Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 1,136,402 C→A 10.3% L193F (TTG→TTT)  PP_0997 ← sigma‑54 dependent transcriptional regulator/sensory box protein

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029471,136,4020CA10.3% 102.2 / 3.8 39L193F (TTG→TTT) PP_0997sigma‑54 dependent transcriptional regulator/sensory box protein
Reads supporting (aligned to +/- strand):  ref base C (16/19);  new base A (2/2);  total (18/21)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.30e-01

GCTGCTGACGGCATGGCAGGCGCGGGCTACCAGTTCTTTACCGGTGCCGGTCTCGCCATGCACCAGCAGCGGTGCATCGAGCGCAGCCACGCGTAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGCAAGGCATCGAAGCCTTCGGCGTGGTCGTGGTGCAGGGCCGACAGGCGTTCGCCCATACGCGAAGGTGGGTACAGCGTCAGCAGGCCACCGGCGTTGGTAATCGGCATGGCGTCCAGCAGCAGGCTATGGCCGTTCAGCTGCATTTCGCG  >  NC_002947/1136264‑1136551
                                                                                                                                          |                                                                                                                                                     
gctgctGACGGCATGGCAGGCGCGGGCTACCAGTTCTTTACCGGTGCCGGTCTCGCCATGCACCAGCAGCGGTGCATCGAGCGCAGCCACGGGTCAGTCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGCAAGGCATCGaa                                                                                                                                            <  1:463888/150‑1 (MQ=255)
  tgctgACGGCATGGCAGGCGCGGGCTACCAGTTCTTTACCGGTGCCGGTCTCGCCATGCACCAGCAGCGGTGCATCGAGCGCAGCCACGCGTAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGAGTCGCCCAGCAAGGCATCGAAGc                                                                                                                                          >  2:272477/1‑150 (MQ=255)
         ggCATGGCAGGCGCGGGCTAAGAGTTCTTTAACGGTGACGGTATCGCCATGCACCAGCAGCGGTGCAGAAAGCGCAGCCACGCGTAAGGCGCGGGCCTTGAGGGCGGGGATGGCAGGCTACTCCCCGAACAAGGCATCGAAGCCTGCGGc                                                                                                                                   >  2:75524/1‑150 (MQ=255)
            aTGGCAGGCGCGGGCTACCAGTTCTTTACCGGTGCCGGTCTCGCCATGCACCAGCAGCGGTGCATCGAGCGCAGCCACGCGTAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGCAAGGCATCGAAGCCTTCGGcgtg                                                                                                                                >  2:101547/1‑150 (MQ=255)
                  ggCGCGGGCTACCAGTTCTTTACCGGTGCCGGTCTCGCCATGCACCAGCAGCGGTGCATCGAGCGCAGCCACGCGTAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGCAAGGCATCGAAGCCTTCGGggtggtcgtg                                                                                                                          <  2:165564/150‑1 (MQ=255)
                   gcgcGGGCTACCAGTTCTTTACCGGTGCCGGTCTCGCCATGCACCAGCAGCGGTGCATCGAGCGCAGCCACGCGTAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGCAAGGCATCGAAGCCTTCGGcgtggtcgtgg                                                                                                                         <  1:387245/150‑1 (MQ=255)
                            aCCAGTTCTTTACCGGTGCCGGTCTCGCCATGCACCAGCAGCGGTGCATCGAGCGCAGCCACGCGTAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGCAAGGCATCGAAGCCTTCGGCGTGGTCGTGGTGCAGGGcc                                                                                                                <  2:46500/150‑1 (MQ=255)
                              cAGTTCTTTACCGGTGCCGGTCTCGCCATGCACCAGCAGCGGTGCATCGAGCGCAGCCACGCGTAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTGGCCCAGCAAGGCATCGAAGCCTTCGGCGTGGTCGTGGTGCAGGGCCGa                                                                                                              >  2:379483/1‑150 (MQ=255)
                                  tCTTTACCGGTGCCGGTCTCGCCATGCACCAGCAGCGGTGCATCGAGCGCAGCCACGCGTAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGCAAGGCATCGAAGCCTTCGGCGTGGTCGTGGTGCAGGGCCGACAgg                                                                                                          <  1:379483/150‑1 (MQ=255)
                                    tttACCGGTGCCGGTCTCGCCATGCCTTATGAGCGGTGCATCGAGCGCAGCCACGCGTAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGCAAGGCATCGAAGCCTTCGGCGTGGTCGTGGTGCAGGGCCGACAGGCg                                                                                                        >  1:14640/1‑150 (MQ=255)
                                         cGGTGCCGGTCTCGCCATGCACCAGCAGCGGTGCATCGAGCGCAGCCACGCGTAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGCAAGGCATCGAAGCCTTCGGCGTGGTCGTGGTGCAGGGCAGACAGGCGTTCGc                                                                                                   >  2:262522/1‑150 (MQ=255)
                                              ccGGTCTCGCCATGCACCAGCAGCGGTGCATCGAGCGCAGCCACGCGTAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGCAAGGCATCGAAGCCTTCGGCGTGGTCGTGGTGCAGGGCCGACAGGCGTTCGCCCATa                                                                                              <  1:110976/150‑1 (MQ=255)
                                               cGGTCTCGCCATGCACCAGCAGCGGTGCATCGAGCGCAGCCACGCGTAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGCAAGGCATCGAAGCCTTCGGCGTGGTCGTGGTGCAGGGCCGACAGGCGTTCGCCCATAc                                                                                             >  2:182280/1‑150 (MQ=255)
                                                  tctcGCCATGCACCAGCAGCGGTGCATCGAGCGCAGCCACGCGTAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGCAAGGCATCGAAGCCTTCGGCGTGGTCGTGGTGCAGGGCCGACAGGCGTTCGCCCATAcgcg                                                                                          >  1:417415/1‑150 (MQ=255)
                                                    tcGCCATGCACCAGCAGCGGTGCATCGAGCGCAGCCACGCGTAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGCAAGGCATCGAAGCCTTCGGCGTGGTCGTGGTGCAGGGCCGACAGGCGTTCGCCCATACGCGaa                                                                                        >  1:545020/1‑150 (MQ=255)
                                                         aTGCACCAGCAGCGGTGCATCGAGCGCAGCCACGCGTAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGCAAGGCATCGAAGCCTTCGGCGTGGTCGTGGTGCAGGGCCGACAGGCGTTCGCCCATACGCGAAGGTgg                                                                                   <  1:455691/150‑1 (MQ=255)
                                                         aTGCACCAGCAGCGGTGCATCGAGCGCAGCCACGCGTAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGCAAGGCATAGAAGCCTTCGGCGTGGTCGTGGTGCAGGGCCGACAGGCGTTCGCCCATACGCGAAGGTgg                                                                                   <  1:409309/150‑1 (MQ=255)
                                                            cACCAGCAGCGGTGCATCGAGCGCAGCCACGCGTAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGCAAGGCATCGAAGCCTTCGGCGTGGTCGTGGTGCAGGGCCGACAGGCGTTCGCCCATACGCGAAGGTGGGTa                                                                                <  2:73536/150‑1 (MQ=255)
                                                              ccAGCAGCGGTGCATCGAGCGCAGCCACGCGTAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGCAAGGCATCGACGCCTTCGGCGTGGGCGTGGTGCAGGGCCGACAGGCGTTAGCCCATACGCGAAGGTGGGTACa                                                                              >  1:124896/1‑150 (MQ=255)
                                                              ccAGCAGCGGTGCATCGAGCGCAGCCACGCGTAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGCAAGGCATCGAAGCCTTCGGCGTGGTCGTGGTGCAGGGCCGACAGGCGTTCGCCCATACGCGAAGGTGGGTACa                                                                              <  1:262522/150‑1 (MQ=255)
                                                              ccAGCAGCGGTGCATCGAGCGCAGCCACGCGTAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGCAAGGCATCGAAGCCTTCGGCGTGGTCGTGGTGCAGGGCCGACAGGCGTTCGCCCATACGCGAAGGTGGGTACa                                                                              <  2:118962/150‑1 (MQ=255)
                                                                          cATCGAGCGCAGCCACGCGTAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGCAAGGCATCGAAGCCTTCGGCGTGGTCGTGGTGCAGGGCCGACAGGCGTTCGCCCATACGCGAAGGTGGGTACAGCGTCAGCAGGc                                                                  <  1:101547/150‑1 (MQ=255)
                                                                            tCGAGCGCAGCCACGCGTAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGAAAGGCATCGaa                                                                                                                                            <  1:340502/74‑1 (MQ=255)
                                                                            tCGAGCGCAGCCACGCGTAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGAAAGGCATCGaa                                                                                                                                            >  2:340502/1‑74 (MQ=255)
                                                                            tCGAGCGCAGCCACGCGTAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGAAAGGCATCGaa                                                                                                                                            >  2:340501/1‑74 (MQ=255)
                                                                            tCGAGCGCAGCCACGCGTAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGAAAGGCATCGaa                                                                                                                                            <  1:340501/74‑1 (MQ=255)
                                                                             cGAGCGCAGCCACGCGTAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGCAAGGCATCGAAGCCTTCGGCGTGGTCGTGGTGCAGGGCCGACAGGCGTTCGCCCATACGCGAAGGTGGGTACAGCGTCAGCAGGCCAc                                                               <  2:132639/150‑1 (MQ=255)
                                                                                     accACGCGTAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGCAAGGCATCGAAGCCTTCGGCGTGGTCGTGGTGCAGGGCCGACAGGCGTTCGCCCATACGCGAAGGTGGGTACAGCGTCAGCAGGCCACCGGCGTTg                                                       <  1:455530/149‑1 (MQ=255)
                                                                                       cACGCGTAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGCAAGGCATCGAAGCCTTCGGCGTGGTCGTGGTGCAGGGCCGACAGGCGTTCGCCCATACGCGAAGGTGGGTACAGCGTCAGCAGGCCACCGGCGTTGGt                                                     <  2:497240/150‑1 (MQ=255)
                                                                                          gcgTAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGCAAGGCATCGAAGCCTTCGGCGTGGTCGTGGTGCAGGGCCGACAGGCGTTCGCCCATACGCGAAg                                                                                       <  2:113556/113‑1 (MQ=255)
                                                                                          gcgTAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGCAAGGCATCGAAGCCTTCGGCGTGGTCGTGGTGCAGGGCCGACAGGCGTTCGCCCATACGCGAAg                                                                                       >  1:113556/1‑113 (MQ=255)
                                                                                             tAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGCAAGGCATCGAAGCCTTCGGCGTGGTCGTGGTGCAGGGCCGACAGGCGTTCGCCCATACGCGAAGGTGGGTACAGCGTCAGCAGGCCACCGGc                                                           <  2:163594/138‑1 (MQ=255)
                                                                                             tAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGCAAGGCATCGAAGCCTTCGGCGTGGTCGTGGTGCAGGGCCGACAGGCGTTCGCCCATACGCGAAGGTGGGTACAGCGTCAGCAGGCCACCGGc                                                           >  1:163594/1‑138 (MQ=255)
                                                                                                ggCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGCAAGGCATCGAAGCCTTCGGCGTGGTCGTGGTGCAGGGCCGACAGGCGTTCGCCCATACGCGAAGGTGGGTACAGCGTCAGCAGGCCACCGGCGTTGGTAATCGGCAt                                            >  1:365367/1‑150 (MQ=255)
                                                                                                                             gCGACTCGCCCAGCAAGGCATCGAAGCCTTCGGCGTGGTCGTGGTGCAGGGCCGACAGGCGTTCGCCCATACGCGAAGGTGGGTACAGc                                                                            >  2:418060/1‑89 (MQ=255)
                                                                                                                             gCGACTCGCCCAGCAAGGCATCGAAGCCTTCGGCGTGGTCGTGGTGCAGGGCCGACAGGCGTTCGCCCATACGCGAAGGTGGGTACAGc                                                                            <  1:418060/89‑1 (MQ=255)
                                                                                                                                  tCGCCCAGCAAGGCATCGAAGCCTTCGGCGTGGTCGTGGTGCAGGGCCGACAGGCGTTCGCCCATACGCGAAGGTGGGTACAGCGt                                                                          <  1:212916/86‑1 (MQ=255)
                                                                                                                                  tCGCCCAGCAAGGCATCGAAGCCTTCGGCGTGGTCGTGGTGCAGGGCCGACAGGCGTTCGCCCATACGCGAAGGTGGGTACAGCGt                                                                          >  2:212916/1‑86 (MQ=255)
                                                                                                                                     cccAGCAAGGCATCGAAGCCTTCGGCGTGGTCGTGGTGCAGGGCCGACAGGCGTTCGCCCATACGCGAAGGTGGGTACAGCGTCAGCAGGCCACCGGCGTTGGTAATCGGCATGGCGTCCAGCAGCAGGCTATGGCCGTTCAGCTGCAtt       >  1:469711/1‑150 (MQ=255)
                                                                                                                                          cAAGGCATCGAAGCCTTCGGCGTGGTCGTGGTGCAGGGCCGACAGGCGTTCGCCCATACGCGAAGGTGGGTACAGCGTCAGCAGGCCACCGGCGTTGGTAATCGGCATGGCGTCCAGCAGCAGGCTATGGCCGTTCAGCTGCATTTcgcg  <  1:182280/150‑1 (MQ=255)
                                                                                                                                          |                                                                                                                                                     
GCTGCTGACGGCATGGCAGGCGCGGGCTACCAGTTCTTTACCGGTGCCGGTCTCGCCATGCACCAGCAGCGGTGCATCGAGCGCAGCCACGCGTAAGGCGCGGGCCTTGAGGGTGCGGATGGCCGGCGACTCGCCCAGCAAGGCATCGAAGCCTTCGGCGTGGTCGTGGTGCAGGGCCGACAGGCGTTCGCCCATACGCGAAGGTGGGTACAGCGTCAGCAGGCCACCGGCGTTGGTAATCGGCATGGCGTCCAGCAGCAGGCTATGGCCGTTCAGCTGCATTTCGCG  >  NC_002947/1136264‑1136551

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑