Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 3,616,394 C→A 7.5% T71T (ACC→ACA)  nikC → Ni(2(+)) ABC transporter membrane subunit NikC

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,616,3940CA 7.5% 133.4 / 3.7 54T71T (ACC→ACA) nikCNi(2(+)) ABC transporter membrane subunit NikC
Reads supporting (aligned to +/- strand):  ref base C (25/25);  new base A (2/2);  total (27/27)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.83e-01

TTGCGCTCACCAGCCAGTGGTGGCTGCCGTATGACCCACAGGCGATTGATTTGCCGTCGCGCCTGCTTTCGCCGGATGCGCAGCACTGGCTGGGCACCGATCACTTAGGTCGCGATATTTTCTCGCGGCTGATGGCAGCGACCCGCGTGTCGCTCGGTTCGGTAATGGCCTGCCTGCTGCTGGTGCTGACATTAGGGCTGGTTATTGGCGGCAGCGCCGGGTTGATTGGCGGGCGCGTTGATCAGGCCACCATGCGCGTCGCCGATATGTTTATGACCTTCCCGA  >  NC_000913/3616252‑3616536
                                                                                                                                              |                                                                                                                                              
ttGCGCTCACCAGCCAGTGGTGGCTGCCGTATGACCCACAGGCGATTGATTTGCCGTCGCGCCTGCTTTCGCCGGATGCGCAGCACTGGCTGGGCACCGATCACTTAGGTCGCGATATTTTCTCGCGGCTGATGGCAGCGAcc                                                                                                                                                >  1:393349/1‑143 (MQ=255)
   cgcTCACCAGCCAGTGGTGGCTGCCGTATGACCCACAGGCGATTGATTTGCCGTCGCGCCTGCTTTCGCCGGATGCGCAGCACTGGCTGGGCACCGATCACTTAGGTCGCGATATTTTCTCGCGGCTGATGGCAGCGACCcgc                                                                                                                                             >  1:163372/1‑143 (MQ=255)
   cgcTCACCAGCCAGTGGTGGCTGCCGTATGACCCACAGGCGATTGATTTGCCGTCGCGCCTGCTTTCGCCGGATGCGCAGCACTGGCTGGGCACCGATCACTTAGGTCGCGATATTTTCTCGCGGCTGATGGCAGCGACCcgc                                                                                                                                             >  2:341666/1‑143 (MQ=255)
   cgcTCACCAGCCAGTGGTGGATTACTTATTACCCACAGGCGATTGATTTGCCGTCGCGCCTGCTTTCGCCGGATGCGCAGCACTGGCTGGGCACCGATCACTTAGGTCGCGATATTTTCTCGCGGCTGATGGCAGCGACCcgc                                                                                                                                             <  2:142317/143‑1 (MQ=255)
     cTCACCAGCCAGTGGTGGCTGCCGTATGACCCACAGGCGATTGATTTGCCGTCGCGCCTGCTTTCGCCGGATGCGCAGCACTGGCTGGGCACCGATCACTTAGGTCGCGATATTTTCTCGCGGCTGATGGCAGCGACCCGCgt                                                                                                                                           <  1:5842/143‑1 (MQ=255)
           cgccagGGGTGGCGGCCGTATGACCCACAGGCGATTGATTTGCCGTCGCGCCTGCTTTCGCCGGATGCGCAGCACTGGCTGGGCACCGATCACTTAGGTCGCGATATTTTCTCGCGGCTGATGGCAGCGACCCGCGTGTCGCt                                                                                                                                     <  2:126192/142‑1 (MQ=255)
            tcgagTGGTGGCTGCCGTAGGACCCACAGGCGAGTGATTTGCCGTCGCGCCTGCTTTCGCCGGAGGCGCAGCACTGGCTGGGCACCGATCACTTAGGTCGCGATATTTTCTCGCGGCTGATGGCAGCGACCCGCGTGTCGCtc                                                                                                                                    <  2:545958/140‑1 (MQ=255)
            gcccgTGGTGGCTGCCGTATGACCCACAGGCGATTGATTTGCCGTCGCGCCTGCTGTCGCCGGATGCGCAGCACTGGCTGGGCACCGATCACTTAGGTCGCGATATTTTCTCGCGGCTGATGGCAGCGACACGCGGGTCGCtg                                                                                                                                    <  1:266203/143‑2 (MQ=255)
            gccagTGGTGGCTGCCGTATGACCCACAGGCGATTGATTTGCCGTCGCGCCTGCTTTCGCCGGATGCGCAGCACTGGCTGGGCACCGATCACTTAGGTCGCGATATTTTCTCGCGGCTGATGGCAGCGACACGCGGGTCGCtg                                                                                                                                    <  1:887580/143‑2 (MQ=255)
            gccagTGGTGGCTGCCGTATGACCCACAGGCGATTGATTTGCCGTCGCGCCAGCTTTCGCCGGATGCGCAGCCCTGGCCGGGCACCGCTGACTGAGGTCGAGATATGTTCTCGGGGCTGATGGCAGCGACCCGCGTGTCGCtg                                                                                                                                    >  2:708746/1‑142 (MQ=255)
                   gtggCTGCCGTATGACCCACAGGCGATTGATTTGCCGTCGCGCCTGCTTTCGCCGGATGCGCAGCACTGGCTGGGCACCGATCACTTAGGTCGCGATATTTTCTCGCGGCTGATGGCAGCGACCCGCGTGTCGCtcggttcgg                                                                                                                             >  1:179685/1‑143 (MQ=255)
                     ggCTGCCGTATGACCCACAGGCGATTGATTTGCCGTCGCGCCTGCTTTCGCCGGATGCGAAGCACTGGCTGGGCACCGCTCACTTAGCACGCGATGTTTTCTCGCGGCCGATGGCAGCGACCAGCGTGTAGCgcgggacggga                                                                                                                           >  2:544611/1‑136 (MQ=255)
                      gCTGCCGTATGACCCACAGGCGATTGATTTGCCGTCGCGCCTGCTTTCGCCGGATGCGCAGCACTGGCTGGGCACCGATCACTTAGGTCGCGATATTTTCTCGCGGCTGATGGCAGCGACCCGCGTGTCGCTCGGTTCGGTaa                                                                                                                          <  1:881937/143‑1 (MQ=255)
                      gCTGCCGTATGACCCACAGGCGATTGATTTGCCGTCGCGCCTGCTTTCGCCGGATGCGCAGCACTGGCTGGGCACCGATCACTTAGGTCGCGATATTTTCTCGCGGCTGATGGCAGCGACCCGCGTGTCGCTCGGTTCGGCaa                                                                                                                          >  2:424738/1‑143 (MQ=255)
                         gCCGTCTCACCCACGGGCGATTGATTTGCCGTCGCGCCTGCTTTCGCCGGATGCGCAGCACTGGCTGGGCACCGATCACTTAGGTCGCGATATTTTCTCGCGGCTGATGGCAGCGACCCGCGTGTCGCTCGGTTCGGTAATgg                                                                                                                       <  2:733564/143‑1 (MQ=255)
                            gTAGGACCCACAGGCGATTGATTTGCCGTCGCGCCTGCTTTCGCCGGATGCGCAGCACTGGCTGGGCACCGATCACTTAGGTCGCGATATTTTCTCGCGGCTGATGTCAGCGACCCGCGTGTCGCTCGGTTCGGTAATGgcct                                                                                                                    <  1:588590/143‑1 (MQ=255)
                                 aCCCACAGGCGATTGATTTGCCGTCGCGCCTGCTTTCGCCGGATGCGCAGCACTGGCTGGGCACCGATCACTTAGGTCGCGATATTTTCTCGCGGCTGATGGCAGCGACCCGCGTGTCGCTCGGGTCGGTAATGGcctgcctg                                                                                                               >  1:777807/1‑143 (MQ=255)
                                   ccACAGGCGATTGATTTGCCGTCGCGCCTGCTTTCGCCGGATGCGCAGCACTGGCTGGGCACCGCTCACTTAGGTCGCGATATTTTCTCGCGGCTGATGGCAGCGACCCGCGGGTCGCCCGGTCCGGCCATGGCctccccgcc                                                                                                             >  2:806859/1‑142 (MQ=255)
                                     acaGGCGATTGATTTGCCGTCGCGCCTGCTTTCGCCGGATGCGCAGCACTGGCTGGGCACCGATCACTTAGGTCGCGATATTTTCTCGCGGCTGATGGCAGCGACCCGCGTGTCGCTCGGTTCGGTAATGGCCTGCctgctgc                                                                                                           <  1:678157/143‑1 (MQ=255)
                                       aGGCGATTGATTTGCCGTCGCGCCTGCTGTCGCCGGATGCGCAGCACTGGCTGGGCACCGATCACTTAGGTCGCGATATTTTCTCGCGGCTGATGGCAGCGACCCGCGTGTCGCTCGGTTCGGTAATGGCCTGCctgctgctg                                                                                                         <  2:74549/143‑1 (MQ=255)
                                            attgattTGCCGTCGCGCCTGCTTTCGCCGGATGCGCAGCACTGGCTGGGCACCGATCACTTAGGTCGCGATATTTTCTCGCGGCTGATGGCAGCGACCCGCGTGTCGCTCGGTTCGGCCCTGGCCTGCCCGCTGCTGGTGCt                                                                                                    >  1:155928/1‑143 (MQ=255)
                                            atggattTGCCGTCGCGCCTGCTTTCGCCGGATGCGCAGCGCTGGCTGGGCACCGATCACTTAGGTCGCGATATTGTCTCGCGGCTGATGGCAGCGACCCGCGTGTCGCTCGGTTCGGTAATGGCCTGCCTGCTGCTGGTGCt                                                                                                    <  1:819392/140‑1 (MQ=255)
                                                 tttGCCGTCGCGCCTGCTTTCGCCGGATGCGCAGCACTGGCTGGGCACCGATCACTTAGGTCGCGATATTTTCTCGCGGCTGATGGCAGCGACCCGCGTGTCGCTCGGTTCGGTAATGGCCTGCCTGCTGCTGGTGCTGGCAt                                                                                               >  1:670717/1‑143 (MQ=255)
                                                 tttGCCGTCGCGCCTGCTTTCGCCGGATGCGCAGCACTGGCTGGGCACCGATAACTTAGGTCGCGATATTTTCTCGCGGCTGATGGCAGCGACCCGCGTGTCGCTCGGTTCGGTAATGGCCCGCCTGCTCCTGGTGCTGACag                                                                                               >  2:835568/1‑142 (MQ=255)
                                                   tGCCGTCGCGCCTGCTTTCGCCGGATGCGCAGCACTGGCTGGGCACCGATCACTTAGGTCGCGATATTCTCCCGCGGCTGATGGCAGCGACCCGCGTGTCGCTCGGTTCGGTAATGGCCTGCCTGCTGCTGGTGCTGACAtaa                                                                                             <  1:628853/143‑3 (MQ=255)
                                                     ccGTCGCGCCTGCTTGCGCCGGATGCGCAGCACTGGCTGGGCACCGATCACTTAGGTCGCGATATTTTCTCGCGGCTGATGGCAGCGACCCGCGTGTCGCTCGGTTCGGTAATGGCCTGCCTGCTGCTGGTGCTGACATTAgg                                                                                           <  1:812720/143‑1 (MQ=255)
                                                             ccTGCGTTCGCCGGATGCGCAGCACTGGCTGGGCACCAATCACTTAGGTCGCGATATTTTCTCGCGGCTGATGGCAGCGACCCGCGTGTCGCTCGGTTCGGTAATGGCCTGCCTGCTGCTGGTGCTGACATTAGGGCTGGTTa                                                                                   <  1:484614/143‑1 (MQ=255)
                                                               tGCTCTCCCCGAATGCGCAGCACTGGCTGGGCACCGATCACTTAGGTCGCGATATTTTCTCGCGGCTGATGGCAGCGACCCGCGTGTCGTTCGGTTCGGTAATGGCCTGCCTGCTGCTGGTGCTGACATTAGGGCTGGTTAtt                                                                                 <  2:79511/143‑1 (MQ=255)
                                                                  tttCGCCGGATGCGCAGCACTGGCTGGACACCGATCACTTAGGTCGCGATATTTTCTCGCGGCTGATGGCAGCGACCCGCGTGTCGCTCAGTTAGGTAATGGCCTGCCTGCTGCTGGTGCTGACATTAAGGCTGGTGATAggc                                                                              >  2:163616/1‑143 (MQ=255)
                                                                      gCCGGATGCGCAGCACTGGCTGGGCACCGATCACTTAGGTCGCGATATTTTCTCGCGGCTGATGGCAGCGACCCGCGTGTCGCTCGGTTCGGTAATGGCCTGCCTGCTGCTGGTGCCGACCTTCGGGCTGGTTATTGGCGGCa                                                                          >  2:750952/1‑143 (MQ=255)
                                                                             gcgcAGCACTGGCTGGGCACCGATCCCTTAGGTCGCGATATTTTCTCGCGGCTGATGGCAGCGACCCGCGTGTCGCTCGGTTCGGTAATGGCCTGCCTGCTGCTGGTGCTGACACTAGGGCTGGGCATTCGCGGCCGCGCCgg                                                                   >  2:856091/1‑143 (MQ=255)
                                                                             gcgcAGCACTGGCTGGGCACCGATCACTTAGGTCGCGATATTTTCTCGCGGCTGATGGCAGCGACCCGCGTGTCGCTCGGTTCGGTAATGGCCTGCCTGCGGCTGGTGCTGAGATGAGGGCGGGTTATTGGCGGAAgcagcgg                                                                   >  2:750972/1‑138 (MQ=255)
                                                                                 agcaCTGGCTGGGCACCGATCACTTAGGTCGCGATATTTTCTCGCGGCTGATGGCAGCGACCCGCGTGTCGCTCGGTTCGGTAATGGCCTGCCTGCTGCTGGTGCTGACATTAGGGCTGGTTATTGGCGGCAGCGCCGGGTTg                                                               >  1:721/1‑143 (MQ=255)
                                                                                       ggcttgGCACCGATCACTTAGGGCGCGATATTTCCTCGCGGCGCATGGCAGCGACCCGCGTGTCGCTCGGTTCGGTAATCGCCTGCCTGCTGCTGGTGCTGACATTAGGGCTGGTTATTGGCGGCAGCGCCGGGTTGATTggc                                                         <  1:294215/143‑1 (MQ=255)
                                                                                            ggCACCGATCACTTAGGTCGCGATAGTTTCTCGCGGCTGATGGCAGCGACCCGCGTGTCGCTCGGTTCGGTAATGGACTGCCTGCTGCTGGTGCTGACATTAGGGCTGGTTATTGGCGGCAGCGCCGGGTTGATTggcgggcg                                                    <  1:341666/143‑1 (MQ=255)
                                                                                               aCCGATCACTTAGGTCGCGATATTTTCTCGCGGCTGATGGCAGCGACCCGCGTGTCGCTCGGTTCGGTAATGGCCTGCCTGCTGCTGGTGCTGACATTAGGGCTGGTTATTGGCGGCAGCGCCGGGTTGATTGGCGGGCGCGt                                                 >  1:65732/1‑143 (MQ=255)
                                                                                                      gcTTAGGTCGCGATTTTGTCTGGCGGCTGAGGGCAGCGACCCGCGTGTCGCTCGGTTCGGTAATGGCCTGCCTGCTGCTGGTGCTGACATTAGGGCTGGTTATTGGCGGCAGCGCCGGGTTGATTGGCGGGCGCGTTGATCAg                                          <  1:718693/142‑1 (MQ=255)
                                                                                                          gggTCGCGATTTTGTCTCGCGGCTGAGGGCAGCGACCTGCGTGTCGCTCGGTTCGGTAATGGCCTGCCTGCTGCTGGTGCTGACATTAGGGCTGGTTATTGGCGGCAGCGCCGGGTTGATTGGCGGGCGCGTTGATCAGGcca                                      <  2:74542/142‑1 (MQ=255)
                                                                                                              cgcgATATTTTCTCGCGGCTGATGGCAGCGACCCGCGTGTCGCTCGGTTCGGTAATGGCCTGCCTGCTGCTGGTGCTGACATTAGGGCTGGTTATTGGCGGCAGCGCCGGGTTGATTGGCGGGCGCGTTGATCAGGCCACCAt                                  >  2:579012/1‑143 (MQ=255)
                                                                                                              cgcgATATTTTCTCGCGGCTGATGGCAGCGACCCGCGTGTCGCGCGGTTCGGTAATGGCCTGCCTGCTGCTGGTGCTGACATTAGGGCTGGTTATTGGCGGCAGCGCCGGGTTGATTGGCGGGCGCGTTGATCAGGCCACCAt                                  <  2:179685/143‑1 (MQ=255)
                                                                                                                  atatTTTCTCGCGGCTGATGGCAGCGACCCGCGTGTCGCTCGGTTCGGTAATGGCCTGCCTGCTGCTGGTGCTGACATTAGGGCTGGTTATTGGCGGCAGCGCCGGGTTGATTGGCGGGCGCGTTGATCAGGCCACCATgcga                              >  1:326706/1‑142 (MQ=255)
                                                                                                                       ttCTCGCGGCTGATGGCAGCGACCCGCGTGTCGCTCGGTTCGGTAATGGCCTGCCTGCTGCTGGTGCTGACATTAGGGCTGGTTATTGGCGGCAGCGCCGGGTTGATTGGCGGGCGCGTTGATCAGGCCACCATGCGCGTCGc                         >  1:506084/1‑143 (MQ=255)
                                                                                                                          tcGCGGCTGATGGCAGCGACCCGCGTGTCGCTCGGTTCGGTAATGGCCTGCCTGCTGCTGGTGCTGACATTAGGGCTGGTTATTGGCGGCAGCGCCGGGTTGATTGGCGGGCGCGTTGATCAGGCCACCATGCGCGTCGCCGa                      <  1:432009/143‑1 (MQ=255)
                                                                                                                              ggCTGATGGCAGCGACCCGCGTTTCGCTCGGTGCGGTAATGGACTGCCTGCTGCTGGTGATGAAATTAGGGCTGGTTATTGGCGGGAGCGCCGGGTTGATTGGCGGGCGCGTTGCTCAGGCCACAATGCGCGTCGCCGATATg                  >  1:195331/1‑143 (MQ=255)
                                                                                                                               gcggATGGCAGCGACCCGAGCGTCGCTCGGTTCGGGTGTGTCCCACCATCAGCTGGTGCTGACATTAGGGCTGGTTATGGGCGGCAGCGCCGGGTTGATTGGCGGGCGCGTTGATCAGGCCACCATGCGCGTCGCCGATATGt                 <  1:202689/140‑1 (MQ=255)
                                                                                                                               gCTGATGGCAGCGTCCCGCGTGTCGCTCGGTTCGGTAATGGCCTGCCTGCTGCTGGTGCTGACATTAGGGCTGGTTATTGGCGGCAGCGCCGGGTTGATTGGCGGGCGCGTTGATCAGGCCACCATGCGCGTCGCCGATATGt                 <  2:163372/143‑1 (MQ=255)
                                                                                                                               gCTGATGGCAGCGACCCGCGTGTCGCTCGGTCCGCTGATGGCCGGCCTGCTGCTGGTGCTGACATTAGGGCTGGTTATTGGCGGCAGCGCCGGGTTGATTGGCGGGCGCGTTGATCAGGCCACCATGCGCGTCGCCGATATGt                 >  1:625511/1‑143 (MQ=255)
                                                                                                                                cTGTTGGCAGCGACCCGCGTGTCCCACCAAACCCGATTTGTCTGCCTGCTGCTGGTGCTGACATTAGGGCTGGTTATTGGCGGCAGCGCCGGGTTGATTGGCGGGCGCGTTGATCAGGCCACCATGCGCGTCGCCGATATGtt                <  1:164778/143‑1 (MQ=255)
                                                                                                                                 tGATGGCAGCGACCCGCGTGTCGCGCGGTTCGGTAATGGCCTGCCTGCTGCTGGTGCGGACATCAGGGCTGGTGATCGGCGGCAGCGCCGGGTTGATTGGCGGGCGCGTTGATCAGGCCACCATGCGCGTCGCCGATATGttt               <  1:17093/143‑1 (MQ=255)
                                                                                                                                   aaccgaGCGACACGCGGGTCGCTCGGTTCGGTAATGGCCTGCCTGCTGCTGGTGCTGACATTAGGGCTGGTTATTGGCGGCAGCGCCGGGTTGATTGGCGGGCGCGTTGATCAGGCCACCATGCGCGTCGCCGATATGCTTAt             >  1:552157/6‑143 (MQ=255)
                                                                                                                                    tGGCAGCGACCCGGGTGTCGCTCGGTTCGGTAATGGCCTGCCTGCTGCTGGTGCTGACATTAGGGCTGGTTATTGGCGGCAGCGCCGGGTTGATTGGCGGGCGCGTTGATCAGGCCACCATGCGCGTCGCCGATATGTTTATg            <  2:82353/143‑1 (MQ=255)
                                                                                                                                    tGGCAGCGACCCGCGTGTCGCTCGGTTCGGTAATGGCCTGCCTGCTGCTGGTGCTGACATTAGGGCTGGTTCTTGGCGGCCGCGCCGGGTTGCTTGGCGGGCGCGTTGATCAGACCACCAAGAGCGACGCCGAAATATTTATg            >  1:262572/1‑143 (MQ=255)
                                                                                                                                      cgaGCGACACGCGGGTCGCTCGGTTCGGTAATGGCCTGCCTGCTGCTGGTGCTGACATTAGGGCTGGTTATTGGCGGCAGCGCCGGGTTGATTGGCGGGCGCGTTGATCAGGCCACCACGCGCGTCGCCGATATGtttcggac          >  2:488815/3‑138 (MQ=255)
                                                                                                                                       cAGCGACCCGCGTGTCGCTCGGTTCGGTAATGGCCTGCCTGCTGCTGGTGCTGACATTAGGGCTGGTTATTGGCGGCAGCGCCGGGTTGATTGGCGGGCGCGTTGATCAGGCCACCATGCGCGTCGCCGATATGTTTATGAcc         >  1:832977/1‑143 (MQ=255)
                                                                                                                                        aGCGACCCGCGTGTCGCTCGGTTCGGTAATGGCCTGCCTGCTGCTGGTGCTGACATTAGGGCTGGTTATTGGCGGCAGCGCCGGGTTGATTGGCGGGCGCGTTGATCAGGCCACCATGCGCGTCGCCGATATGTTTATGACCt        >  1:650363/1‑143 (MQ=255)
                                                                                                                                              ccGCGTGTCGCTCGGTTCGGTAATGGCCTACCTGCTGCTGGTGCTGACATTAGGGCTGGTTATTGGCGGCAACGCCCGGTTGATTGACGGGCGCGTTGATCAGGCCACCATGCGCATCGCCGATATGTTTATGACCTTCCCGa  >  2:494594/1‑143 (MQ=255)
                                                                                                                                              |                                                                                                                                              
TTGCGCTCACCAGCCAGTGGTGGCTGCCGTATGACCCACAGGCGATTGATTTGCCGTCGCGCCTGCTTTCGCCGGATGCGCAGCACTGGCTGGGCACCGATCACTTAGGTCGCGATATTTTCTCGCGGCTGATGGCAGCGACCCGCGTGTCGCTCGGTTCGGTAATGGCCTGCCTGCTGCTGGTGCTGACATTAGGGCTGGTTATTGGCGGCAGCGCCGGGTTGATTGGCGGGCGCGTTGATCAGGCCACCATGCGCGTCGCCGATATGTTTATGACCTTCCCGA  >  NC_000913/3616252‑3616536

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑