Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 3,318,080 A→T 14.0% intergenic (‑74/+133) rimP ← / ← metY ribosome maturation factor for 30S subunits/tRNA‑Met

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,318,0800AT14.0% 154.5 / 18.8 57intergenic (‑74/+133)rimP/metYribosome maturation factor for 30S subunits/tRNA‑Met
Reads supporting (aligned to +/- strand):  ref base A (25/24);  new base T (5/3);  total (30/27)
Fisher's exact test for biased strand distribution p-value = 7.09e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.69e-01

AACCAGTTCAAAACCCAGGGCCTCAACTGGCGCAGTAATCATCTCTGTTAATTTTTGCTCTAATGTGGACAAGCCCACCCCCAAGACATAAAAAAAGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGAAGGATTTTTTCAAATCCCACTACGAAGGCCGAAGTCTTCACAGTATATTTGAAAAAGGACTCTAAGGGAAAGTGGTTGCGGGG  >  NC_000913/3317935‑3318223
                                                                                                                                                 |                                                                                                                                               
aaCCAGTTCAAAACCCAGGGCCTCAACTGGCGCAGTAATCATCTCTGTTAATTTTTGCTCTAATGTGGACAAGCCCACCCCCAAGACATAAAAAAAGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATc                                                                                                                                              >  4:377945/1‑149 (MQ=255)
  ccAGTTCACAACCCAGGGCCTCCACTGGCGCAGTAATCCTCTCTGTTATGTTTTGCTCTAATGTGGAGAAGCCCACCCCCAAGCCATAAAAAAATGGCCTAAAGCCCAGTTATTCGGTAGTCAGATAACAAAAAACCCCGATAATTCgg                                                                                                                                            <  4:243717/149‑1 (MQ=255)
     gTTCAAAACCCAGGGCCTCAACTGGCGCAGTAATCATCTCTGTTAATTTTTGCTCTAATGTGGACAAGCCCACCCCCAAGACATAAAAAAAGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGc                                                                                                                                         >  1:413451/1‑149 (MQ=255)
      ttCAAAACCCAGGGCCTCAACTGGCGCAGTAATCATCTCTGTTAATTTTTGCTCTAATGTGGACAAGCCCACCCCCAAGACATAAAAAAAGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATTTATCggggtt                                                                                                                                        <  2:239167/149‑3 (MQ=255)
         aaaaCCCAGGGCCTCAACTGGCGCAGTAATCATCTCTGTTAATTTTTGCTCTAATGTGGACAAGCCCACCCCCAAGACATAAAAAAAGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTta                                                                                                                                     >  1:249354/1‑149 (MQ=255)
         aaaaCCCAGGGCCTCAACTGGCGCAGTAATCATCTCTGTTAATTTTTGCTCTAATGTGGACAAGCCCACCCCCAAGACATAAAAAAAGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTta                                                                                                                                     >  1:252816/1‑149 (MQ=255)
          aaaCCCAGGGCCTCAACTGGCGCAGTAATCATCTCTGTTAATTTTTGCTCTAATGTGGACAAGCCCACCCCCAAGACATAAAAAAAGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCg                                                                                                                                             <  4:171616/140‑1 (MQ=255)
          aaaCCCAGGGCCTCAACTGGCGCAGTAATCATCTCTGTTAATTTTTGCTCTAATGTGGACAAGCCCACCCCCAAGACATAAAAAAAGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCg                                                                                                                                             >  3:171616/1‑140 (MQ=255)
          aaaCCCAGGGCCTCAACTGGCGCAGTAATCATCTCTGTTAATTTTTGCTCTAATGTGGACAAGCCCACCCCCAAGACATAAAAAAAGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTtat                                                                                                                                    >  3:377796/1‑149 (MQ=255)
          aaaCCCAGGGCCTCAACTGGCGCAGTAATCATCTCTGTTAATTTTTGCTCTAATGTGGACAAGCCCACCCCCAAGACATAAAAAAAGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTtat                                                                                                                                    >  3:127806/1‑149 (MQ=255)
          aaaCCCAGGGCCTCAACTGGCGCAGTAATCATCTCTGTTAATTTTTGCTCTAATGTGGACAAGCCCACCCCCAAGACATAAAAAAAGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTtat                                                                                                                                    <  2:249354/149‑1 (MQ=255)
              ccAGGGCCTCAACTGGCGCAGTAATCATCTCTGTTAATTTTTGCTCTAATGTGGACAAGCCCACCCCCAAGACATAAAAAAAGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTTATATaa                                                                                                                                <  1:117634/149‑1 (MQ=255)
                     cTCAACTGGCGCAGTAATCATCTCTGTTAATTTTTGCTCTAATGTGGACAAGCCCACCCCCAAGACATAAAAAAAGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAAcc                                                                                                                         >  3:17928/1‑149 (MQ=255)
                                           tctGTTAATTTTTGCTCTAATGTGGACAAGCCCACCCCCAAGACATAAAAAAAGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTg                                                                                                   >  2:414511/1‑149 (MQ=255)
                                                  aTTTTTGCTCTAATGTGGACAAGCCCACCCCCAAGACATAAAAAAAGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACt                                                                                            <  2:413451/149‑1 (MQ=255)
                                                          tctAATGTGGACAAGCCCACCCCCAAGACATAAAAAAAGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGaa                                                                                    >  3:53073/1‑149 (MQ=255)
                                                          tctAATGTGGACAAGCCCACCCCCAAGACATAAAAAAAGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGaa                                                                                    <  4:17928/149‑1 (MQ=255)
                                                            tAATGTGGACAAGCCCACCCCCAAGACATAAAAAAAGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGt                                                                                                      >  3:58404/1‑129 (MQ=255)
                                                            tAATGTGGACAAGCCCACCCCCAAGACATAAAAAAAGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGt                                                                                                      <  4:58404/129‑1 (MQ=255)
                                                            tAATGTGGACAAGCCCACCCCCAAGACATAAAAAAAGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGAAgg                                                                                  >  2:10160/1‑149 (MQ=255)
                                                              aTGTGGACAAGCCCACCCCCAAGACATAAAAAAAGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTta                                                                                                                                     <  3:129053/96‑1 (MQ=255)
                                                              aTGTGGACAAGCCCACCCCCAAGACATAAAAAAAGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTta                                                                                                                                     >  4:129053/1‑96 (MQ=255)
                                                                  ggACAAGCCCACCCCCAAGACATAAAAAAAGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGAAGGAttttt                                                                            <  2:316156/149‑1 (MQ=255)
                                                                   gACAAGCCCACCCCCAAGACATAAAAAAAGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGAAGGAtttttt                                                                           >  2:71209/1‑149 (MQ=255)
                                                                           cACCCCCAAGACATAAAAAAAGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGaa                                                                                    <  2:22166/132‑1 (MQ=255)
                                                                           cACCCCCAAGACATAAAAAAAGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGaa                                                                                    >  1:22166/1‑132 (MQ=255)
                                                                               cccAAGACATAAAAAAAGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGAAGGATTTTTTCAAATCCCACTa                                                               <  4:127806/149‑1 (MQ=255)
                                                                                 cAAGACATAAAAAAAGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGGACTTTCCAGAAGGATTTTTTCAAATCCCACTACg                                                             >  1:389713/1‑149 (MQ=255)
                                                                                   aGACATAAAAAAAGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGAAGGATTTTTTCAAATCCCACTACGaa                                                           <  1:414511/149‑1 (MQ=255)
                                                                                        tAAAAAAAGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGAAGGATTTTTTCAAATCCCACTACGAAGGCCg                                                      >  1:369757/1‑149 (MQ=255)
                                                                                          aaaaaaGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGAAGGATTTTTTCAAATCCCACTACGAAGGCCGaa                                                    <  2:252816/149‑1 (MQ=255)
                                                                                           aaaaaGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGaa                                                                                    <  4:344210/116‑1 (MQ=255)
                                                                                           aaaaaGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGaa                                                                                    >  3:344210/1‑116 (MQ=255)
                                                                                           aaaaaGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGAAGGATTTTTTCAAATCCCACTACGAAGGCCGAAg                                                   >  3:70737/1‑149 (MQ=255)
                                                                                                gggCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGAAGGATTTTTTCAAATCCCACTACGAAGGCCGAAGTCTTc                                              <  3:377945/149‑1 (MQ=255)
                                                                                                    cTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGAAGGATTTTTTCAAATCCCACTACGAAGGCCGAAGTCTTCACAg                                          >  2:348833/1‑149 (MQ=255)
                                                                                                         gCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGAAGGATTTTTTCAAATCCCACTACGAAGGCCGAAGTCTTCACAGTatat                                     <  2:389713/149‑1 (MQ=255)
                                                                                                                 aTTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGAAGGATTTTTTCAAATCCCACTACGAAGGCCGAAGTCTTCACAGTATATTTGaaaaa                             <  4:70737/149‑1 (MQ=255)
                                                                                                                 aTTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGAAGGATTTTTTCAAATCCCACTACGAAGGCCGAAGTCTTCACAGTATATTTGaaaaa                             <  4:53073/149‑1 (MQ=255)
                                                                                                                          tCAGATAACAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGAAGGATTTTTTCAAATCCCACTACGAAGGCCGAAGTCTTcac                                            >  3:270986/1‑125 (MQ=255)
                                                                                                                          tCAGATAACAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGAAGGATTTTTTCAAATCCCACTACGAAGGCCGAAGTCTTcac                                            <  4:270986/125‑1 (MQ=255)
                                                                                                                           cAGATAACAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGAAGGATTTTTTCAAATCCCACTACGAAGGCCGAAGTCTTCACAGTATATTTGAAAAAGGACTCTAAg                   <  2:369757/149‑1 (MQ=255)
                                                                                                                            aGATAACAAAAAACCTCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGAAGGATTTTTTCAAATCCCACTACGAAGGCCGAAGTCTTCACAGTATATTTGAAAAAGGACTCTAAgg                  >  4:454886/1‑149 (MQ=255)
                                                                                                                              gttatataaagCCCCGATTTATCGGGGTTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGAAGGATTTTTTCAAATCCCACTACGAAGGCCGAAGTCTTCACAGTATATTTGAAAAAGGACTCTAAGGGa                >  3:307933/8‑149 (MQ=255)
                                                                                                                               tAACAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGAAGGATTTTTTCAAATCCCACTACGAAGGCCGAAGTCTTCACAGTATATTTGAAAAAGGACTCTAAGGGaa               >  4:165315/1‑149 (MQ=255)
                                                                                                                                aaCAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGTAGCACTTTCCAGAAGGATTTTTTCAAATCCCATTACGAAGGCCGAAGTCTTc                                              <  4:403650/117‑1 (MQ=255)
                                                                                                                                aaCAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGAAGGATTTTTTCAAATCCCACTACGAAGGCCGAAGTCTTc                                              >  3:403650/1‑117 (MQ=255)
                                                                                                                                   aaaaaaCCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGAAGGATTTTTTCAAATCCCACTACGAAGGCCGAAGTCTTCACAGTATATTTGAAAAAGGACTCTAAGGGAAAGTg           <  4:377796/149‑1 (MQ=255)
                                                                                                                                    aaaaaCCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGAAGGATTTTTTCAAATCCCACTACGAAGGCCGAAGTCTTCACAGTATATTTGAAAAAGGACTCTAAGGGAAAGTgg          >  2:261670/1‑149 (MQ=255)
                                                                                                                                     aaagCCCCGATTTATCGGGGTTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGAAGGATTTTTTCAAATCCCACTACGAAGGCCGAAGTCTTCACAGTATATTTGAAAAAGGACTCTAAGGGAAAGTGGt         >  1:161492/1‑149 (MQ=255)
                                                                                                                                       agccccGATTTATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGTAGCACTTTCCAGAAGGATTTTTTCAAATCCCACTACGAAGGCCGAAGTCTTCACAGTATATTTGAAAAAGGACTCTAAGGGAAAGTGGTTg       >  3:326511/3‑149 (MQ=255)
                                                                                                                                        gccccGATTTATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGAAGGATTTTTTCAAATCCCACTACGAAGGCCGAAGTCTTCACAGTATATTTGAAAAAGGACTCTAAGGGAAAGTGGTTGc      >  3:362286/2‑149 (MQ=255)
                                                                                                                                        aCCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGAAGGATTTTTTCAAATCCCACTACGAAGGCCGAAGTCTTCACAGTATATTTGAAAAAGGACTCTAAGGGAAAGTGGTTGc      <  1:10160/149‑1 (MQ=255)
                                                                                                                                          cccGATTTATCGGGGTTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGAAGGATTTTTTCAAATCCCACTACGAAGGCCGaa                                                    >  3:382049/1‑101 (MQ=255)
                                                                                                                                          cccGATTTATCGGGGTTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGAAGGATTTTTTCAAATCCCACTACGAAGGCCGaa                                                    <  4:382049/101‑1 (MQ=255)
                                                                                                                                          cccGATTTATCGGGGTTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGAAGGATTTTTTCAAATCCCACTACGAAGGCCGAAGTCTTCACAGTATATTTGAAAAAGGACTCTAAGGGAAAGTGGTTGCgg    <  2:161492/149‑1 (MQ=255)
                                                                                                                                            cGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGAAGGATTTTTTCAAATCCCACTACGAAGGCCGAAGTCTTCACAGTATATTTGAAAAAGGACTCTAAGGGAAAGTGGTTGCgggg  <  1:348833/149‑1 (MQ=255)
                                                                                                                                                 |                                                                                                                                               
AACCAGTTCAAAACCCAGGGCCTCAACTGGCGCAGTAATCATCTCTGTTAATTTTTGCTCTAATGTGGACAAGCCCACCCCCAAGACATAAAAAAAGGGCCTAAAGCCCAGTTATTCTGTAGTCAGATAACAAAAAACCCCGATAAATCGGGGCTTTATATAACTGAACCCTATAACCGCAACTGCGGTCTGGAGCACTTTCCAGAAGGATTTTTTCAAATCCCACTACGAAGGCCGAAGTCTTCACAGTATATTTGAAAAAGGACTCTAAGGGAAAGTGGTTGCGGGG  >  NC_000913/3317935‑3318223

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: