Predicted mutation
evidence seq id position mutation freq annotation gene description
RA CP006881 1,183,409 A→C 16.3% N176T (AAC→ACC)  U712_05870 → Oligopeptide‑binding protein oppA

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0068811,183,4090AC16.3% 96.7 / 4.1 57N176T (AAC→ACC) U712_05870Oligopeptide‑binding protein oppA
Reads supporting (aligned to +/- strand):  ref base A (35/12);  new base C (3/7);  total (38/19)
Fisher's exact test for biased strand distribution p-value = 1.12e-02
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

AATAATGAATCACAATACGCTTACCAGCTCTACTACATAAAAGGTGCTGAAGCGGCGAATACCGGAAAAGGCAGCCTAGACGATGTGGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGACTCCATATTTCACTGAATTAACTGCGTTCTATACGTATATGCCGATCAATAAGAAAATTGCAGAGAAAAATAAAAAGTGGAATACAAATGCCGGAGATGATTATGTATCAAACGGGCCGTTCAAAATGACGG  >  CP006881/1183276‑1183546
                                                                                                                                     |                                                                                                                                         
aataatGAATCACAATACGCTTACCAGCTCTACTACATAAAAGGTGCTGAAGCGGCGAATACCGGAAAAGGCAGCCTAGACGATGTGGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGa                                                                                                                                      >  8:20170/1‑139 (MQ=255)
 ataatGAATCACAATACGCTTACCAGCTCTACTACATAAAAGGTGCTGAAGCGGCTAATACCGTAAACGGCAGCCTAGACGATGTGGCATTAAAAGCTGTGAATGACAAAACGCTGAAGGTTTAATTAAATAACCCGa                                                                                                                                      <  7:321916/138‑1 (MQ=255)
  taatGAATCACAATACGCTTACCAGCTCTACTACATAAAAGGTGCTGAAGCGGCGAATACCGGAAAAGGCAGCCTAGACGATGTGGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGACt                                                                                                                                    >  8:163017/1‑139 (MQ=255)
  taatGAATCACAATACGCTTACCAGCTCTAAACCATAAATGGGGCTGACGCGGCTAATACCGGAAAAGGCAGCCTAGACGATGTGGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTTAATTAAATAACCCGACt                                                                                                                                    <  8:225570/139‑1 (MQ=255)
       aaTCACAATACGCTTACCAGCTCTACTACATAAAAGGTGCTGAAGCGGCGAATACCGGAAAAGGCAGCCTAGACGATGTGGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGACTCCata                                                                                                                               >  7:225570/1‑139 (MQ=255)
       aaTCACAATACGCTTACCAGCTCTACTACATAAAAGGTGCTGAAGCGGCGAATACCGGAAAAGGCAGCCTAGACGATGTGGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGACTCCata                                                                                                                               >  3:241992/1‑139 (MQ=255)
         tCACAATACGCTTACCAGCTCTACTACATAAAAGGTGCTGAAGCGGCGAATACCGGAAAAGGCAGCCTAGACGATGTGGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGACTCCATAtt                                                                                                                             >  7:46709/1‑139 (MQ=255)
           acaATACGCTTACCAGCTCTACTACATAAAAGGTGCTGAAGCGGCGAATACCGGAAAAGGCAGCCTAGACGATGTGGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGCCTCCATAttt                                                                                                                            >  4:211705/1‑138 (MQ=255)
           acaATACGCTTACCAGCTCTACTACATAAAAGGTGCTGAAGCGGCGAATACCGGAAAAGGCAGCCTAGACGATGTGGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGACTCCATAttt                                                                                                                            >  8:10903/1‑138 (MQ=255)
             attccGCATACCCGCTAAACTAAATAACTGGGGCTGACGCGGCTAATACCGAAAACGGCTGCCTATCCTTTGGGGCAGTAAACGCTGTTAATCACAAACCGCTGAAGTTAAAATTAAAAACCCCGACTCCATATTTCAc                                                                                                                         <  4:134362/135‑1 (MQ=255)
                    ttACCAGCTCTACTACATAAAAGGTGCTGAAGCGGCGAATACCGGAAAAGGCAGCCTAGACGATGTGGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGACTCCATATTTCACTGAAtt                                                                                                                   >  6:46403/1‑138 (MQ=255)
                      aCCAGCTCTACTACATAAAAGGTGCTGAAGCGGCGAATACCGGAAAAGGCAGCCTAGACGATGTGGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGACTCCATATTTCACTGAATTAAc                                                                                                                >  2:22474/1‑139 (MQ=255)
                      aCCAGCTCTACTACATAAAAGGTGCTGAAGCGGCGAATACCGGAAAAGGCAGCCTAGACGATGTGGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTAAATTAAATAACCCGACTCCATATTTCACTGAATTAAc                                                                                                                >  3:134362/1‑139 (MQ=255)
                      aCCAGCTCTACTACATAAAAGGTGCTGAAGCGGCGAATACCGGAAAAGGCAGCCTAGACGATGTGGCAGTAAAAGCTGTGAATGACAAAACGCGGAAGGTTGAATTAAATAACCCGACTCCATATTTCGCTGAATTa                                                                                                                  >  8:130189/1‑137 (MQ=255)
                      aCCAGCTCTACTACATAAAAGGTGCTGAAGCGGCGAATACCGG‑AAAGGCAGCCTAGACGATGTGGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGACTCCATATTTCACTGAATTAACt                                                                                                               >  8:265397/1‑139 (MQ=255)
                          gatatactacATAAATGGTGCTGATGCGGCTAATACCTTAAACGGCAGCCTATACTATGTGGCAGTAAAAGCTGTTAATTACAAACCGCTGAAGGTTTAATTAAATAACCCGACTCCATATTTCACTGAATTAACTGCg                                                                                                            <  4:135829/135‑1 (MQ=255)
                          gCTCTACTACATAAAAGGTGCTGAAGCGGCGAATACCGGAAAAGGCAGCCTAGACGATGTGGCAGAAAAAGCTGTGAATGACAAAACGCTGAAGGTTTAATAAAAAAACCCGACTCCATATTTCACTGAATTAACTGCg                                                                                                            <  1:38577/139‑1 (MQ=255)
                           ctctACTACATAAAAGGTGCTGAAGCGGCGAATACCGGAAAAGGCAGCCTAGACGATGTGGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGACTCCATATTTCACTGAATTAACTGCGt                                                                                                           >  7:18194/1‑139 (MQ=255)
                              tactacATAAAAGGTGCTGAAGCGGCGAATACCGGAAAAGGCAGCCTAGACGATGTGGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGACTCCATATTTCACTGAATTAACTGCGtt                                                                                                          <  7:20170/137‑1 (MQ=255)
                               acaacATAAACGGTGCTGACGCGGCGAATACCGAAAAAGGCAGCCAAGACGATGGGGCAGAAAAACCTGTCAATGACAAAACGCTGAAGGTTGAATTAAAAACCCCGACTCCATATTTCACTGAATTAACTGCGTTCta                                                                                                       <  7:13520/136‑1 (MQ=255)
                               acaacAAAAACGGGGCTGACGCGGCTAATACCGGAACCGGCAGCCTCGACGATGTGGCAGAAAAAGCGGTGAATGACAAAACGCTCACGGTTTAATTAAAAACCCCGACTCCATATTTCACTGAATTAACTGCGTTCta                                                                                                       <  8:264443/136‑1 (MQ=255)
                                ctacATAAATGGTGATGAAGCGGCTAATACCGTAAACGGCAGCATAGACGTTGTGGCTGTAAATGCTGTTAATGACAAACCGCTGTAGTTTGAATTAAATAACCCGACTCCATATTTCACTGAATTAACTGCGTTCta                                                                                                       <  2:46211/138‑1 (MQ=255)
                                ctacATAAAAGGTGCTGAAGCGGCGAATACCGGAAAAGGCAGCCTAGACGATGTGGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGACTCCATATTTCACTGAATTAACTGCGTTCta                                                                                                       >  1:196755/1‑138 (MQ=255)
                                     tAAAAGGTGCTGAAGCGGCGAATACCGGAAAAGGCAGCCTAGACGATGTGGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGACTCCATATTTCACTGAATTAACTGCGTTCTATACgct                                                                                                 >  1:39803/1‑137 (MQ=255)
                                        aaGGTGCTGAAGCGGCGAATACCGGAAAAGGCAGCCTAGACGATGTGGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATACCCCGACTCCATATTTCACTGAATTAACTGCGTTCTATACGTatat                                                                                              >  3:2879/1‑139 (MQ=255)
                                        aaGGTGCTGAAGCGGCGAATACCGGAAAAGGCAGCCTAGACGATGTGGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGACTCCATATTTCACTGAATTAACTGCGTTCTATACGTatat                                                                                              >  7:80496/1‑139 (MQ=255)
                                        aaGGTGCTGAAGCGGCGAATACCGGAAAAGGCAGCCTAGACGATGTGGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGACTCCATATTTCACTGAATTAACTGCGTTCTATACGTatat                                                                                              >  7:121609/1‑139 (MQ=255)
                                        aaGGTGCTGAAGCGGCGAATACCGGAAAAGGCAGCCTAGACGATGTGGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGACTCAATATTTCACTGAATTAACTGCGTTCTATACGTatat                                                                                              >  7:213734/1‑139 (MQ=255)
                                             gCTGAAGCGGCGAATACCGGAAAAGGCAGCCTAGACGATGTGTCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACACGACTCCATATTTCACTGAATTAACTGCGTTCTATACGTATATGACGa                                                                                         >  2:172788/1‑139 (MQ=255)
                                             gCTGAAGCGGCGAATACCGGAAAAGGCAGCCTAGACGATGTGGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGACTCCATATTTCACTGAATTAACTGCGTTCTATACGTATATGCCGa                                                                                         >  7:243554/1‑139 (MQ=255)
                                             gCTGAAGCGGCGAATACCGGAAAAGGCAGCCTAGACGATGTGGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGACTCCATATTTCACTGAATTAACTGCGTTCTATACGTATATGCCGa                                                                                         >  1:36301/1‑139 (MQ=255)
                                             gCTGAAGCGGCGAATACCGGAAAAGGCAGCCGAGACGATGTGGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGACTCCATATTTCACTGAATTAACTGCGTTCTATACTTATATGCCGa                                                                                         >  1:20408/1‑139 (MQ=255)
                                                  cgcggcgAATACCGGAAACGGCCGCCAAGACGATGTGGCAGAAAACGCTGTGAATGAAAAAACGCTGAAGGTTGAATAAAATCACCCGACTCCATATTTCACTGAATTAACTGCGTTCTATACGTATATGCCGATCAAt                                                                                    <  7:80698/138‑1 (MQ=255)
                                                      gctaaTACCGTAAAGGCCAGCATTTCCGTTGGGTCATTAAAAGCTGTTAATTAAAAAACGCTTATGGTTTAATTAAAAAACCCGACTCCATATTTCACTGAATTAACTGCGTTCTATACGTATATGCCGATCAATAAGa                                                                                <  8:121609/136‑1 (MQ=255)
                                                      gcgAATACCGGAAAAGGCAGCCTAGACGATGTGGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGACTCCATATTTCACTGAATTAACTGCGTTCTATACGTATATGCCGATCAATAAg                                                                                 >  2:27684/1‑138 (MQ=255)
                                                          aTACCTGAAAAGGCAGCCTAGACGATGTGGAATTAAAAGCTGGGAATCAAAAACCGCTCACTGTTTAATTAAAAAACCCGACTCCATATTTCACTGAATTAACTGCGTTCTATACGTATATGCCGATCAATAAGaaaa                                                                             <  2:97123/138‑1 (MQ=255)
                                                                          ccTAGACGATGTGGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGACTCCATATTTCACTGAATTAACTGCGTTCTATACGTATATGCCGATCAATAAGAAAATTGCAGAGAAAAATaa                                                             >  1:113951/1‑138 (MQ=255)
                                                                                    gtgGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATACCCCGACTCCATATTTCACTGAATTAACTGCGTTCTATACGTATATGCCGATCAATAAGAAAATTGCAGAGAAAAATAAAAAGTGGAAt                                                   >  3:91012/1‑138 (MQ=255)
                                                                                    gtgGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATACCCCGACTCCATATTTCACTGAATTAACTGCGTTCTATACGTATATGCCGATCAATAAGAAAATTGCAGAGAAAAATAAAAAGTGGAATa                                                  >  7:161441/1‑139 (MQ=255)
                                                                                    gtgGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGACTCCATATTTCACTGAATTAACTGCGTTCTATACGTATATGCCGATCAATAAGAAAATTGCAGAGAAAAATAAAAAGTGGAATa                                                  >  1:72993/1‑139 (MQ=255)
                                                                                    gtgGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGACTCCATATTTCACTGAATTAACTGCGTTCTATACGTATATGCCGATCAATAAGAAAATTGCAGAGAAAAATAAAAAGTGGAATa                                                  >  7:40615/1‑139 (MQ=255)
                                                                                    gtgGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGACTCCATATTTCACTGAATTAACTGCGTTCTATACGTATATGCCGATCAATAAGAAAATTGCAGAGAAAAATAAAAAGTGGAATa                                                  >  1:240965/1‑139 (MQ=255)
                                                                                    gtgGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGACTCCATATTTCACTGAATTAACTGCGTTCTATACGTATATGCCGATCAATAAGAAAATTGCAGAGAAAAATAAAAAGTGGAATa                                                  >  5:281151/1‑139 (MQ=255)
                                                                                    gtgGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGACTCCAGATTTCACTGAATTAACTGCGTTCTCTACGTATATGCCGATCAAGAAGAAAATTGCAGAGAAAAAGACTAAGTGGAATa                                                  >  6:173520/1‑139 (MQ=255)
                                                                                    gtgGCAGTAAAAGCTGTAAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGACTCCAGATTTCACTGAATTAACTGCGTTCTATACGTATATGCCGATCAATAAGAAAATTGCAGAGAAAAATAAAAAGTGGAATa                                                  >  7:215063/1‑139 (MQ=255)
                                                                                        ctttAAATGCTGTAAATTACAAACGGCTGATGGTTCAATAAAAAACCCCGACTACATATTTCACTGAATTAACTGCGTTCTATTCGTATATGCCGATCAATAAGAAAATTGCGGAGAAAAATAAAAAGTGTAATACaaa                                              <  8:213734/136‑1 (MQ=255)
                                                                                        cAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGACTCCATATTTCACTGAATTAACTGCGTTCta                                                                                                       <  2:209669/82‑1 (MQ=255)
                                                                                        cAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGACTCCATATTTCACTGAATTAACTGCGTTCta                                                                                                       >  1:209669/1‑82 (MQ=255)
                                                                                          ttAAAAGCTTTTAATTAAAAAACGCTTATGGTTAAATTAAAAACCCCGACTCCATATTTCACTGAATTAACTGCGTTCTATACGTATATGCCGATCAATAAGAAAATTGCAGAGAAAAATAAAAAGTGGAATACAAATg                                            <  7:223653/138‑1 (MQ=255)
                                                                                           tAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGACTCCATATTTCACTGAATTAACTGCGTTCTATACGTATATGCCGATCAATAAGAAAATTGCAGAGAAAAATAAAAAGTGGAATACAAATGc                                           >  1:245006/1‑139 (MQ=255)
                                                                                            aaacGCTTTTAATCAAAAAACCCTCATGTTTAAAATAAAACACCCGACTCCATATTTCACTGAATTAACTGCGTTCTATACGTATATGCCGATCAATAAGAAAATTGCAGAGAAAAATAAAAAGTGGAATACAAATGc                                           <  3:211705/138‑1 (MQ=255)
                                                                                            aaaaGCTGTCAATTACAAAACGCTGAAGGTTGAATTAAAAACCCCGACTCCATATTTCACTGAATTAACTGCGTTCTATACGTATATGCCGATCAATAAGAAAATTGCAGAGAAAAATAAAAAGTGGAATACAAATGc                                           <  7:10903/138‑1 (MQ=255)
                                                                                             aaaGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGACTCCATATTTCACTGAATTAACTGCGTTCTATACGTATATGCCGATCAATAAGAAAATTGCAGAGAAAAATAAAAAGTGGAATACAAATGCCg                                         >  4:165920/1‑139 (MQ=255)
                                                                                                                cGCTGAAGGTTGAATTAAATAACCCGACTCCATATTTCACTGAATTAACTGCGTTCTATACGTATATGCCGATCAATAAGAAAATTGCAGAGAAAAATAAAAAGTGGAATACAAATGCCGGAGATGATTATGTATCaaa                      >  6:151247/1‑139 (MQ=255)
                                                                                                                     acggTTGAATTAAATAACCCGACTCCATATTTCACTGAATTAACTGCGTTCTATACGTATATGCCGATCAATAAGAAAATTGCAGAGAAAAATAAAAAGTGGAATACAAATGCCGGAGATGATTATGTATCAAACggg                  <  1:22474/136‑1 (MQ=255)
                                                                                                                     aaGGTTGAATTAAATAACCCGACTCCATATTTCACTGAATTAACTGCGTTCTATACGTATATGCCGATCAATAAGAAAATTGCAGAGAAAAATAAAAAGTGGAATACAAATGCCGGAGATGATTATGTATCAAACGGGc                 >  7:224124/1‑139 (MQ=255)
                                                                                                                         ttGAATTAAAAACCCCGACTCCATATTTCACTCAATTAACTGCGTTCTATACGTATATGCCGATCAATAATAAAATTGCAGAGAAAAATAAAAAGTGGAATACAAATGCCGGAGATGATTATGTATCAAACGGGCCGtt             <  8:46709/139‑1 (MQ=255)
                                                                                                                                    aaCCCGACTCCATATTTCACTGAATTAACTGCGTTCTATACGTATATGCCGATCAATAAGAAAATTGCAGAGAAAAATAAAAAGTGGAATACAAATGCCGGAGATGATTATGTATCAAACGGGCCGTTCAAAATGACgg  <  2:46706/139‑1 (MQ=255)
                                                                                                                                     |                                                                                                                                         
AATAATGAATCACAATACGCTTACCAGCTCTACTACATAAAAGGTGCTGAAGCGGCGAATACCGGAAAAGGCAGCCTAGACGATGTGGCAGTAAAAGCTGTGAATGACAAAACGCTGAAGGTTGAATTAAATAACCCGACTCCATATTTCACTGAATTAACTGCGTTCTATACGTATATGCCGATCAATAAGAAAATTGCAGAGAAAAATAAAAAGTGGAATACAAATGCCGGAGATGATTATGTATCAAACGGGCCGTTCAAAATGACGG  >  CP006881/1183276‑1183546

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑