Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 418,961 Δ1 bp coding (1073/1296 nt) phoR → sensory histidine kinase in two‑component regulatory system with PhoB

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_000913418,9600G.97.4% 155.1 / ‑0.4 39coding (1072/1296 nt)phoRsensory histidine kinase in two‑component regulatory system with PhoB
Reads supporting (aligned to +/- strand):  ref base G (1/0);  new base . (15/22);  total (17/22)
Fisher's exact test for biased strand distribution p-value = 4.21e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.41e-01

TGTCTGGCAACGAAGATCAGCTACGCAGTGCGATTTCGAACCTGGTCTATAACGCCGTGAATCATACGCCGGAAGGCACGCATATCACCGTACGCTGGCAGCGAGTGCCGCACGGTGCCGAATTTAGCGTTGAAGATAACGGACCGGGCATTGCACCGGAGCATATTCCGCGCCTGACCGAGCGTTTTTATCGCGTTGATAAAGCGCGTTCCCGGCAAACCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAATCATCACGAAA  >  NC_000913/418820‑419095
                                                                                                                                            |                                                                                                                                       
tgtCTGGCAACGAATATCAGCTACGCAGTGCGTTTTCGAACCTGTTCTTTAACGCTGTGAATCATTCGCCGGAAGGCACGCATATCACCGTACGCTGGCAGCGAGTGCCGCACGGTGCCGAATTTAGCGTTGAAGATAACgac                                                                                                                                       <  1:328229/143‑3 (MQ=255)
    tGGCAACCAAGACCACCTACGCAGTGCGATTTCGAACCTCGTCTATAACGCCGTGAATCATACGCCGGACGGCACGCATATCACCGTACGCTGGCAGCGAGTGCCGCACGGTGCCGAATTTAGCGTTGAAGATAACGACCggg                                                                                                                                  <  1:828063/143‑1 (MQ=255)
         aCGAAGATCAGCTACGCAGTGCGATTTCGAACCTGGTCTATAACGCCGTGAATCATACGCCGGAAGGCACGCATATCACCGTACGCTGGCAGCGAGTGCCGCACGGTGCCGAATTTCGCGTTGACGATACCGACCGGGCtttt                                                                                                                             >  1:19720/1‑142 (MQ=255)
             aGATCAGCTACGCAGTGCGATTTCGAACATGGTCTGTATCGCCTGGAATCAGACGCCGGAAGGCACGCATATCACCGTACGCTGGCAGCGAGTGCCGCACGGTGCCGAATTTAGCGTTGAAGATAACGACCGGGCACTGCAcc                                                                                                                         >  1:863115/1‑143 (MQ=255)
                tCAGCTCCGCAGTGCGATTTCGAACCTGGTCTATAACGCCGTGAATCATACGCCGGAAGGCACGCATAGCACAGTACGCTGGCAGCGAGTGCCGCACGGTGCCGAATTTAGCGTTGAAGATAACGACCGGGCATTGCACCGGa                                                                                                                      <  2:644241/143‑1 (MQ=255)
                tCAGCGACGCAGTGCGATTTCGCACCTGGTCCCGTCCCCCGTGAATCATACGCCGGAAGGCACGCATATCACCGTACGCTGGCAGCGAGTGCCGCACGGTGCCGAATTTAGCGTTGAAGATAACGACCGGGCATTGCACCGGa                                                                                                                      <  1:701920/143‑1 (MQ=255)
                   gCTGCGCAGTGCGATTTCGAACCTGGTCGTTGACGCCGTGAATCATACGCCGGAAGGCACGCATATCACCGTACGCTGGCAGCGAGTGCCGCACGGTGCCGAAGTTAGCGTTGAAGATAACGACCGGGCATTGCACCGGAGCa                                                                                                                   <  2:739069/143‑1 (MQ=255)
                   gCTACGCAGTGCGATTTCGAACCTGGTCTATAACGCCGTGAATCATACGCCGGAAGGCACGCATATCACCGTACGCTGGCAGCGAGTGCCGCACGGTGCCGAATTTAGCGTTGAAGATAACGACCGGGCATTGCACCGGAGCa                                                                                                                   <  1:525430/143‑1 (MQ=255)
                     tACGCAGTGCGATTTCGAACCTGGTCTATAACGCCGTGAATCATACGCCGGAAGGCACGCATATCACCGTACGCTGGCAGCGAGTGCCGCACGGTGCCGAATTTAGCGTTGAAGATAACGACCGGGCATAGCACCGGAGCata                                                                                                                 >  2:698707/1‑143 (MQ=255)
                          aGTGCGATTTCGAACCTGGTCTATAACGCAGTGAATCATCCGCCGGAAGGCACGCATATCACCGTACGCTGGCAGCGAGTGCCGCACGGTGCCGAATTTAGCGTTGAAGATAACGACCGGGCGTTGCAGCGGAGCATATGCcg                                                                                                            >  2:647735/1‑143 (MQ=255)
                            tGCGATTTCGAACCTGGTCTATAACGCCGTGAATCATACGCCGGAAGGCACGCATATCACCGTACGCTGGCAGCGAGTGCCGCACGGTGCCGAATTTAGCGTTGAAGATAACGACCGGGCATTGCACCGGAGCATATTCcgcg                                                                                                          >  1:852038/1‑143 (MQ=255)
                             gcgatgtgccatcTGGTCCACACCGCCGTTGAGCGTACGGCTGAAGGCACGCAGCTCCGCGTACGCTGGCCGCGAGTGCCGCACGGTGCCGACTTTAGCGTTGCAGATAACGACCGGGCATTGCACCGGAGCCTACTCCgcgc                                                                                                         <  2:493804/131‑1 (MQ=255)
                             gCGATTTCGAACCTGGTCTATAACGCCGTGAATCATACGCCGGAAGGCACGCATATCACCGTACGCTGGCAGCGAGTGCCGCACGGTGCCGAATTTAGCGTTGAAGATAACGACCGGGCATTGCACCGGAGCATATTCCgcgc                                                                                                         <  1:591968/143‑1 (MQ=255)
                                 tttCGAACCTGGTCTATAACGCCGTGAATCATACGCCGGAAGGCACGCATATCACCGTACGCTGGCAGCGAGTGCCGCACGGTGCCGAATTTAGCGTTGAAGATAACGACCGGGCATTGCACCGGAGCATATTCCGAGCCTGa                                                                                                     >  1:370255/1‑143 (MQ=255)
                                 tttCGAACCTGGTCTATAACGCCGTGAATCATACGCCGGAAGGCACGCATATCACCGTACGCTGGCAGCGAGTGCCGCACGGCGCCGAATTTAGCGTTGAAGATAACGACCGGGCATGGCACCGGAGCATATTCCGCGCCTGa                                                                                                     >  2:668678/1‑143 (MQ=255)
                                  tgtgtaaaagatCTACAACGCCTAGTTTCATACGCCGGAAGGCACGCATATCACCGTACGCTGGCAGCGAGTGCCGCACGGTGCCGAATTTAGCGTTGAAGATAACGACCGGGCATTGCACCGGAGCATATTCCGCGCCTGAc                                                                                                    <  1:202000/132‑1 (MQ=255)
                                       aCCTGGTCTATACCGCCGTGAATCATACGCCGGAAGGCACGCATATCACCGTACGCTGGCAGCGAGTGCCGCACGGTGCCGAATTTAGCGTTGAAGATAACGACCGGGCATTGCACCGGAGCATATTCCGCGCCTGACCGAGc                                                                                               <  1:647359/143‑1 (MQ=255)
                                       aCCTGGACTATAACGCCGTAAATCAGACGCCGGAAGGCACGCATATCACCGTACGCTGGCAGCGAGTGCCGCACGGTGCCGAATTTAGCGTTGAAGATAACGACCGGGCATTGCACCGGAGCATATTCCGCGCCTGACCGAGc                                                                                               <  1:647472/143‑1 (MQ=255)
                                          tGGTCTATAACGCCGTGAATCATACGCCGGAAGGCACGCATATCACCGTACGCTGGCAGCGGGTGCCGCACGGTGCCGAATTTAGCGTCGACGCTAACGCACGGGCATTGCACCGCAGCATATTCCGCGCCTGACGGGGCGtt                                                                                            >  2:356947/1‑143 (MQ=255)
                                              ctgtaccgccgcGAAGCCCACGCCGGAAGGCACGCATAGCACCGTACGCTGGCAGCGAGTGCCGCACGGTGCCGAATTTAGCGTTGAAGATAACGACCGGGCATTGCACCGGAGCATATTCCGCGCCTGACCGAGCGTTTTTa                                                                                        <  1:72156/137‑1 (MQ=255)
                                               tataACGCCGTGAATCATACGCCGGAAGGCACGAATATCACCGTACGCTGACAGCGAGTGCCGCACGGTGCCGAATTTAGCGTTGAAGATAACGACCGGGCAGTGCACCGGAGCATATTCCGCGCCTGACCGAgggattagat                                                                                       >  1:24687/1‑134 (MQ=255)
                                                ataACGCCGTGAATGATACGCCGGGAGGCACGCATATCACCGTACGCTGGCAGCGAGTGCCGCAGGGTGCCGAATTTAGCGTTGAAGATAACGACCGGGCATTGCACCGGAGCATATTCCGCGCCTGACCGAGCGTTTTTATc                                                                                      <  2:730198/143‑1 (MQ=255)
                                                           aaTCATACGCCGGAAGGCACGCATATCACCGTACGCTGGCAGCGAGTGCCGCACGGTGCCGAATTTAGCGTTGAAGATAACGACCGGGCATTGCACCGGAGCATATTCCGCGCCTGACCGAGCGGAATTATCGCGGTGATaaa                                                                           >  2:262828/1‑143 (MQ=255)
                                                             tCATACGCCGGAAGGCACGCATATCACCGTACGCTGGCAGCGAGTGCCGCACGGTGCCGAATTTAGCGTTGAAGATCACGACCGGGCATTGCACCGGAGCATATTCCGCGCCTGACTGAGCGTTTGTATCGCGGTGATACAgc                                                                         >  2:801526/1‑143 (MQ=255)
                                                                       gAAGGCACGTCTATGTCCGTACGCTGGCAGCTAGTGCCGCACGGTGCCGAATTTAGCGTTGAAGCTAACGACCGAGCATTGCACCGGAGCATATTCCGCGCCTGACCGAGCGTTTTTATCGCGTTGATAAAGCGCGTTCCCgg                                                               <  1:229719/143‑1 (MQ=255)
                                                                             aCGCATATCACCGTACGCTGGCAGCGAGTGCCGCACGGTTCCGAATTTAGCGTTGAAGATAACGACCGGGCATTGCACCGGAGCATATTCCGCGCCTGACCGAGCGTTTTTATCGCGTTGATAAAGCGCGTTCCCGGCAAAcc                                                         >  1:605921/1‑143 (MQ=255)
                                                                             aCGCATATCACCGTACGCTGGCAGCGAGTGCCGCACGGAGCCGAATTTAGCGTTGGAGATAACGACCGGGCATTGCACCGGAGCATATTCCGCGCCTGACCGAGCGTTTTTATCGCGTTGATAAAGCGAGTTCCCGGCAAAcc                                                         >  1:643115/1‑143 (MQ=255)
                                                                                         gTACGCTGGCAGCGGGTGCCGCACGGTGCCGAATTCAGCGTTGAAGATAACGACCGGGCATTGCACCGGAGCATATTCCGCGCCTGACCGAGCGTTTTTATCGCGTTGATAAAGCGCGTTCCCGGCAAACCGGCGGTAGCGGa                                             <  1:122336/143‑1 (MQ=255)
                                                                                            cgagggcgcggggcgCCGCGCGGTGCCGAATTTAGCGTTGAAGATAACGACCGGGCATTGCACCGGAGCATATTCCGCGCCTGCCCGAGCGTTTTTATCGCGTTGATAAAGCGCGTTCCCGGCAAACCGGCGGTAGCGGATTa                                          <  2:424194/129‑1 (MQ=255)
                                                                                               tGGCAGCGAGTGCCGCACGGTGCCGAATTTAGCGTTGAAGATAACGACCGGGCATTGCACCGGAGCATATTCCGCGCCTGACCGAGCGTTTTTATCGCGTTGATAAAGCGCGTTCCCGGCGAACCGGCGGTAGCGGAGCAggg                                       >  2:775389/1‑143 (MQ=255)
                                                                                                ggCAGCGAGTGCCGCACGGTGCCGAATTTAGCGTTGAAGATAACGACCGGGCATTGCACCGGAGCATATTCCGCGCCTGACCGAGCGTTTTTATCGCGTTGATAAAGCGTGTTCCCGGCAAACCGGCGGTAGCGGATTAGGGt                                      <  1:240367/143‑1 (MQ=255)
                                                                                                   aGCGAGTGCCGCACGGTGCCGAATTTAGCGTTGAAGATAACGACCGGGCATTGCACCGGAGCATATTCCGCGCCTGACCGAGCGTTTTTATCGCGTTGATAAAGCGCGTTCCCGGCAAACCGGCGGTAGCGGATTAGGGTTAg                                   <  1:172909/143‑1 (MQ=255)
                                                                                                           ccGCACGGTGCCGAATTTAGCGTTGAAGATAACGACCGGGCATTGCACCGGAGCATATTCCGCGCCTGACCGAGCGTTTTTATCGCGTTGATAAAGCGCGTTCCCGGCAAACCGGCGGTAGCGGATTAGGGTTAGCGATCGTg                           <  2:853903/143‑1 (MQ=255)
                                                                                                            cGCACGGTGCCGAATTTAGCGTTGAAGATAACGACCGGGCATTGCACCGGAGCATATTCCGCGCCTGACCGAGCGTTTTTATCGCGTTGATAAAGCGCGTTCCCGGCAAACCGGCGGTAGCGGCTTAGGGTTAGCGGTCGTGa                          >  1:12566/1‑143 (MQ=255)
                                                                                                                  gTGCCGAATTTAGCGTTGAAGATAACGACCGGGCATTGCACCGGAGCATATTCCGCGCCTGACCGAGCGTTTTTATCGCGTTGATAAAGCGCGTTCCCGGCAAACCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATg                    <  1:555183/143‑1 (MQ=255)
                                                                                                                        aaTTCAGCGTTGAAGATAACGACCGGGCATTGCACCGGAGCATATTCCGCGCCTGACCGAGCGTTTTTATCGCGTTGATAAAGCGCGTTCCCGGCAAACCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGa              <  2:554565/143‑1 (MQ=255)
                                                                                                                          tttAGCGTTGAAGATAACGACCGGGCATTGCACCGGAGCATATTCCGCGCCTGACCGCGCGTTTTTATCGCGTTGATAACGCGCGTTCCCGGCACACCGGCGGTAGCGGATTAGGGTTAGCGATCGTGCAACATGCTGTGAat            >  2:893600/1‑143 (MQ=255)
                                                                                                                              gCGTTGATGATCACGACCGGGCATTGCACCGGAGCGTATTCCGCGCCTGGCCTAGCGTTTTTATCGCGTTGATAAAGCGCGTTCCCGGCAAACCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAatcatc        <  2:749943/143‑1 (MQ=255)
                                                                                                                               cGTTGAAGATAACGACCGGGCATTGCACCGGAGCATATTCCGCGCCTGACCGAGAGTTTTTATCGCGTTGATAAAGCGCGTTCCCGGCAAACCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAAtcatca       >  1:470865/1‑143 (MQ=255)
                                                                                                                                    aaGATAACGAGCGGGCATTGCACCGGAGCATATTCCGCGCCTGACCGAGCGTTGTGATCGCGTTGATAAAGCGCGTTCCCGGCAAACCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAATCATCACGaaa  <  1:832806/143‑1 (MQ=255)
                                                                                                                                            |                                                                                                                                       
TGTCTGGCAACGAAGATCAGCTACGCAGTGCGATTTCGAACCTGGTCTATAACGCCGTGAATCATACGCCGGAAGGCACGCATATCACCGTACGCTGGCAGCGAGTGCCGCACGGTGCCGAATTTAGCGTTGAAGATAACGGACCGGGCATTGCACCGGAGCATATTCCGCGCCTGACCGAGCGTTTTTATCGCGTTGATAAAGCGCGTTCCCGGCAAACCGGCGGTAGCGGATTAGGGTTAGCGATCGTGAAACATGCTGTGAATCATCACGAAA  >  NC_000913/418820‑419095

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 8 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap:     Deleted base: