTGGCGATATTCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTACCATTGAGCCGAACCGAATCGAGTATGTTGCg                                                                                                                      >  1:118642/1‑149 (MQ=255)
                             aGAAAAAATTTATTGATCAGTTCTAAATCGATTAAACCGGAATCTCTCGACGATATCCTTGGCGATATTCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTACCATTGAGCCGAACCGAATCGAGTATGTTGCg                                                                                                                      >  2:719166/1‑149 (MQ=255)
                              gAAAAAATTTATTGATCAGTTCTAAATCGATTAAACCGGAATCTCTCGACGATATCCTTGGCGATATTCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTATCATTGAGCCGAACCGAATCGAGTATGTTGCGa                                                                                                                     >  2:441579/1‑149 (MQ=255)
                                 aaaaTTTATTGATCAGTTCTAAATCGATTAAACCGGAATCTCTCGACGATATCCTTGGCGATATTCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTATCATTGAGCCGAACCGAATCGAGTATGTTGCGAAtg                                                                                                                  >  2:283381/1‑149 (MQ=255)
                                  aaaTTTATTGATCAGTTCTAAATCGATTAAACCGGAATCTCTCGACGATATCCTTGGCGATATTCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTATCATTGAGCCGAACCGAATCGAGTATGTTGCGAAtgt                                                                                                                 <  1:414257/149‑1 (MQ=255)
                                               aGTTCTAAATCGATTAAACCGGAATCTCTCGACGATATCCTTGGCGATATTCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTATCATTGAGCCGAACCGAATCGAGTATGTTGCGAATGTGGATGGCAGGTCa                                                                                                    >  1:702504/1‑149 (MQ=255)
                                                gTTCTGAATCGATGAAACCGGGATCTCTGGACGATATCCGTGGCGATATTCTGAAAAAAGAGACAACGATAGCCTCGTGTTTAAATATGCCGACGTTATCATTGAGCCGAACCGAATCGAGTATGTTGCGAATGTGGATGGCAGGTCAg                                                                                                   <  1:42476/149‑1 (MQ=255)
                                                gTTCTACATCGGTTAACCCATAATCTCTCGACGATATCCTTGGCGATATTCTGAAAAAAGAGACAACGATACCCTCGTTTTTAAATATGCCGACGTTATCATTGAGCCGAACCGAATCGAGTATGTTGCGAATGTGGATGGCAGGTCAg                                                                                                   <  1:10163/149‑1 (MQ=255)
                                                gTTCCAATTCGAGTAAACCGGAATCTCGCGACGTTCTCCTTGGCGATATTCTGAAATAAGAGACAGCGATACCCGGGGTTTTAAATATGCGGACGGTATCATTGAGCCGAACCGAATCGAGTATGTTGCGAATGTGGATGGCAGGTCAg                                                                                                   <  1:352731/149‑1 (MQ=255)
                                                   cTAAATCGATTAAACCGGAATCTCTCGACGATATCCTTGGCGATATTCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTCTCAGTGAGCCGAACCGACTCGAGTATGTTGCGAATGTGGGTGGCAGGTCAggtg                                                                                                >  2:117116/1‑147 (MQ=255)
                                                      aaTCGATTAAACCGGAATCTCTCGACGATATCCTTGGCGATATTCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTATCATTGAGCCGAACCGAATCGAGTATGTTGCGAATGTGGATGGCAGGTCAGGGAAcc                                                                                             >  2:279414/1‑149 (MQ=255)
                                                       aTCGATTAAACCGGAATCTCTCGACGATATCCTTGGCGATATTCTGAAAAAAGAGACAACGATAACATCGTTTTTAAATATGCCGACGTTATCATTGAGCCGAACCGAATCGAGTCTGTTGGGAATAAGGGTGGCAGGCCAGGGAGCCa                                                                                            >  2:197867/1‑149 (MQ=255)
                                                                     aaTCTCTCGACGATATCCTTGGCGATATTCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTATCATTGAGCCGAACCGAATCGAGTATGTTGCGAATGTGGATGGCAGGTCAGGGAACCATTCAAATCTCTGAc                                                                              <  1:247058/149‑1 (MQ=255)
                                                                         tctcGACGATATCCTTGGCGATATTCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTATCATTGAGCCGAACCGAATCGAGTATGTTGCGAATGTGGATGGCAGGTCAGGGAACCATTCAAATCTCTGACCaaa                                                                          >  2:312825/1‑149 (MQ=255)
                                                                           tcGACGATATCCTTGGCGATATTCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTATCATTGAGCCGAACCGAATCGAGTATGTTGCGAATGTGGATGGCAGGTCAGGGAACCATTCAAATCTCTGACCAAATg                                                                        >  2:851850/1‑149 (MQ=255)
                                                                           tcGACGATATCCTTGGCGATATTCTGAAAAAAGAGACAAAGATAACCTCGTATTTAAATGTGCTTACGTTATCATTGAGCCGAACCGAATCGAGTATGTTGCGAATGTGGATGGCAGGTCAGGGAACCATTCAAATCTCTGACCAAATg                                                                        >  1:185683/1‑149 (MQ=255)
                                                                                    tctttGGCGATATTCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTATCATTGAGCCGAACCGAATCGAGTATGTTGCGAATGTGGATGGCAGGTCAGGGAACCATTCAAATCTCTGACCAAATGAATATCaaa                                                               <  2:430770/146‑1 (MQ=255)
                                                                                    tCCTTGTCGATATTCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTATCATTGAGCCGAACCGAATCGAGTATGTTGCGAATGTGGATGGCAGGTCAGGGAACCATTCAAATCTCTGACCAAATGAATATCaaa                                                               <  2:184603/149‑1 (MQ=255)
                                                                                    tCCTTGGCGATATTCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTATCATTGAGCCGAACCGAATCGAGTATGTTGCGAATGTGGATGGCAGGTCAGGGAACCATTCAAATCTCTGACCAAATGAATATCaaa                                                               <  1:377137/149‑1 (MQ=255)
                                                                                       ttGGCGATATTCGGAAAAAAGAGACAACGATAACCTCGTCTTTAAATATGCCGACGTTATCATTGAGCCGAACCGAATCGAGTATGTTGCGAATGTGGATGGCAGGTCAGGGGACCCTTCCATACCCTGACTAAATGAGTATTCAAGcc                                                            >  1:500587/1‑149 (MQ=255)
                                                                                        tGGCGATATTCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTATCATTGAGCCGAACCGAATCGAGTATGTTGCGAATGTGGATGGCAGGTCAGGGAACCATTCAAATCTCTGACCAAATGAATATCAAAGCCa                                                           <  1:744110/149‑1 (MQ=255)
                                                                                          gCGATATTCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTATCATTGAGCCGAACCGAATCGAGTATGTTGCGAATGTGGATGGCAGGTCAGGGAACCATTCAAATCTCTGACCAAATGAATATCAAAGCCAAg                                                         <  1:813552/149‑1 (MQ=255)
                                                                                           cGATATTCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTATCATTGAGCCGAACCGAATCGAGTATGTTGCGAATGTGGATGGCAGGTCAGGGAACCATTCAAATCTCTGACCAAATGAATATCAAAGCCAAGa                                                        >  2:180035/1‑149 (MQ=255)
                                                                                              tatTCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTATCATTGAGCCGAACCGAATCGCGTATGTTGCGAATGTGGCTGGCAGGTCAGCGAACCATTAAAACCTCTGCCCCACTCAATCTCAAACCCAAGCCCg                                                     >  1:714654/1‑149 (MQ=255)
                                                                                                 tCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTACCATTGAGCCGAACCGAATCGAGTATGTTGCGAATGTGGATGGCAGGTCAGGGAACCATTCAAATCTCTGACCAAATGAATATCAAAGCCAAGACCGttt                                                  <  1:719166/149‑1 (MQ=255)
                                                                                                 tCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTACCATTGAGCCGAACCGAATCGAGTATGTTGCGAATGTGGATGGCAGGTCAGGGAACCATTCAAATCTCTGACCAAATGAATATCAAAGCCAAGACCGttt                                                  <  2:118642/149‑1 (MQ=255)
                                                                                                                             tttttAAATATGCCGACGTTATCATTGAGCCGAACCGAATCGAGTATGTTGCGAATGTGGATGGCAGGTCAGGGAACCATTCAAATCTCTGACCAAATGAATATCAAAGCCAAGACCGTTTCATCGCATAAAGGTAATATTAAACGTaa                      <  2:566138/149‑1 (MQ=255)
                                                                                                                             tttttAAATATGCCGACGGTATCATTGAGCCGAACCGAATCGAGTATGTTGCGAATGTGGATGGCAGGTCAGGGAACCATTCAAATCTCTGACCAAATGAATATCAAAGCCAAGACCGTTTCATCGCATAAAGGTAATATTAAACGTaa                      <  1:816247/149‑1 (MQ=255)
                                                                                                                             ttcttAAAGAAGACGACGTTATCATTGATCCGAACCGAATCGAGTATGTTGCGAATGTGGATGGCAGGTCAGGGAACCATTCAAATCTCTGACCAAATGAATATCAAAGCCAAGACCGTTTCATCGCATAAAGGTAATATTAAACGTaa                      <  1:816561/146‑1 (MQ=255)
                                                                                                                                 tAAATATGCCGACGTTATCATTGAGCCGAACCGAATCGAGTATGTTGCGAATGTGGATGGCAGGTCAGGGAACCATTCAAATCTCTGACCAAATGAATATCAAAGCCAAGAACGTTTCATCGCATAAAGGTAATAATAAACGTAAGATc                  >  1:760499/1‑149 (MQ=255)
                                                                                                                                 tAAATATGCCGACGTTATCATTGAGCCGAACCGAATCGAGTATGTTGCGAATGTGGATGGCAGGGCAGGGAACCATTCAAATCTCTGACCAAATGAATATCAAAGCCAAGACCGTTTCATCGCATACAGGTAGTATTAAACGTAATATc                  >  1:305820/1‑149 (MQ=255)
                                                                                                                                 tAAATATGCCGACGTTATCATTGAGCCGAAACGAATCGAGTATGTTGCGAATGTGGAAGGCAGGTCAGGGAACCATTCAAATCTCTGACCAAATGAATATCAAAGCCAAGACCGTTTCGTCGCATAAAGGTAATATTAAACGTAAGagc                  >  1:599378/1‑147 (MQ=255)
                                                                                                                                    atatGCCGACGTTATCATTGAGCCGAACCGAATCGAGTATGTTGCGAATGTGGATGGCAGGTCAGGGAACCATTCAAATCTCTGACCAAATGAATATCAAAGCCAAGCCCGTTTCATCGCATAAAGGTAATATTAAACGTAAGATCaaa               >  1:694967/1‑149 (MQ=255)
                                                                                                                                      atGCCGACGTTATCATTGAGCCGAACCGAATCGAGTATGTTGCGAATGTGGATGGCAGGTCAGGGAACCATTCAAATCTCTGACCAAATGAATATCAAAGCCAAGACCGTTTCATCGCATAAAGGTAATATTAAACGTAAGATCAAAAc             <  2:804752/149‑1 (MQ=255)
                                                                                                                                           catgTTATCAGTGAGCCTACACGAATCGAGTATGTTGCGAATGTGGATGCCAGGTCAGGCAACCATTCAAATCTCAGACCAAATGAATATCAAAGCCAAGACCGTTTCATCGCATAAAGGTAATATTAAACGTAAGATCAAAACGCata        <  1:599593/146‑1 (MQ=255)
                                                                                                                                                tATCATTGAGCCGAACCGAATCGAGTATGTTGCGAATGTGGATGGCAGGTCAGGGAACCATTCAAATCTCTGACCAAATGAATATCAAAGCCAAGACCGTTTCATCGCATAAAGGTAATATTAAACGTAAGATCAAAACGCATAATaaa   <  1:180035/149‑1 (MQ=255)
                                                                                                                                                 aTCATTGAGCCGAACCGAATCGAGTATGTTGCGAATGTGGATGGCAGGTCAGGGAACCATTCAAATCTCTGACCAAATGAATATCAAAGCCAAGACCGTTTCATCGCATAAAGGTAATATTAAACGTAAGATCAAAACGCATAATAAAc  <  1:441579/149‑1 (MQ=255)
                                                                                                                                                  |                                                                                                                                                   
ATGTTCATTTTGATGAATATCTATTGGTCAGAAAAAATTTATTGATCAGTTCTAAATCGATTAAACCGGAATCTCTCGACGATATCCTTGGCGATATTCTGAAAAAAGAGACAACGATAACCTCGTTTTTAAATATGCCGACGTTATCATTGAGCCGAACCGAATCGAGTATGTTGCGAATGTGGATGGCAGGTCAGGGAACCATTCAAATCTCTGACCAAATGAATATCAAAGCCAAGACCGTTTCATCGCATAAAGGTAATATTAAACGTAAGATCAAAACGCATAATAAAC  >  CP009273/2017711‑2018004

Alignment Legend
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: ‑