Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 1,366,538 T→C 11.1% L216P (CTG→CCG)  phoP → two‑component system DNA‑binding transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029471,366,5380TC11.1% 93.0 / 4.8 36L216P (CTG→CCG) phoPtwo‑component system DNA‑binding transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base T (15/17);  new base C (2/2);  total (17/19)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.99e-01

CGCCTGATGGAGCAGTTGTACCCAGGAGACGAAGAGCGCGACCCCAATGTCATCGAAGTGCTGGTTGGCCGCCTGCGCCGCAAGCTTGAAGGCGAGCGCGGCTTCAAACCCATCGACACGGTGCGCGGCCTGGGCTACCTGTTCACCGAGCGCTGCCGATGATCCGCTCGCTGCGGGTGCGCCTGATGCTGGCCGCCGCAGTGTTGGCGCTGCTGTTCATGCTGGCGCTGCTGCCGGCCTTGCAGAAGGCCTTCAGCCTGGCTCT  >  NC_002947/1366408‑1366672
                                                                                                                                  |                                                                                                                                      
cGCTTGATGGAGCAGTTGTACCCAGGAGACGAAGAGCGCGACCCCAATGTCATCGAAGTGCTGGTTGGCCGCCTGCGCCGCAAGCTTGAAGGCGAGCGCGGCTTCAAACCCATCGACACGGTGCGCGGCCTGGGCt                                                                                                                                   <  1:409463/136‑1 (MQ=255)
           gCAGTTGTACCCAGGAGACGAAGAGCGCGACCCCAATGTCATCGAAGTGCTGGTTGGCCGCCTGCGCCGCAAGCTTGAAGGCGAGCGCGGCTTCAAACCCATCGACACGGTGCGCGGCCTGGGCTACCTGTTCAcc                                                                                                                        <  1:220512/136‑1 (MQ=255)
                       aGGAGACGAAGAGCGCGACCCCAATGTCATCGAAGTGCTGGTTGGCCGCCTGCGCCGCAAGCTTGAAGGCGAGCGCGGCTTCAAACCCATCGACACGGTGCGCGGCCTGGGCTACCTGTTCACCGAGCGCTGCCga                                                                                                            >  1:648445/1‑136 (MQ=255)
                       aGGAGACGAAGAGCGCGACCCCAATGTCATCGAAGTGCTGGTTGGCCGCCTGCGCCGCAAGCTTGAAGGCGAGCGCGGCTTCAAACCCATCGACACGGTGCGCGGCCTGGGCTACCTGTTCACCGAGCGCTGCCga                                                                                                            >  1:470573/1‑136 (MQ=255)
                            aCGAAGAGCGCGACCCCAATGTCATCGAAGTGCTGGTTGGCCGCCTGCGCCGCAAGCTTGAAGGCGAGCGCGGCTTCAAACCCATCGACACGGTGCGCGGCCTGGGCTACCTGTTCACCGAGCGCTGCCGATGATc                                                                                                       >  2:428782/1‑136 (MQ=255)
                            aCGAAGAGCGCGACCCCAATGTCATCGAAGTGCTGGTTGGCCGCCTGCGCCGCAAGCTTGAAGGCGAGCGCGGCTTCAAACCCATCGACACGGTGCGCGGCCTGGGCTACCTGTTCACCGAGCGCTGCCGATGATc                                                                                                       >  1:389232/1‑136 (MQ=255)
                            aCGAAGAGCGCGACCCCAATGTCATCGAAGTGCTGGTTGGCCGCCTGCGCCGCAAGCTTGAAGGCGAGCGCGGCTTCAAACCCATCGACACGGTGCGCGGCCTGGGCTACCTGTTCACCGAGCGCTGCCGATGATc                                                                                                       >  2:657682/1‑136 (MQ=255)
                             cGAAGAGCGCGACCCCAATGTCATCGAAGTGCTGGTTGGCCGCCTGCGCCGCAAGCTTGAAGGCGAGCGCGGCTTCAAACCCATCGACACGGTGCGCGGCCTGGGCTACCTGTTCACCGAGCGCTGCCGATGATcc                                                                                                      <  2:574621/136‑1 (MQ=255)
                               aaGAGCGCGACCCCAATGTCATCGAAGTGCTGGTTGGCCGCCTGCGCCGCAAGCTTGAAGGCGAGCGCGGCTTCAAACCCATCGACACGGTGCGCGGCCTGGGCTACCTGTTCACCGAGCGCTGCCGATGATCcgc                                                                                                    <  2:409840/136‑1 (MQ=255)
                                      cgACCCCAATGTCATCGAAGTGCTGGTTGGCCGCCTGCGCCGCAAGCTTGAAGGCGAGCGCGGCTTCAAACCCATCGACACGGTGCGCGGCCTGGGCTACCTGTTCACCGAGCGCTGCCGATGATCCGCTCGCTGc                                                                                             <  2:229028/136‑1 (MQ=255)
                                            cAATGTCATCGAAGTGCTGGTTGGCCGCCTGCGCCGCAAGCTTGAAGGCGAGCGCGGCTTCAAACCCATCGACACGGTGCGCGGCCTGGGCTACCTGTTCACCGAGCGCTGCCGATGATCCGCTCGCTGCGGGTgc                                                                                       >  2:465282/1‑136 (MQ=255)
                                                 tCATCGAAGTGCTGGTTGGCCGCCTGCGCCGCAAGCTTGAAGGCGAGCGCGGCTTCAAACCCATCGACACGGTGCGCGGCCTGGGCTACCTGTTCACCGAGCGCTGCCGATGATCCGCTCGCTGCGGGTGCGCCTg                                                                                  <  1:364952/136‑1 (MQ=255)
                                                   aTCGAAGTGCTGGTTGGCCGCCTGCGCCGCAAGCTTGAAGGCGAGCGCGGCTTCAAACCCATCGACACGGTGCGCGGCCTGGGCTACCTGTTCACCGAGCGCTGCCGATGATCCGCTCGCTGCGGGTGCGCCTGAt                                                                                <  1:490855/136‑1 (MQ=255)
                                                      gAAGTGCTGGTTGGCCGCCTGCGCCGCAAGCTTGAAGGCGAGCGCGGCTTCAAACCCATCGACACGGTGCGCGGCCTGGGCTACCTGTTCACCGAGCGCTGCCGATGATCCGCTCGCTGCGGGTGCGCCTGATGCt                                                                             >  2:66232/1‑136 (MQ=255)
                                                      gAAGTGCTGGTTGGCCGCCTGCGCCGCAAGCTTGAAGGCGAGCGCGGCTTCAAACCCATCGACACGGTGCGCGGCCTGGGCTACCTGTTCACCGAGCGCTGCCGATGATCCGCTCGCTGCGGGTGCGCCTGATGCt                                                                             <  2:74947/136‑1 (MQ=255)
                                                      gAAGTGCTGGTTGGCCGCCTGCGCCGCAAGCTTGAAGGCGAGCGCGGCTTCAAACCCATCGACACGGTGCGCGGCCCGGGCTACCTGTTCACCGAGCGCTGCCGATGATCCGCTCGCTGCGGGTGCGCCTGATGCt                                                                             >  1:75233/1‑136 (MQ=255)
                                                      gAAGTGCTGGTTGGCCGCCTGCGCCGCAAGCTTGAAGGCGAGCGCGGCTTCAAACCCATCGACACGGTGCGCGGCCCGGGCTACCTGTTCACCGAGCGCTGCCGATGATCCGCTCGCTGCGGGTGCGCCTGATGCt                                                                             >  1:76495/1‑136 (MQ=255)
                                                           gCTGGTTGGCCGCCTGCGCCGCAAGCTTGAAGGCGAGCGCGGCTTCAAACCCATCGACACGGTGCGCGGCCTGGGCTACCTGTTCACCGAGCGCTGCCGATGATCCGCTCGCTGCGGGTGCGCCTGATGCTGgccg                                                                        <  1:27165/136‑1 (MQ=255)
                                                            cTGGTTGGCCGCCTGCGCCGCAAGCTTGAAGGCGAGCGCGGCTTCAAACCCATCGACACGGTGCGCGGCCTGGGCTACCTGTTCACCGAGCGCTGCCGATGATCCGCTCGCTGCGGGTGCGCCTGATGCTGgccgc                                                                       >  1:564574/1‑136 (MQ=255)
                                                            cTGGTTGGCCGCCTGCGCCGCAAGCTTGAAGGCGAGCGCGGCTTCAAACCCATCGACACGGTGCGCGGCCCGGGCTACCTGTTCACCGAGCGCTGCCGATGATCCGCTCGCTGCGGGTGCGCCTGATGCTGgccgc                                                                       <  2:75233/136‑1 (MQ=255)
                                                            cTGGTTGGCCGCCTGCGCCGCAAGCTTGAAGGCGAGCGCGGCTTCAAACCCATCGACACGGTGCGCGGCCCGGGCTACCTGTTCACCGAGCGCTGCCGATGATCCGCTCGCTGCGGGTGCGCCTGATGCTGgccgc                                                                       <  2:76495/136‑1 (MQ=255)
                                                               gTTGGCCGCCTGCGCCGCAAGCTTGAAGGCGAGCGCGGCTTCAAACCCATCGACACGGTGCGCGGCCTGGGCTACCTGTTCACCGAGCGCTGCCGATGATCCGCTCGCTGCGGGTGCGCCTGATGCTGGCcgccgc                                                                    >  2:556765/1‑136 (MQ=255)
                                                                    ccgccTGCGCCGCAAGCTTGAAGGCGAGCGCGGCTTCAAACCCATCGACACGGTGCGCGGCCTGGGCTACCTGTTCACCGAGCGCTGCCGATGATCCGCTCGCTGCGGGTGCGCCTGATGCTGGCCGCCGCAgtgt                                                               <  1:160101/136‑1 (MQ=255)
                                                                       ccTGCGCCGCAAGCTTGAAGGCGAGCGCGGCTTCAAACCCATCGACACGGTGCGCGGCCTGGGCTACCTGTTCACCGAGCGCTGCCGATGATCCGCTCGCTGCGGGTGCGCCTGATGCTGGCCGCCGCAGTGTTgg                                                            <  1:119435/136‑1 (MQ=255)
                                                                                                 gcgGCTTCAAACCCATCGACACGGTGCGCGGCCTGGGCTACCTGTTCACCGAGCGCTGCCGATGATCCGCTCGCTGCGGGTgc                                                                                       >  1:66005/1‑83 (MQ=255)
                                                                                                 gcgGCTTCAAACCCATCGACACGGTGCGCGGCCTGGGCTACCTGTTCACCGAGCGCTGCCGATGATCCGCTCGCTGCGGGTgc                                                                                       <  2:66005/83‑1 (MQ=255)
                                                                                                                  gACACGGTGCGCGGCCTGGGCTACCTGTTCACCGAGCGCTGCCGATGATCCGCTCGCTGCGGGTGCGCCTGATGCTGGCCGCCGCAGTGTTGGCGCTGCTGTTCATGCTGGCGCTGCTGCCg                               <  2:315200/122‑1 (MQ=255)
                                                                                                                  gACACGGTGCGCGGCCTGGGCTACCTGTTCACCGAGCGCTGCCGATGATCCGCTCGCTGCGGGTGCGCCTGATGCTGGCCGCCGCAGTGTTGGCGCTGCTGTTCATGCTGGCGCTGCTGCCg                               >  1:315200/1‑122 (MQ=255)
                                                                                                                          gcgcGGCCTGGTCAACCTGTTCACCGAGCGCTGCCGATGATCCGCTCGCTGCGGGTGCGCCTGATGCTGGCCGCCGCAGTGTTGGCGCTGCTGTTCATGCTGGCGCTGCTGCCGGCCTAGCAGAAGGCCTTCAGcc         >  1:34091/1‑136 (MQ=255)
                                                                                                                           cgcgGCCTGGGCTACCTGTTCACCGAGCGCTGCCGATGATCCGCTCGCTGCGGGTGCGCCTGATGCTGGCCGCCGCAGTGTTGGCGCTGCTGTTCATGCTGGCGCTGCTGCCGGCCTTGCAGAAGGCCTTCAGCCt        <  2:470573/136‑1 (MQ=255)
                                                                                                                           cgcgGCCTGGGCTACCTGTTCACCGAGCGCTGCCGATGATCCGCTCGCTGCGGGTGCGCCTGATGCTGGCCGCCGCAGTGTTGGCGCTGCTGTTCATGCTGGCGCTGCTGCCGGCCTTGCAGAAGGCCTTCAGCCt        <  2:648445/136‑1 (MQ=255)
                                                                                                                            gcgGCCTGGGCTACCTGTTCACCGAGCGCTGCCGATGATCCGCTCGCTGCGGGTGCGCCTGATGCTGGCCGCCGCAGTGTTGGCGCTGCTGTTCATGCTGGCGCTGCTGCCGGCCTTGCAGAAGGCCTTCAGCCTg       >  1:639668/1‑136 (MQ=255)
                                                                                                                            gcgGCCTGGGCTACCTGTTCACCGAGCGCTGCCGATGATCCGCTCGCTGCGGGTGCGCCTGATGCTGGCCGCCGCAGTGTTGGCGCTGCTGTTCATGCTGGCGCTGCTGCCGGCCTTGCAGAAGGCCTTCAGCCTg       >  1:475581/1‑136 (MQ=255)
                                                                                                                              ggCCTGGGCTACCTGTTCACCGAGCGCTGCCGATGATCCGCTCGCTGCGGGTGCGCCTGATGCTGGCCGCCGCAGTGTTGGCGCTGCTGTTCATGCTGGCGCTGCTGCCGGCCTTGCAGAAGGCCTTCAGcc         >  1:585104/1‑132 (MQ=255)
                                                                                                                              ggCCTGGGCTACCTGTTCACCGAGCGCTGCCGATGATCCGCTCGCTGCGGGTGCGCCTGATGCTGGCCGCCGCAGTGTTGGCGCTGCTGTTCATGCTGGCGCTGCTGCCGGCCTTGCAGAAGGCCTTCAGcc         <  2:585104/132‑1 (MQ=255)
                                                                                                                                 cTGGGCTACCTGTTCACCGAGCGCTGCCGATGATCCGCTCGCTGCGGGTGCGCCTGATGCTGGCCGCCGCAGTGTTGGCGCTGCTGTTCATGCTGGCGCTGCTGCCGGCCTTGCAGAAGGCCTTCAGCCTGGctct  <  1:465282/136‑1 (MQ=255)
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CGCCTGATGGAGCAGTTGTACCCAGGAGACGAAGAGCGCGACCCCAATGTCATCGAAGTGCTGGTTGGCCGCCTGCGCCGCAAGCTTGAAGGCGAGCGCGGCTTCAAACCCATCGACACGGTGCGCGGCCTGGGCTACCTGTTCACCGAGCGCTGCCGATGATCCGCTCGCTGCGGGTGCGCCTGATGCTGGCCGCCGCAGTGTTGGCGCTGCTGTTCATGCTGGCGCTGCTGCCGGCCTTGCAGAAGGCCTTCAGCCTGGCTCT  >  NC_002947/1366408‑1366672

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑