Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 3,229,158 T→C 9.2% M191T (ATG→ACG)  PP_2829 → GntR family transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029473,229,1580TC 9.2% 113.0 / 2.9 44M191T (ATG→ACG) PP_2829GntR family transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base T (17/22);  new base C (2/2);  total (19/25)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.37e-01

TACTGGCATGCCGATGACGTCCATCTGGCCCCCGATGTGCTCGCGTTGCTGGAGACGCTGCTAGCGGCGCTGGCCCT‑‑TCAAGGTGGTACCGCATTGGTGCATTCGCCCTGTTGCTGGCAAGTGTTGCGCGCCCTGGCGCGTGCCGGCATGCGCGTGCTGGAGGCACCACTGGATGCCCGTGGCAACCCCGAGCTGCACGCGTTGGCCAAGCTGCTGGGTAGCGAGCCGGTAAGCCTGCTGATCATGCCGTCTTGCCTGGGCATGCCACAAGGGCGGCTGGTTTCCCC  >  NC_002947/3229010‑3229296
                                                                                                                                                      |                                                                                                                                          
tACTGGCATGCCGATGACGTCCATCTGGCCCCCGATGTGCTCGCGTTGCTGGCGACGCTGCTAGCGGCGCTGGCCCT‑‑TCAAGGTGGTACCGCATTGGTGCATTCGCCCTGTTGCTGGCAAGTGTTGCGCGCCCTGGCGCGTGCCGGCATg                                                                                                                                           >  1:296395/1‑150 (MQ=255)
 aCTGGCATGCCGATGACGTCCATCTGGCCCCCGATGTGCTCGCGTTGCTGGAGACGCTGCTAGC‑GCG‑TGCCACTGGTCAAGGTGGTACCGCATTGGTGCATTCGCCCTGTTGCTGGCAAGTGTTGCGCGCCCTGGCGCGTGCCGGCATgc                                                                                                                                          <  1:568589/150‑1 (MQ=255)
   tGGCATGCCGATGACGTCCATCTGGCCCCCGATGTGCTCGCGTTGCTGGAGACGCTGCTAGCGGCGCTGGCCCT‑‑TCAAGGTGGTACCGCATTGGTGCATTCGCCCTGTTGCTGGCAAGTGTTGCGCGCCCTGGCGCGTGCCGGCATgcgc                                                                                                                                        <  2:395593/150‑1 (MQ=255)
           cGATGACGTCCATCTGGCCCCCGATGTGCTCGCGTTGCTGGAGACGCTGCTAGCGGCGCTGGCCCT‑‑TCAAGGTGGTACCGCATTGGTGCATTCGCCCTGTTGCTGGCAAGTGTTGCGCGCCCTGGCGCGTGCCGGCATGCGCGTGCTGGa                                                                                                                                <  2:525029/150‑1 (MQ=255)
           cGATGACGTCCATCTGGCCCCCGATGTGCTCGCGTTGCTGGAGACGCTGCTAGCGGCGCTGGCCCT‑‑TCAAGGTGGTACCGCATTGGTGCATTCGCCCTGTTGCTGGCAAGTGTTGCGCGCCCTGGCGCGTGCCGGCATGCGCGTGCTGGa                                                                                                                                >  1:578199/1‑150 (MQ=255)
             aTGACGTCCATCTGGCCCCCGATGTGCTCGCGTTGCTGGAGACGCTGCTAGCGGCGCTGGCCCT‑‑TCAAGGTGGTACCGCATTGGTGCATTCGCCCTGTTGCTGGCAAGTGTTGCGCGCCCTGGCGCGTGCCGGCATGCGCGTGCTGGAgg                                                                                                                              <  1:585851/150‑1 (MQ=255)
                 cGTCCATCTGGCCCCCGATGTGCTCGCGTTGCTGGAGACGCTGCTAGCGGCGCTGGCCCT‑‑TCAAGGTGGTACCGCATTGGTGCATTCGCCCTGTTGCTGGCAAGTGTTGCGCGCCCTGGCGCATGCCGGCACgcgccagg                                                                                                                                    >  1:541643/1‑136 (MQ=255)
                 cGTCCATCTGGCCCCCGATGTGCTCGCGTTGCTGGAGACGCTGCTAGCGGCGCTGGCCCT‑‑TCAAGGTGGTACCGCATTGGTGCATTCGCCCTGTTGCTGGCAAGTGTTGCGCGCCCTGGCGCATGCCGGCACgcgccagg                                                                                                                                    <  2:541643/140‑5 (MQ=255)
                  gTCCATCTGGCCCCCGATGTGCTCGCGTTGCTGGAGACGCTGCTAGCGGCGCTGGCCCT‑‑TCAAGGTGGTACCGCATTGGTGCATTCGCCCTGTTGCTGGCAAGTGTTGCGCGCCCTGGCGCGTGCCGGCATGCGCGTGCTGGAGGcacca                                                                                                                         >  1:525220/1‑150 (MQ=255)
                       tCTGGCCCCCGATGTGCTCGCGTTGCTGGAGACGCTGCTAGCGGCGCTGGCCCT‑‑TCAAGGTGGTACCGCATTGGTGCATTCGCCCTGTTGCTGGCAAGTGTTGCGCGCCCTGGCGCGTGCCGGCATGCGCGTGCTGGAGGCACCACTGGa                                                                                                                    <  2:296395/150‑1 (MQ=255)
                         tGGCCCCCGATGTGCTCGCGTTGCTGGAGACGCTGCTAGCGGCGCTGGCCCT‑‑TCAAGGTGGTACCGCATTGGTGCATTCGCCCTGTTGCTGGCAAGTGTTGCGCGCCCTGGCGCGTGCCGGCATGCGCGTTCTGGAGGCACCACTGGATg                                                                                                                  >  2:40430/1‑150 (MQ=255)
                          ggCCCCCGATGTGCTCGCGTTGCTGGAGACGCTGCTAGCGGCGCTGGCCCT‑‑TCAAGGTGGTACCGCATTGGTGCATTCGCCCTGTTGCTGGCAAGTGTTGCGCGCCCTGGCGCGTGCCGGCATGCGCGTGCTGGAGGCACCACTGGATGc                                                                                                                 <  1:4311/150‑1 (MQ=255)
                               ccGATGTGCTCGTGTTGCTGGAGTCGCTGGGAGCGGCGCTAGCCCT‑‑TCAAGGTGGTACCGCATTGGTGCATTCGCCCTGTTGCTGGCAAGTGTTGCGCGCCCTGGCGCGTGCCGGCAGGCGCGTGCTGGAGGCACCACTGGATGCCCGTg                                                                                                            <  2:224004/150‑1 (MQ=255)
                                     tgCTCGCGTTGCTGGAGACGCTGCTAGCGGCGCTGGCCCT‑‑TCAAGGTGGTACCGCATTGGTGCATTCGCCCTGTTGCTGGCAAGTGTTGCGCGCCCTGGCGCGTGCCGGCATGCGCGTGCTGGAGGCACCACTGGATGCCCGTGGCAAcc                                                                                                      >  2:431193/1‑150 (MQ=255)
                                                                      tGGCCCT‑‑TCAAGGTGGTACCGCATTGGTGCATTCGCCCTGTTGCTGGCAAGTGTTGCGCGCCCTGGCGCGTGCCGGCATGCGCGTGCTGGAGGCACCACTGGATGCCCGTGGCAACCCCGAGCTGCACGCGTTGGCCAAGCTGCTGGGTa                                                                     <  1:165270/150‑1 (MQ=255)
                                                                          ccT‑‑TCAAGGTGGTACCGCATTGGTGCATTCGCCCTGTTGCTGGCAAGTGTTGCGCGCCCTGGCGCGTGCCGGCATGCGCGTGCTGGAGGCACCACTGGATGCCCGTGGCAACCCCGAGCTGCACGCGTTGGCCAAGCTGCTgg                                                                        >  1:457610/1‑143 (MQ=255)
                                                                          ccT‑‑TCAAGGTGGTACCGCATTGGTGCATTCGCCCTGTTGCTGGCAAGTGTTGCGCGCCCTGGCGCGTGCCGGCATGCGCGTGCTGGAGGCACCACTGGATGCCCGTGGCAACCCCGAGCTGCACGCGTTGGCCAAGCTGCTgg                                                                        <  2:457610/143‑1 (MQ=255)
                                                                                  aGGTGGTACCGCATTGGTGCATTCGCCCTGTTGCTGGCAAGTGTTGCGCGCCCTGGCGCGTGCCGGCATGCGCGTGCTGGAGGCACCACTGGATGCCCGTGGCAACCCCGAGCTGCACGCGTTGGCCAAGCTGCTGGGTAGCGAGCCGGt                                                           <  1:148580/150‑1 (MQ=255)
                                                                                   ggtggtACCGCATTGGTGCATTCGCCCTGTTGCTGGCAAGTGTTGCGCGCCCTGGCGCGTGCCGGCATGCGCGTg                                                                                                                                     <  1:572746/75‑1 (MQ=255)
                                                                                   ggtggtACCGCATTGGTGCATTCGCCCTGTTGCTGGCAAGTGTTGCGCGCCCTGGCGCGTGCCGGCATGCGCGTg                                                                                                                                     >  2:572746/1‑75 (MQ=255)
                                                                                                 ggTGCATTCGCCCTGTTGCTGGCAAGTGTTGCGCGCCCTGGCGCGTGCCGGCATGCGCGTGCTGGAGGCACCACTGGATGCCCGTGGCAACCCCGAGCTGCACGCGTTGGCCAAGCTGCTGGGTAGCGAGCCGGTAAGCCTGCTGATCAt                                            <  1:91984/150‑1 (MQ=255)
                                                                                                       ttCGCCCTGTTGCTGGCAAGTGTTGCGCGCCCTGGCGCGTGCCGGCATGCGCGTGCTGGAGGCACCACt                                                                                                                       <  1:504821/69‑1 (MQ=255)
                                                                                                       ttCGCCCTGTTGCTGGCAAGTGTTGCGCGCCCTGGCGCGTGCCGGCATGCGCGTGCTGGAGGCACCACt                                                                                                                       >  2:504821/1‑69 (MQ=255)
                                                                                                       ttCGCCCTGTTGCTGGCAAGTGTTGCGCGCCCTGGCGCGTGCCGGCATGCGCGTGCTGGAGGCACCACTGGATGCCCGTGGCAACCCCGAGCTGCACGCGTTGGCCAAGCTGCTGGGTAGCGAGCCGGTAAGCCTGCTGATCATGACGTc                                      >  2:252340/1‑150 (MQ=255)
                                                                                                          gCCCTGTTGCTGGCAAGTGTTGCGCGCCCTGGCGCGTGCCGGCATGCGCGTGCTGGAGGCACCACTGGATGCCCGTGGCAACCCCGAGCTGCACGCGTTGGCCAAGCTGCTGGGTAGCGAGCCGGTAAGCCTGCTGATCATGCCGTCTTg                                   >  1:56666/1‑150 (MQ=255)
                                                                                                              tGTTGCTGGCAAGTGTTGCGCGCCCTGGCGCGTGCCGGCATGCGCGTGCTGGAGGCACCACTGGATGCCCGTGGCAACCCCGAGCTGCACGCGTTGGCCAAGCTGCTGGGTAGCGAGCCGGTAAGCCTGCTGATCATGCCGTCTTGCCTg                               >  1:95464/1‑150 (MQ=255)
                                                                                                               gTTGCTGGCAAGTGTTGCGCGCCCTGGCGCGTGCCGGCATGCGCGTGCTGGAGGCACCACTGGATGCCCGTGGCAACCCCGAGCTGCACGCGTTGGCCAAGCTGCTGGGTAGCGAGCCGGTAAGCCTGCTGATCATGCCGTCTTGCCTgg                              <  2:525220/150‑1 (MQ=255)
                                                                                                                  gCTGGCAAGTGTTGCGCGCCCTGGCGCGTGCCGGCATGCGCGTGCTGGAGGCACCACTGGATGCCCGTGGCAACCCCGAGCTGCACGCGTTGGCCAAGCTGCTGGGTAGCGAGCCGGTAAGCCTGCTGATCATGCCGTCTTGCCTGGGCa                           >  2:576808/1‑150 (MQ=255)
                                                                                                                     ggCAAGTGTTGCGCGCCCTGGCGCGTGCCGGCATGCGCGTGCTGGAGGCACCACTGGATGCCCGTGGCAACCCCGAGCTGCACGCGTTGGCCAAGCTGCTGGGTAGCGAGCCGGTAAGCCTGCTGATCATGCCGTCTTGCCTGGGCATGc                        <  2:578199/150‑1 (MQ=255)
                                                                                                                          gtgtTGCGCGCCCTGGCGCGTGCCGGCATGCGCGTGCTGGAGGCACCACTGGATGCCCGTGGCAACCCCGAGCTGCACGCGTTGGCCAAGCTGCTGGGTAGCGAGCCGGTAAGCCTGCTGATCATGCCGTCTTGCCTGGGCATGCCACaa                   <  2:82109/150‑1 (MQ=255)
                                                                                                                                cgcgcCCTGGCGCGTGCCGGCATGCGCGTGCTGGAGGCACCACTGGATGCCCGTGGCAACCCCGAGCTGCACGCGTTGGCCaa                                                                                <  2:185376/83‑1 (MQ=255)
                                                                                                                                cgcgcCCTGGCGCGTGCCGGCATGCGCGTGCTGGAGGCACCACTGGATGCCCGTGGCAACCCCGAGCTGCACGCGTTGGCCaa                                                                                >  1:185376/1‑83 (MQ=255)
                                                                                                                                  cgcCCTGGCGCGTGCCGGCATGCGCGTGCTGGAGGCACCACTGGATGCCCGTGGCAACCCCGAGCTGCACGCGTTGGCCAAGCTGCTGGGTAGCGAGCCGGTAAGCCTGCTGATCATGCCGTCTTGCCTGGGCATGCCACAAGGGCGGCt           <  2:616687/150‑1 (MQ=255)
                                                                                                                                   gcCCTGGCGCGTGCCGGCATGCGCGTGCTGGAGGCACCACTGGATGCCCGTGGCAACCCCGAGCTGCACGCGTTGGCCAAGCTGCTGGGTAGCGAGCCGGTAAGCCTGCTGATCATGCCGTCTTGCCTGGGCATGCCACAAGGGCGGCTg          <  2:95464/150‑1 (MQ=255)
                                                                                                                                     ccTGGCGCGTGCCGGCATGGGCGTGCTGGAGGCACCACTGGATGCCCGTGGCAACCCCGAGCTGCACGCGTTGGCCAAGCTGCTGGGTAGCGAGCCGGTAAGCCTGCTGATCATGCCGTCTTGCCTGGGCATGCCACAAg                  <  2:455005/140‑1 (MQ=255)
                                                                                                                                     ccTGGCGCGTGCCGGCATGGGCGTGCTGGAGGCACCACTGGATGCCCGTGGCAACCCCGAGCTGCACGCGTTGGCCAAGCTGCTGGGTAGCGAGCCGGTAAGCCTGCTGATCATGCCGTCTTGCCTGGGCATGCCACAAg                  >  1:455005/1‑140 (MQ=255)
                                                                                                                                      cTGGCGCTTGCCGGCATGCGCGTGCTGGAGGCACCACTGGATGCCCGTGGCAACCCCGAGCTGCACGCGTTTGCCAAGCTGCTGGGTAGCGAGCCGGTAAGCCTGCTGATCATGCCGTCtt                                    <  2:286685/121‑1 (MQ=255)
                                                                                                                                      cTGGCGCGTGCCGGCATGCGCGTGCTGGAGGCACCACTGGATGCCCGTGGCAACCCCGAGCTGCACGCGTTTGCCAAGCTGCTGGGTAGCGAGCCGGTAAGCCTGCTGATCATGCCGTCtt                                    >  1:286685/1‑121 (MQ=255)
                                                                                                                                       tGGCGCGTGCCGGCATGCGCGTGCTGGAGGCACCACTGGATGCCCGTGGCAACCCCGAGCTGCACGCGTTGGCCAAGCTGCTGGGTAGCGAGCCGGTAAGCCTGCTGATCATGCCGTCTTGCCTGGGCCTGca                       >  1:126595/1‑132 (MQ=255)
                                                                                                                                       tGGCGCGTGCCGGCATGCGCGTGCTGGAGGCACCACTGGATGCCCGTGGCAACCCCGAGCTGCACGCGTTGGCCAAGCTGCTGGGTAGCGAGCCGGTAAGCCTGCTGATCATGCCGTCTTGCCTGGGCCTGca                       <  2:126595/133‑2 (MQ=255)
                                                                                                                                       acgcgcATGCCGGCACGCGCGTGCTGGAGGCACCACTGGATGCCCGTGGCAACCCCGAGCTGCACGCGTTGGCCAAGCTGCTGGGTAGCGAGCCGGTAAGCCTGCTGATCATGCCGTCTTGCCTGGGc                            <  1:546435/126‑1 (MQ=255)
                                                                                                                                       acgcgcATGCCGGCACGCGCGTGCTGGAGGCACCACTGGATGCCCGTGGCAACCCCGAGCTGCACGCGTTGGCCAAGCTGCTGGGTAGCGAGCCGGTAAGCCTGCTGATCATGCCGTCTTGCCTGGGc                            >  2:546435/3‑128 (MQ=255)
                                                                                                                                         gcgcGTGCCGGCATGCGCGTGCTGGAGGCACCACTGGATGCCCGTGGCAACCCCGAGCTGCACGCGTTGGCCAAGCTGCTGGGTAGCGAGCCGGTAAGCCTGCTGATCATGCCGTCTTGCCTGGGCATGCCACAAGGGCGGCTGGTTTcc    <  1:40430/150‑1 (MQ=255)
                                                                                                                                           gcgTGCCGGCATGCGCGTGCTGGAGGCACCACTGGATGCCCGTGGCAACCCCGAGCTGCACGCGTTGGCCAAGCTGCTGGGTAGCGAGCCGGTAAGCCTGCTGATCATGCCGTCTTGCCTGGGCATGCCACAAGGGCGGCTGGTTTcccc  >  2:270584/1‑150 (MQ=255)
                                                                                                                                                      |                                                                                                                                          
TACTGGCATGCCGATGACGTCCATCTGGCCCCCGATGTGCTCGCGTTGCTGGAGACGCTGCTAGCGGCGCTGGCCCT‑‑TCAAGGTGGTACCGCATTGGTGCATTCGCCCTGTTGCTGGCAAGTGTTGCGCGCCCTGGCGCGTGCCGGCATGCGCGTGCTGGAGGCACCACTGGATGCCCGTGGCAACCCCGAGCTGCACGCGTTGGCCAAGCTGCTGGGTAGCGAGCCGGTAAGCCTGCTGATCATGCCGTCTTGCCTGGGCATGCCACAAGGGCGGCTGGTTTCCCC  >  NC_002947/3229010‑3229296

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑