Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 1,227,052 A→T 13.2% intergenic (+84/+19) ycgJ → / ← pliG uncharacterized protein/periplasmic inhibitor of g‑type lysozyme

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009131,227,0520AT13.2% 108.0 / 9.4 38intergenic (+84/+19)ycgJ/pliGuncharacterized protein/periplasmic inhibitor of g‑type lysozyme
Reads supporting (aligned to +/- strand):  ref base A (16/17);  new base T (2/3);  total (18/20)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.19e-01

TGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGTTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTACTTAATTTGAATATCGACGTTATATTTTTTAGTTTTGTTTTTACGGGCGTCGTTTCGGGTTTGCAACACTCGCAGCTCATATTTGCCAGAAGCAGGGAGTGAGTATTGTCCGTGACTATCG  >  NC_000913/1226917‑1227194
                                                                                                                                       |                                                                                                                                              
tGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGTTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGt                                                                                                                                    <  4:1131945/148‑1 (MQ=255)
            tcaaACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGTTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTACtt                                                                                                                        >  1:467659/1‑148 (MQ=255)
             caaACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGTTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTACGACGGGGACTCTCCCCGTcataa                                                                                                                                   <  4:867035/136‑5 (MQ=255)
             caaACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGTTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTACGACGGGGACTCTCCCCGTcataa                                                                                                                                   >  3:867035/1‑132 (MQ=255)
                   accacAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGTTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTACTTAATTTGa                                                                                                                 >  1:1014235/1‑148 (MQ=255)
                                   ttatGTGTCGTGAGTGATGTCTTGTTTACATTATGTTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCg                                                                                                                                         >  2:404082/1‑108 (MQ=255)
                                   ttatGTGTCGTGAGTGATGTCTTGTTTACATTATGTTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCg                                                                                                                                         <  1:404082/108‑1 (MQ=255)
                                       gtgtCGTGAGTGATGTCTTGTTTACATTATGTTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTACTTAATTTGAATATCg                                                                                                           <  4:557193/134‑1 (MQ=255)
                                       gtgtCGTGAGTGATGTCTTGTTTACATTATGTTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTACTTAATTTGAATATCg                                                                                                           >  3:557193/1‑134 (MQ=255)
                                           cGTGAGTGATGTCTTGTTTACATTATGTTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTa                                                                                                                           <  2:876759/114‑1 (MQ=255)
                                           cGTGAGTGATGTCTTGTTTACATTATGTTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTa                                                                                                                           >  1:876759/1‑114 (MQ=255)
                                                  gaTGTCTTGTTTACATTATGTTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTACTTaa                                                                                                                      <  2:1024219/112‑1 (MQ=255)
                                                  gaTGTCTTGTTTACATTATGTTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTACTTaa                                                                                                                      >  1:1024219/1‑112 (MQ=255)
                                                       cTTGTTTACATTATGTTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTACTTAATTTGAATATCGACGTTATAtttt                                                                                               <  3:762172/130‑1 (MQ=255)
                                                       cTTGTTTACATTATGTTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTACTTAATTTGAATATCGACGTTATAtttt                                                                                               >  4:762172/1‑130 (MQ=255)
                                                         tGTTTACATTATGTTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTATCGTTTATGACGGGGAGAGTGCCCGTCgg                                                                                                                                     >  4:453619/1‑90 (MQ=255)
                                                         tGTTTACATTATGTTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCgg                                                                                                                                     <  3:453619/90‑1 (MQ=255)
                                                                     gTTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACAt                                                                                                                              <  4:1102854/85‑1 (MQ=255)
                                                                     gTTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACAt                                                                                                                              >  3:1102854/1‑85 (MQ=255)
                                                                       tCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGt                                                                                                                                    <  3:71175/77‑1 (MQ=255)
                                                                       tCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGt                                                                                                                                    >  4:71175/1‑77 (MQ=255)
                                                                       tCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTACTTAATTTGAATATCGACGt                                                                                                       <  3:649378/106‑1 (MQ=255)
                                                                       tCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTACTTAATTTGAATATCGACGt                                                                                                       >  4:649378/1‑106 (MQ=255)
                                                                         tATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTACTTaa                                                                                                                      >  2:470774/1‑89 (MQ=255)
                                                                         tATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTACTTaa                                                                                                                      <  1:470774/89‑1 (MQ=255)
                                                                            tCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGACTCTCCCCGt                                                                                                                                        <  4:90903/68‑1 (MQ=255)
                                                                            tCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGACTCTCCCCGt                                                                                                                                        >  3:90903/1‑68 (MQ=255)
                                                                                     aCCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACAttt                                                                                                                            >  4:789655/1‑71 (MQ=255)
                                                                                     aCCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACAttt                                                                                                                            <  3:789655/71‑1 (MQ=255)
                                                                                                  cAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGt                                                                                                                                    >  2:184428/1‑50 (MQ=255)
                                                                                                  cAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGt                                                                                                                                    <  1:184428/50‑1 (MQ=255)
                                                                                                      gaggagTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTACTTAATTTGAATATCGa                                                                                                          >  2:124910/1‑72 (MQ=255)
                                                                                                      gaggagTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTACTTAATTTGAATATCGa                                                                                                          <  1:124910/72‑1 (MQ=255)
                                                                                                        ggagTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTACTTAATTTGAATATCGACGTTATATTTTTTAGTTTTGTTTTTACGGGCGTCGTTTCGGGTTTGCAACACTCGCAGCTCATATTTGCCAGAAGCAg                            <  2:1014235/148‑1 (MQ=255)
                                                                                                                               aCGGGGACTCTCCCCGTCGGTTGACATTTACTTAATTTGAATATCGACGTTATATTTTTTAgttttg                                                                                      <  2:326403/67‑1 (MQ=255)
                                                                                                                                cGGGGAGAGTCCCCGTCGGTTGACATTTACTTAATTTGAATATCGACGTTATATTTTTTAgt                                                                                          >  1:313083/1‑62 (MQ=255)
                                                                                                                                cGGGGAGAGTCCCCGTCGGTTGACATTTACTTAATTTGAATATCGACGTTATATTTTTTAgt                                                                                          <  2:313083/62‑1 (MQ=255)
                                                                                                                                  gggAGAGTCCCCGTCGGTTGACATTTACTTAATTTGAATATCGACGTTATATTTTTTAGTTTTGTTTTTACGGGCGTCGTTTCGGGTTTGCAACACTCGCAGCTCATATTTGCCAGAAGCAGGGAGTGAGTATTGTCCGTGACTATCg  <  2:467659/148‑1 (MQ=255)
                                                                                                                                       |                                                                                                                                              
TGGAAAAATCAATCAAACCACCACAAAGATGTTATTTATGTGTCGTGAGTGATGTCTTGTTTACATTATGTTCTATTCGTCATTAACCTCTTGAGCGACAGAGAGGAGTGGGGCATTAACGTTTATGACGGGGAGAGTCCCCGTCGGTTGACATTTACTTAATTTGAATATCGACGTTATATTTTTTAGTTTTGTTTTTACGGGCGTCGTTTCGGGTTTGCAACACTCGCAGCTCATATTTGCCAGAAGCAGGGAGTGAGTATTGTCCGTGACTATCG  >  NC_000913/1226917‑1227194

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: