Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 2,973,988 C→T 9.3% intergenic (‑115/‑80) PP_2600 ← / → PP_2601 hypothetical protein/IclR family transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029472,973,9880CT 9.3% 115.8 / 2.3 43intergenic (‑115/‑80)PP_2600/PP_2601hypothetical protein/IclR family transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base C (20/19);  new base T (2/2);  total (22/21)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.42e-01

TCGCATTCGGTTTCGAGAGGAGCGGAAGGCATTGCGGGTTTCCTGTGCTTTTATTAGAACAATGTTCCACATTCTTATCAGCAGCGGGTGGTCCTGCAAGGTCAGGTT‑GGTCATGTCAGGCAAGAACTGGGCGATCATCGGACATTCGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTGGAATCATCTTCTAGAATTCGCAAAAAAAT‑CAGGGAC‑CTGTGACATGGCTGGT‑AGTCAGATCGAACGCGCCTTCAGTCTTGTAGAAAGCCTTACCGGTGAACCCCAAGGGC  >  NC_002947/2973842‑2974134
                                                                                                                                                   |                                                                                                                                                     
tCGCATTCGGTTTCGAGAGGAGCGGAAGGCATTGCGGGTTTCCTGTGCTTTTATTAGAACAATGTTCCACATTCTTATCAGCAGCGGGTGGTCCTGCAAGGTCAGGTT‑GGTCATGTCAGGCAAGAACTGGGCGATCATCGGACATTCgg                                                                                                                                                     <  8:125601/149‑1 (MQ=255)
   cATTCGGTTTCGAGAGGAGCGGAAGGCATTGCGGGTTTCCTGTGCTTTTATTAGAACAATGTTCCACATTCTTATCAGCAGCGGGTGGTCCTGCAAGGTCAGGTT‑GGTCATGTCAGGCAAGAACTGGGCGATCATCGGACATTCGGGGt                                                                                                                                                  >  4:322592/1‑149 (MQ=255)
               agagGAGCGGAAGGCATTGCGGGTTTCCTGTGCTTTTATTAGAACAATGTTCCACATTCTTATCAGCAGCGGGTGGTCCTGCAAGGTCAGGTT‑GGTCATGTCAGGCAAGAACTGGGCGATCATCGGACATTCGGGGTGGCCCGAGCTgc                                                                                                                                      <  7:5880/149‑1 (MQ=255)
                        gAAGGCATTGCGGGTTTCCTGTGCTTTTATTAGAACAATGTTCCACATTCTTATCAGCAGCGGGTGGTCCTGCAAGGTCAGGTT‑GGTCATGTCAGGCAAGAACTGGGCGATCATCGGACATTCggg                                                                                                                                                    <  6:152283/126‑1 (MQ=255)
                        gAAGGCATTGCGGGTTTCCTGTGCTTTTATTAGAACAATGTTCCACATTCTTATCAGCAGCGGGTGGTCCTGCAAGGTCAGGTT‑GGTCATGTCAGGCAAGAACTGGGCGATCATCGGACATTCggg                                                                                                                                                    >  5:152283/1‑126 (MQ=255)
                        gAAGGCATTGCGGGTTTCCTGTGCTTTTATTAGAACAATGTTCCACATTCTTATCAGCAGCGGGTGGTCCTGCAAGGTCAGGTT‑GGTCATGTCAGGCAAGAACTGGGCGATCATCGGACATTCGGGGTGGCCCGAGCTGCGCTGGCTAg                                                                                                                             >  3:290186/1‑149 (MQ=255)
                                    ggTTTCCTGTGCTTTTATTAGAACAATCTTCCACATTCTTATCAGCAGCGGGTGGTCCTGCAAGGTCAGGTT‑GGTCATGTCACGCAATAACTGGGCGATCATCGGAAATTCGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTgg                                                                                                                  >  1:326991/1‑148 (MQ=255)
                                          cTGTGCTTTTATTAGAACAATGTTCCACATTCTTATCAGCAGCGGGTGGTCCTGCAAGGTCAGGTT‑GGTCATGTCAGGCAAGAACTGGGCGATCATCGGACATTCGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTGGAatcatc                                                                                                           >  8:238459/1‑149 (MQ=255)
                                             tgattttATTAGAACAATGTTCCACATTCTTATCAGCAGCTGGTGGTCCTGCAAGGTCAGGTT‑GGTCATGTCAGGCAAGAACTGGGCGATCATCGGACATTCGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTGGAATCAtctt                                                                                                         <  3:224021/145‑1 (MQ=255)
                                               cTTTTATTAGAACAATGTTCCACATTCTTATCAGCAGCGGGTGGTCCTGCAAGGTCAGGTT‑GGTCATGTCAGGCAAGAACTGGTCGATCATCGGACATTCGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTGGAATCATCTTCTa                                                                                                      <  7:307998/149‑1 (MQ=255)
                                                     ttaGAACAATGTTCCACATTCTTATCAGCAGCGGGTGGTCCTGCAAGGTCAGGTTGGGTAATGTCAGGCAAAAACTGGGCGATCATCGGACATTCGGGGTGGCCCGAGCTGCGCTGGATAGCGACGATGTGGCATCATCTTATAGAAtt                                                                                                 >  1:287415/1‑149 (MQ=255)
                                                      taGAACAATGTTCCACATTCTTATCAGCAGCGGGTGGTCCTGCAAGGTCAGGTT‑GGTCATGTCAGGCAAGAACTGGGCGATCATCGGACATTCGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTGTCATCATATTCTAGAATTCg                                                                                               >  4:245186/1‑149 (MQ=255)
                                                        gAACAATGTTCCACATTCTTATCAGCAGCGGGTGGTCCTGCAAGGTCAGGTT‑GGTCATGTCAGGCAAGAACTGGGCGATCATCGGACATTCg                                                                                                                                                      <  8:190977/92‑1 (MQ=255)
                                                        gAACAATGTTCCACATTCTTATCAGCAGCGGGTGGTCCTGCAAGGTCAGGTT‑GGTCATGTCAGGCAAGAACTGGGCGATCATCGGACATTCGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTGGAATCATCTTCTAGAATTc                                                                                                <  5:206437/146‑1 (MQ=255)
                                                        gAACAATGTTCCACATTCTTATCAGCAGCGGGTGGTCCTGCAAGGTCAGGTT‑GGTCATGTCAGGCAAGAACTGGGCGATCATCGGACATTCGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTGGAATCATCTTCTAGAATTc                                                                                                >  6:206437/1‑146 (MQ=255)
                                                                   cacaTTCTTATCAGCAGCGGGTGGTCCTGCAAGGTCAGGTT‑GGTCATGTCAGGCAAGAACTGGGCGATCATCGGACATTTGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTGGAATCATCTTCTAGAATTCGCAAAAAAAT‑CAgg                                                                                 >  2:326752/1‑149 (MQ=255)
                                                                   cacaTTCTTATCAGCAGCGGGTGGTCCTGCAAGGTCAGGTT‑GGTCATGTCAGGCAAGAACTGGGCGATCATCGGACATTCGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGAt                                                                                                                      <  6:21732/113‑1 (MQ=255)
                                                                    acaTTCTTATCAGCAGCGGGTGGTCCTGCAAGGTCAGGTT‑GGTCATGTCAGGCAAGAACTGGGCGATCATCGGACATTTGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTGGAATCATCTTCTAGAATTCGCAAAAAAAT‑CAgg                                                                                 >  3:125003/1‑148 (MQ=255)
                                                                          ttATCAGCAGCGGGTGGTCCTGCAAGGTCAGGTT‑GGTCATGTCAGGCAAGAACTGGGCGATCATCGGACATTCGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTGGAATCATCTTCTAGAATTCGCAAAAAAAT‑CAGGGAC‑Ctgt                                                                         >  2:96356/1‑149 (MQ=255)
                                                                            aTCAGCAGCGGGTGGTCCTGCAAGGTCAGGTT‑GGTCATGTCAGGCAAGAACTGGGCGATCATCGGACATTCGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTGGAATCATCTTCTAGAATTCGCAAAAAAAT‑CAGGGAC‑Ctgt                                                                         <  4:290186/147‑1 (MQ=255)
                                                                              cagcagCGGGTGGTCCTGCAAGGTCAGGTT‑GGTCATGTCAGGCAAGAACTGGGCGATCATCGGACATTCGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTGGAATCATCTTCTAGAATTCGCAAAAAAAT‑CAGGGAC‑CTGTGACa                                                                     >  5:186385/1‑149 (MQ=255)
                                                                                gcagcGGGTGGTCCTGCAAGGTCAGGTT‑GGTCATGTCAGGCAAGAACTGGGAGATCATCGGACATTCGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTGGAATCATCTTCTAGAATTCGCAAAAAAAT‑CAGGGAC‑CTGTGACATg                                                                   >  5:326183/1‑149 (MQ=255)
                                                                                 cagcGGGTGGTCCTGCAAGGTCAGGTT‑GGTCATGTCAGGCAAGAACTGGGCGATCATCGGACATTCGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTGGAATCATCTTCTAGAATTCGCAAAAAAAT‑CAGGGAC‑CTGTGACATgg                                                                  >  5:265502/1‑149 (MQ=255)
                                                                                     gggTGGTCCTGCAAGGTCAGGTT‑GGTCATGTCAGGCAAGAACTGGGCGATCATCGGACATTCGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTGGAATCATCTTCTAGAATTCGCAAAAAAAT‑CAGGGAC‑CTGTGACATGGCTgg                                                              <  3:322592/149‑1 (MQ=255)
                                                                                       gtggtCCTGCAAGGTCAGGTT‑GGTCATGTCAGGCAAGAACTGGGCGATCATCGGACATTCGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTGGAATCATCTTCTAGAATTCGCAAAAAAAT‑CAGGGAC‑CTGTGACATGGCTGGT‑a                                                           <  3:245186/149‑1 (MQ=255)
                                                                                         ggtCCTGCAAGGTCAGGTT‑GGTCATGTCAGGCAAGAACTGGGCGATCATCGGACATTCGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTGGAATCATCTTCTAGAATTCGCAAAAAAAT‑CAGGGAC‑CTGTGACATGGCTGGT‑AGt                                                         >  6:316648/1‑149 (MQ=255)
                                                                                           tCCTGGAAGTTCAGGTT‑GGTCATGTCAGGCAAGAACTGGGCGATCATCGGACATTCGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTGGATTCATCTTCTAGAATTCGCAAAAAAAT‑CAGGGAC‑CTGTGACATGGCTGGT‑AGTCa                                                       <  6:326183/149‑1 (MQ=255)
                                                                                             cTGCAAGGTCAGGTT‑GGTCATGTCAGGCAAGAACTGGGCGATCATCGGACATTCGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTGGAATCATCTTCTAGAATTCGCAAAAAAAT‑CAGGGAC‑CTGTGACATGGCTGGT‑AGTCAGa                                                     <  5:316648/149‑1 (MQ=255)
                                                                                                cAAGGTCAGGTT‑GGTCATGTCAGGCAAGAACTGGGCGATCATCGGACATTCGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTGGAATCATCTTCTAGAATTCGCAAAAAAAT‑CAGGGAC‑CTGTGACATGGCTGGT‑AGTCAGATc                                                   <  2:280305/148‑1 (MQ=255)
                                                                                                  aGGTCAGGTT‑GGTCATGTCAGGCAAGAACTGGGCGATCATCGGACATTCGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTGGAATCATCTTCTAGAATTCGCAAAAAAAT‑CAGGGAC‑CTGTGACATGGCTGGT‑AGTCAGATCGaa                                                >  2:277930/1‑149 (MQ=255)
                                                                                                      cAGGTT‑GGTCATGTCAGGCAAGAACTGGGCGATCATCGGACATTCGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTGGAATCATCTTCTAGAATTCGCAAAAAAAT‑CAGGGAT‑CTGTGACATGGCTGGT‑AGTCAGATCGAAcgcg                                            >  1:269866/1‑149 (MQ=255)
                                                                                                              gTCATGTCAGGCAAGAACTGGGCGATCATCGGACATTCGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTGGAATCATCTTCTAGAATTCGCAAAAAAAT‑CAGGGAC‑CTGTGACATGGCTGGT‑AGTCAGATCGAACGCGCCTTCa                                      <  5:192108/148‑1 (MQ=255)
                                                                                                                   gTCAGGCAAGAACTGGGCGATCATCGGACATTCGGGGTGGCCCGAGCTGCGCTGACTAGCGACGATGTGGAATCATCTTCTAGAATTCGCAAAAAAAT‑CAGGGAC‑CTGTGACATGGCTGGT‑AGTCAGATCGAACGCGCCTTCAGTCTTg                                >  6:125031/1‑149 (MQ=255)
                                                                                                                      aGGCAAGAACTGGGCGATCATCGGACATTTGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTGGAATCATCTTCTAGAATTCGCAAAAAAAT‑CAGGGAC‑CTGTGACATGGCTGGT‑AGTCAGATCGAACGCGCCTTCAGTCTTGTa                              <  1:326752/148‑1 (MQ=255)
                                                                                                                      aGGCAAGAACTGGGCGATCATCGGACATTCGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTGGAATCATCTTCTAGAATTCGCAAAAAAATACAGGGAC‑CTGTGACATGGCTGGT‑AGTCAGATCGAACGCGCCTTCAGTCTTGTa                              <  1:96356/149‑1 (MQ=255)
                                                                                                                                tGGGCGTTCATCGGACATTCGGGGTGGCCCGATCTGCGCTTGCTATCGAAGATGTGGAATCATCATCTATAATTCGCAAAAAAAT‑CATGGACTCTGTGACATGGCTGGT‑AGTCAGATCGAACGCGCCtt                                        <  1:247677/129‑1 (MQ=255)
                                                                                                                                tGGGCGATCATCGGACATTCGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTGGAATCATCTTCTAGAATTCGCAAAAAAAT‑CAGGGAC‑CTGTGACATGGCTGGT‑AGTCAGATCGAACGCGCCtt                                        >  2:247677/1‑128 (MQ=255)
                                                                                                                                         atcGGACATTCGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTGGAATCATCTTCTAGAATTCGCAAAAAAAT‑CAGGGAC‑CTGTGACATGGCTGGT‑AGTCAGATCGAACGCGCCTTCAGTCTTGTAGAAAGCCTTACCGGTGAAc           <  6:265502/148‑1 (MQ=255)
                                                                                                                                            ggACATTCGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTGGAATCATCTTCTAGAATTCGCAAAAAAAT‑CAGGGAC‑CTGTGACATGGCTGGT‑AGTCAGATCGAACGCGCCTTCAGTCTTGTAGAAAGCCTTACCGGTGAAcccc        >  4:73249/1‑148 (MQ=255)
                                                                                                                                            cgaaaTTCGGGGTGGCCCGTTCTGCGGTTGGTAGCGTAGATGTGGAATCATCTTCTAGAATTCGCAAAAAAAT‑CAGGGAA‑CTGTGACATTGCTGGTCAGTCAGATCGAACGCGCCTTCAGTCTTGTAGAAAGCCTTACCGGTGAAccc         <  1:277930/144‑1 (MQ=255)
                                                                                                                                              aCATTTGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTGGAATCATCTTCTAGAATTCGCAAAAAAAT‑CAGGGAC‑CTGTGACATGGCTGGT‑AGTCAGATCGAACGCGCCTTCAGTCTTGTAGAAAGCCTTACCGGTGAACCCCAAg     <  4:125003/149‑1 (MQ=255)
                                                                                                                                                aTTCGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTGGAATCATCTTCTAGAATTCGCAAAAAAAT‑CAGGGAC‑CTGTGACATGGCTGGT‑AGTCAGATCGAACGCGCCTTCAGTCTTGTAGAAAGCCTGACCGGTGAACCCCAAggg   >  5:115760/1‑149 (MQ=255)
                                                                                                                                                 ttCGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTGGAATCATCTTCTAGAATTCGCAAAAAAAT‑CAGGGAC‑CTGTGACATGGCTGGT‑AGTCAGATCGAACGCGCCTTCAGTCTTGTAGAAAGCCTTACCGGTGAACCCCAAGGGc  >  5:245945/1‑149 (MQ=255)
                                                                                                                                                   |                                                                                                                                                     
TCGCATTCGGTTTCGAGAGGAGCGGAAGGCATTGCGGGTTTCCTGTGCTTTTATTAGAACAATGTTCCACATTCTTATCAGCAGCGGGTGGTCCTGCAAGGTCAGGTT‑GGTCATGTCAGGCAAGAACTGGGCGATCATCGGACATTCGGGGTGGCCCGAGCTGCGCTGGCTAGCGACGATGTGGAATCATCTTCTAGAATTCGCAAAAAAAT‑CAGGGAC‑CTGTGACATGGCTGGT‑AGTCAGATCGAACGCGCCTTCAGTCTTGTAGAAAGCCTTACCGGTGAACCCCAAGGGC  >  NC_002947/2973842‑2974134

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑