Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 6,097,807 T→C 10.5% L289L (TTG→CTG)  PP_5348 → LysR family transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029476,097,8070TC10.5% 109.5 / 3.3 41L289L (TTG→CTG) PP_5348LysR family transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base T (17/19);  new base C (2/2);  total (20/21)
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

GGGATCGCCCTGTTGACCCGTCACGCCGTCAACCTGGAATTGGCTACCGGGATGCTGAAGGAATTACCGGTCGAGGAGCTACCGCTGTACCGTAGCTGGTGCGTGGTGCAGGCCAAGGCCAAGCGGCAGTCACCGGTGGCCTTGGCGTTTCTTGCATTCATACGCGGCGAACGTGCTCTTATCAGCGCGCTTGTTGAACGTTTTTCGGGGAAGTTGCCGCCGACGACTGCCATACCGTGAGTGCTTGCAGCTCGGGGTAGTCCGCCAGGTCGCGGAGCAATTGACGTTGGT  >  NC_002947/6097666‑6097956
                                                                                                                                             |                                                                                                                                                     
gggATCGCCCTGTTGACCCGTCACGCCGTCAACCTGGAATTGGCTACCGGGATGCTGAAGGAATTACCGGTCGAGGAGCTACCGCTGTACCGTAGCTGGTGCGTGGTGCAGGCCAAGGCCAAGCGGCAGTCACCGGTGGCCTTGGCGttt                                                                                                                                               <  1:487807/150‑1 (MQ=255)
    tCGCCCTGTTGACCCGTCACGCCGTCAACCTGGAATTGGCTACCGGGATGCTGAAGGAATTACCGGTCGAGGAGCTACCGCTGTACCGTAGCTGGTGCGTGGTGCGGGCCAAGGCCAAGCGGCAGTCACCGGTGGCCTTGGCGTTTCTTg                                                                                                                                           >  1:601110/1‑150 (MQ=255)
    tCGCCCTGTTGACCCGTCACGCCGTCAACCTGGAATTGGCTACCGGGATGCTGAAGGAATTACCGGTCGAGGAGCTACCGCTGTACCGTAGCTGGTGCGTGGTGCAGGCCAAGGCCAAGCGGCAGTCACCGGTGGCCTTGGCGTTTCTTg                                                                                                                                           <  2:357604/150‑1 (MQ=255)
           gTTGACCCGTCACGCCGTCAACCTGGAATTGGCTACCGGGATGCTGAAGGAATTACCGGTCGAGGAGCTACCGCTGTACCGTAGCTGGTGCGTGGTGCAGGCCAAGGCCAAGCGGCAGTCACCGGTGGCCTTGGCGTTTCTTGCATTCa                                                                                                                                     >  2:192813/1‑149 (MQ=255)
           gTTGACCCGTCACGCCGTCAACCTGGAATTGGCTACCGGGATGCTGAAGGAATTACCGGTCGAGGAGCTACCGCTGTACCGTAGCTGGTGCGTGGTGCAGGCCAAGGCCAAGCGGCAGTCACCGGTGGCCTTGGCGTTTCTTGCATTCa                                                                                                                                     <  1:192813/149‑1 (MQ=255)
           gTTGACCCGTCACGCCGTCAACCTGGAATTGGCTACCGGGATGCTGAAGGAATTACCGGTCGAGGAGCTACCGCTGTACCGTAGCTGGTGCGTGGTGCAGGCCAAGGCCAAGCGGCAGTCACCGGTGGCCTTGGCGTTTCTTGCATTCAt                                                                                                                                    >  2:848886/1‑150 (MQ=255)
              gACCCGTCACGCCGTCAACCTGGAATTGGCTCAAGGGATGCTGAAGGAATTACCGGTCGAGGAGCTACCGCTGTACCGTAGCTGGTTCGTGGTGCAGGCCAAGGCCAAGCGGCAGTCACCGGTGGCCTTGGCGTTTCTTGCATTCATAcg                                                                                                                                 >  2:873044/1‑150 (MQ=255)
               aCCCGTCACGCCGTCAACCTGGAATTGGCTACCGGGATGCTGAAGGAATTACCGGTCGAGGAGCTACCGCTGTACCGTAGCTGGTGCGTGGTGCAGGCCAAGGCCAAGCGGCAGTCACCGGTGGCCTTg                                                                                                                                                     >  1:860125/1‑129 (MQ=255)
               aCCCGTCACGCCGTCAACCTGGAATTGGCTACCGGGATGCTGAAGGAATTACCGGTCGAGGAGCTACCGCTGTACCGTAGCTGGTGCGTGGTGCAGGCCAAGGCCAAGCGGCAGTCACCGGTGGCCTTg                                                                                                                                                     <  2:860125/129‑1 (MQ=255)
                      aCGCCGTCAACCTGGAATTGGCTACCGGGATGCTGAAGGAATTACCGGTCGAGGAGCTACCGCTGTACCGTAGCTGGTGCGTGGTGCAGGCCAAGGCCAAGCGGCAGTCACCGGTGGCCTTGGCGTTTCTTGCATTCATACGCGGCGAAc                                                                                                                         <  1:848886/150‑1 (MQ=255)
                            tCAACCTGGAATTGGCTACCGGGATGCTGAAGGAATTACCGGTCGAGGAGATACTGCTGTAGCGTAGCTGGTGCTGTTTGCAGGCCAAGGCCAAGCGGCAGTCACCGGTGGCCTTGGCGTTTCTTGCATTCATACGCGGCGAACGTGctc                                                                                                                   >  1:885058/1‑150 (MQ=255)
                                ccTGGACTTCGCTACCGGGATGCAGAATGAATGACCGGTCGAGGTGCTACCGCTGTACCGTAGCTCGTGCGTGGTGCCCGCCACGGCCAGATGGCAGTACCCGATCGGCAGAGCGTGGCGTGGGTTCAGACGCGGCGAACGTGCTCTTAt                                                                                                               >  2:1021483/1‑150 (MQ=255)
                                     aaTTGGCTACCGGGATGCTGAAGGAATTACCGGTCGAGGAGCTACCGCTGTACCGTAGCTGGTGCGTGGTGCAGGCCAAGGCCAAGCGGCAGTCACCGGTGGCCTTGGCGTTTCTTGCATTCATACGCGGCGAACGTGCTCTTATCAgcg                                                                                                          <  1:139164/150‑1 (MQ=255)
                                             aCCGGGATGCTGAAGGAATTACCGGTCGAGGAGCTACCGCTGTACCGTAGCTGGTGCGTGGTGCAGGCCAAGGCCAAGCGGCAGTCACCGGTGGCCTTGGCGTTTCTTGCATTCATACGCGGCGAACGTGCTCTTATCAGCGCGCttgtt                                                                                                  <  1:879695/150‑1 (MQ=255)
                                                gggATGCTGAAGGAATTACCGGTCGAGGAGCTACCGCTGTACCGTAGCTGGTGCGTGGTGCAGGCCAAGGCCAAGCGGCAGTCACCGGTGGCCTTGGCGTTTCTTGCATTCATACGCGGCGAACGTGCTCTTATCAGCGCGCTTGTTGaa                                                                                               <  1:873044/150‑1 (MQ=255)
                                                gggATGCTGAAGGAATTACCGGTCGAGGAGCTACCGATGCAACGTAGTTGGTGTGCGGTTCAGGGCTAGGCCAATCGGCAGTCACCGGTGGCGTTGGCGTTTCTTGCATTCATACGCGGCGAACGTGCTCTTATCAGCGCGCTTGTTGaa                                                                                               >  1:387481/1‑150 (MQ=255)
                                                     gCTGAAGGAATTACCGGTCGAGGAGCTACCGCTGTACCGTAGCTGGTGCGTGGTGCGGGCCAAGGCCAAGCGGCAGTCACCGGTGGCCTTGGCGTTTCTTGCATTCATACGCGGCGAACGTGCTCTTATCAGCGCGCTTGTTGAACGttt                                                                                          <  2:601110/150‑1 (MQ=255)
                                                       tGAAGGAATTACCGGTCGAGGAGCTACCGCTGTACCGTAGCTGGTGCGTGGTGCAGGCCAAGGCCAAGCGGCAGTCACCGGTGGCCTTGGCGTTTCTTGCATTCATACGCGGCGATACTGCCCTTATCATCGCGCCTGTTGaagctcgga                                                                                        >  2:13546/1‑143 (MQ=255)
                                                       tGAAGGAATTACCGGTCGAGGAGCTACCGCTGTACCGTAGCTGGTGCGTGGTGCAGGCCAAGGCCAAGCGGCAGTCACCGGTGGCCTTGGCGTTTCTTGCATTCATACGCGGCGAACGTGCTCTTATCAGCGCGCTTGTTGAACGttttt                                                                                        >  2:530881/1‑150 (MQ=255)
                                                         aaGGAATTACCGGTCGAGGAGCTACCGCTGTACCGTAGCTGGTGCGTGGTGCAGGCCAAGGCCAAGCGGCAGTCACCGGTGGCCTTGGCGTTTCTTGCATTCATACGCGGCGAACGTGCTCTTATCAGCGCGCTTGTTGAAc                                                                                              >  1:189698/1‑142 (MQ=255)
                                                         aaGGAATTACCGGTCGAGGAGCTACCGCTGTACCGTAGCTGGTGCGTGGTGCAGGCCAAGGCCAAGCGGCAGTCACCGGTGGCCTTGGCGTTTCTTGCATTCATACGCGGCGAACGTGCTCTTATCAGCGCGCTTGTTGAAc                                                                                              <  2:189698/142‑1 (MQ=255)
                                                         aaGGAATTACCGGTCGAGGAGCTACCGCTGTACCGTAGCTGGTGCGTGGTGCAGGCCAAGGCCAAGCGGCAGTCACCGGTGGCCTTGGCGTTTCTTGCATTCATACGCGGCGAACGTGCTCTTATCAGCGCGCTTGTTGAACGTTTTTCg                                                                                      >  1:900829/1‑150 (MQ=255)
                                                           ggAATTACCGGTCGAGGAGCTACCGCTGTACCGTAGCTGGTGCGTGGTGCAGGCCAAGGCCAAGCGGCAGTCACCGGTGGCCTTGGCGTTTCTTGCATTCATACGCGGCGAACGTGCTCTTATCAGCGCGCTTGTTGAACGTTTTTCggg                                                                                    <  2:900829/150‑1 (MQ=255)
                                                             aaTTACCGGTCGAGGAGCTACCGCTGTACCGTAGCTGGTGCGTGGTGCAGGCCAAGGCCAAGCGGCAGTCACCGGTGGCCCTGGCGTTTCTTGCATTCATACGCGGCGAACGTGCTCTTATCAGCGCGCTTGTTGAACGTTTTTCGGGGa                                                                                  >  2:214464/1‑150 (MQ=255)
                                                                   cGGTCGAGGAGCTACCGCTGTACCGTAGCTGGTGCGTGGTGCAGGCCAAGGCCAAGCGGCAGTCACCGGTGGCCTTGGCGTTTCTTGCATTCATACGCGGCGAACGTGCTCTTATCAGCGCGCTTGTTGAACGTTTTTCGGGGAAGTTgc                                                                            <  1:1021483/150‑1 (MQ=255)
                                                                              cTACCGCTGTACCGTAGCTGGTGCGTGGTGCAGGCCAAGGCCAAGCGGCAGTCACCGGTGGCCTTGGCGTTTCTTGCATTCATACGCGGCGAACGTGCTCTTATCAGCGCGGTTGTTGAACGTTTTTCGGGGAAGTTGCCGCCGACGACt                                                                 >  1:75325/1‑150 (MQ=255)
                                                                                aCCGCTGTACCGTAGCTGGTGCGTGGTGCAGGCCAAGGCCAAGCGGCAGTCACCGGTGGCCTTGGCGTTTCTTGCATTCATACGCGGCGAACGTGCTCTTATCAGCGCGCTTGTTGAACGTTTTTCGGGGAAGTTGCCGCCGACGACTGc                                                               <  1:1264547/150‑1 (MQ=255)
                                                                                       tACCGTAGCTGGTGCGTGGTGCAGGCCAAGGCCAAGCGGCAGTCACCGGTGGCCTTGGCGTTTCTTGCATTCATACGCGGCGAACGTGCTCTTATCAGCGCGCTTGTTGAACGTTTTTCGGGGAAGTTGCCGCCGACGACTGCCATACCg                                                        >  1:92464/1‑150 (MQ=255)
                                                                                                    gCGTGGTGCAGGCCAAGGCCAAGCGGCAGTCACCGGTGGCCCTGGCGTTTCTTGCATTCATACGCGGCGAACGTGCTCTTATCAGCGCGCTTGTTGAACGTTTTTCGGGGAAGTTGCCGCCGACGACTGCCATACCGTGAGTGCTTGCAg                                           <  1:214464/150‑1 (MQ=255)
                                                                                                           gCAGGCCAAGGCCAAGCGGCAGTCACCGGTGGCCTTGGCGTTTCTTGCATTCATACGCGGCGAACGTGCTCTTATCAGCGCGCTTGTTGAACGTTTTTCGGGGAAGTTGCCGCCGACGACTGCCATACCGTGAGTGCTTGCAGCTCgggg                                    <  2:92464/150‑1 (MQ=255)
                                                                                                           gCAGGCCAAGGCCAAGCGGCAGTCACCGGTGGCCTTGGCGTTTCTTGCATTCATACGCGGCGAACGTGCTAATATAGGCGCGCTTGTTGAACTTTTTTCGGGGAAGTTGCCGCCGACGACTGCCATACCGTGAGTGCTTGCAGCTCgggg                                    <  1:530881/150‑1 (MQ=255)
                                                                                                                  aaggccaagCGGCAGTCACCGGTGGCCTTGGCGTTTCTTGCATTCATACGCGGCGAACGTGCTCTTATCAGCGCGCTTGTTGAACGTTTTTCGGGGAAGTTGCCGCCGACGACTGCCATACCGTGAGTGCTTGCAGCTCGGGGTAGTCCg                             >  2:686065/1‑150 (MQ=255)
                                                                                                                   aggccaagCGGCAGTCACCGGTGGCCTTGGCGTTTCTTGCATTCATACGCGGCGAACGTGCTCTTATCAGCGCGCTTGTTGAACGTTTTTCGGGGAAGTTGCCGCCGACGACTGCCATACCGTGAGTGCTTGCAGCTCGGGGTAGTCCGc                            <  2:885058/150‑1 (MQ=255)
                                                                                                                       caagCGGCAGTCACCGGTGGCCCTGGCGTTTCTTGCATTCATACGCGGCGAACGTGCTCTTATCAGCGCGCTTGTTGAACGTTTTTCGGGGAAGTTGCCGCCGACGACTGCCATACCGTGAGTGCTTGCAGCTCGGGGTAGTCCGCCa                          >  2:1282714/1‑148 (MQ=255)
                                                                                                                       caagCGGCAGTCACCGGTGGCCCTGGCGTTTCTTGCATTCATACGCGGCGAACGTGCTCTTATCAGCGCGCTTGTTGAACGTTTTTCGGGGAAGTTGCCGCCGACGACTGCCATACCGTGAGTGCTTGCAGCTCGGGGTAGTCCGCCa                          <  1:1282714/148‑1 (MQ=255)
                                                                                                                        aagCGGCAGTCACCGGTGGCCTTGGCGTTTCTTGCATTCATACGCGGCGAACGTGCTCTTATCAGCGCGCTTGTTGAACGTTTTTCGGGGAAGTTGCCGCCGACGACTGCCATACCGTGAGTGCTTGCAGCTCGGGGTAGTCCGCCAGGt                       >  1:911940/1‑150 (MQ=255)
                                                                                                                              cAGTCACCGGTGGCCTTGGCGTTTCTTGCATTCATACGCGGCGAACGTGCTCTTATCAGCGCGCTTGTTGAACGTTTTTCGGGGAAGTTGCCGCCGACGACTGCCATACCGTGAGTGCTTGCAGCTCGGGGTAGTCCGCCAGGTCGCGGa                 <  1:686065/150‑1 (MQ=255)
                                                                                                                                gTCACCGGTGGCCTTGGCGTTTCTTGCATTCATACGCGGCGAACGTGCTCTTATCAGCGCGCTTGTTGAACGTTTTTCGGGGAAGTTGCCGCCGACGACTGCCATACCGTGAGTGCTTGCAGCTCGGGGTAGTCCGCCAGGTCGCGGAGc               >  1:1190554/1‑150 (MQ=255)
                                                                                                                                 tCACCGGTGGCCTTGGCGTTTCTTGCATTCATACGCGGCGAACGTGCTCTTATCAGCGCGCTTGTTGAACGTTTTTCGGGGAAGTTGCCGCCGACGACTGCCATa                                                           <  2:1158351/105‑1 (MQ=255)
                                                                                                                                 tCACCGGTGGCCTTGGCGTTTCTTGCATTCATACGCGGCGAACGTGCTCTTATCAGCGCGCTTGTTGAACGTTTTTCGGGGAAGTTGCCGCCGACGACTGCCATa                                                           >  1:1158351/1‑105 (MQ=255)
                                                                                                                                      ggTGGCCTTGGCGTTTCTTGCATTCATACGCGGCGAACGTGCTCTTATCAGCGCGCTTGTTGAACGTTTTTCGGGGAAGTTGCCGCCGACGACTGCCATACCGTGAGTGCTTGCAGCTCGGGGTAGTCCGCCAGGTCGCGGAGCAATTGa         <  2:1190554/150‑1 (MQ=255)
                                                                                                                                             ttGGCGTTTCTTGCATTCATACGCGGCGAACGTGCTCTTATCAGCGCGCTTGTTGAACGTTTTTCGGGGAAGTTGCCGCCGACGACTGCCATACCGTGAGTGCTTGCAGCTCGGGGTAGTCCGCCAGGTCGCGGAGCAATTGACGTTGGt  >  1:925551/1‑150 (MQ=255)
                                                                                                                                             |                                                                                                                                                     
GGGATCGCCCTGTTGACCCGTCACGCCGTCAACCTGGAATTGGCTACCGGGATGCTGAAGGAATTACCGGTCGAGGAGCTACCGCTGTACCGTAGCTGGTGCGTGGTGCAGGCCAAGGCCAAGCGGCAGTCACCGGTGGCCTTGGCGTTTCTTGCATTCATACGCGGCGAACGTGCTCTTATCAGCGCGCTTGTTGAACGTTTTTCGGGGAAGTTGCCGCCGACGACTGCCATACCGTGAGTGCTTGCAGCTCGGGGTAGTCCGCCAGGTCGCGGAGCAATTGACGTTGGT  >  NC_002947/6097666‑6097956

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑