Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_000913 3,217,251 T→C 7.7% L158P (CTG→CCG)  yqjI → PadR family putative transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009133,217,2510TC 7.7% 170.7 / 4.3 52L158P (CTG→CCG) yqjIPadR family putative transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base T (23/25);  new base C (2/2);  total (25/27)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.34e-01

AGTCGCTGATTACCATCCGCGAAGAGGAAGGAGGTAAGAAGCAGATTGCGCTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGATTTACGCGTCAACCAGAGCGATATCAGTGATGCACAAATAAAAAAGATCATTGCGGTGATCGACCGCGCCGCTTTTGATATT  >  NC_000913/3217107‑3217387
                                                                                                                                                |                                                                                                                                        
aGTCGCTGATTACCATCCGCGAAGAGGAAGGAGGTAAGAAGCAGATTGCGCTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTgcg                                                                                                                                       <  2:94304/148‑1 (MQ=255)
     cTGATTACCATCCGCGAAGAGGAAGGAGGTAAGAAGCAGATTGCGCTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGa                                                                                                                                  >  1:539177/1‑148 (MQ=255)
             cATCCGCGAAGAGGAAGGAGGTAAGAAGCAGATTGCGCTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCaa                                                                                                                          <  1:135019/148‑1 (MQ=255)
                ccGCGAAGAGGAAGGAGGTAAGAAGCAGATTGCGCTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCAGCGCCGCGCCa                                                                                                                                    <  1:1087435/135‑1 (MQ=255)
                ccGCGAAGAGGAAGGAGGTAAGAAGCAGATTGCGCTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCAGCGCCGCGCCa                                                                                                                                    >  2:1087435/1‑135 (MQ=255)
                 cgcgAAGAGGAAGGAGGTAAGAAGCAGATTGCGCTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCaaa                                                                                                                         <  1:1060168/145‑1 (MQ=255)
                 cgcgAAGAGGAAGGAGGTAAGAAGCAGATTGCGCTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCaaa                                                                                                                         >  2:1060168/1‑145 (MQ=255)
                           aaggaGGTAAGAAGCAGATTGCGCTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTg                                                                                                                                         <  3:200100/119‑1 (MQ=255)
                           aaggaGGTAAGAAGCAGATTGCGCTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTg                                                                                                                                         >  4:200100/1‑119 (MQ=255)
                               aggTAAGAAGCAGATTGCGCTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCAGCGCCGCGCCa                                                                                                                                    <  4:1094269/120‑1 (MQ=255)
                               aggTAAGAAGCAGATTGCGCTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCAGCGCCGCGCCa                                                                                                                                    >  3:1094269/1‑120 (MQ=255)
                                        gCAGATTGCGCTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTaaa                                                                                               <  2:539177/148‑1 (MQ=255)
                                         cAGATTGCGCTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAg                                                                                              >  2:540922/1‑148 (MQ=255)
                                                 gcTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAg                                                                                                                    >  1:1102039/1‑118 (MQ=255)
                                                 gcTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAg                                                                                                                    <  2:1102039/118‑1 (MQ=255)
                                                  cTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTgg                                                                                     <  1:540922/148‑1 (MQ=255)
                                                         aaCAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGc                                                                                             >  1:845690/1‑133 (MQ=255)
                                                         aaCAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGc                                                                                             <  2:845690/133‑1 (MQ=255)
                                                          aCAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCgg                                                                                           <  2:712112/134‑1 (MQ=255)
                                                          aCAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCgg                                                                                           >  1:712112/1‑134 (MQ=255)
                                                                cgcgcAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGa                                                                                                                      <  3:164284/101‑1 (MQ=255)
                                                                cgcgcAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGa                                                                                                                      >  4:164284/1‑101 (MQ=255)
                                                                    cAGTGGCTGGAAGAAAACCGCGAACAGGAGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGATTTACGCGTCAACCaga                                                                   >  4:624707/1‑148 (MQ=255)
                                                                     aGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGATTTACGCGTCAACCagag                                                                  <  3:624707/148‑1 (MQ=255)
                                                                            ggAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTaa                                                                                                >  2:102153/1‑111 (MQ=255)
                                                                            ggAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTaa                                                                                                <  1:102153/111‑1 (MQ=255)
                                                                             gaagaaAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGATTTACGCGTCAAcc                                                                      <  2:364543/136‑1 (MQ=255)
                                                                             gaagaaAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGATTTACGCGTCAAcc                                                                      >  1:364543/1‑136 (MQ=255)
                                                                              aagaaAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCt                                                                                                            <  1:592181/97‑1 (MQ=255)
                                                                              aagaaAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCt                                                                                                            >  2:592181/1‑97 (MQ=255)
                                                                               agaaAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCaaa                                                                                                                         <  4:80784/83‑1 (MQ=255)
                                                                               agaaAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCaaa                                                                                                                         >  3:80784/1‑83 (MQ=255)
                                                                               agaaAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGATTTAcgc                                                                             <  2:432520/127‑1 (MQ=255)
                                                                               agaaAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGATTTAcgc                                                                             >  1:432520/1‑127 (MQ=255)
                                                                                 aaaaCCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGATTTACGCGTCAACCAGAGCGATATCAGTGa                                                      >  3:294768/1‑148 (MQ=255)
                                                                                       gcgAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGATTTACGCGTCAACCag                                                                    >  4:144642/1‑128 (MQ=255)
                                                                                       gcgAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGATTTACGCGTCAACCag                                                                    <  3:144642/128‑1 (MQ=255)
                                                                                                tGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGAt                                                                                   >  2:368854/1‑104 (MQ=255)
                                                                                                tGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGAt                                                                                   <  1:368854/104‑1 (MQ=255)
                                                                                                     atgatTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCt                                                                                                            >  2:466746/1‑74 (MQ=255)
                                                                                                     atgatTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCt                                                                                                            <  1:466746/74‑1 (MQ=255)
                                                                                                             agaaCGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGATTTACGCGTCAACCAGAGCGATATCAGTg                                                       <  2:139732/119‑1 (MQ=255)
                                                                                                             agaaCGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGATTTACGCGTCAACCAGAGCGATATCAGTg                                                       >  1:139732/1‑119 (MQ=255)
                                                                                                                 cGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGATTTACGCGTCAACCAGAGCGATATCAGTGATGCACAAAt                                             >  4:99412/1‑125 (MQ=255)
                                                                                                                 cGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGATTTACGCGTCAACCAGAGCGATATCAGTGATGCACAAAt                                             <  3:99412/125‑1 (MQ=255)
                                                                                                                 cGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGATTTACGCGTCAACCAGAGCGATATCAGTGATGCACAAAt                                             >  2:769497/1‑125 (MQ=255)
                                                                                                                 cGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGATTTACGCGTCAACCAGAGCGATATCAGTGATGCACAAAt                                             <  1:769497/125‑1 (MQ=255)
                                                                                                                  gCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGATTTACGCGTCAACCag                                                                    >  2:535119/1‑101 (MQ=255)
                                                                                                                  gCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGATTTACGCGTCAACCag                                                                    <  1:535119/101‑1 (MQ=255)
                                                                                                                               ttgcgttgGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGATTTACGCGTCAACCag                                                                    <  4:136447/88‑1 (MQ=255)
                                                                                                                               ttgcgttgGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGATTTACGCGTCAACCag                                                                    >  3:136447/1‑88 (MQ=255)
                                                                                                                                     tgGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGATTTACGCGTCAACCAGAGCGATATCAGTGATGCACAAATAAAAAAGATCATTGCGGTGATCGACCGCGCCGCTTTTGATAtt  <  4:294768/148‑1 (MQ=255)
                                                                                                                                                |                                                                                                                                        
AGTCGCTGATTACCATCCGCGAAGAGGAAGGAGGTAAGAAGCAGATTGCGCTGACCGAACAAGGCGCGCAGTGGCTGGAAGAAAACCGCGAACAGGTGGAGATGATTGAAGAACGCATCAAAGCGCGTTGCGTTGGCGCGGCGCTGCGCCAGAACCCGCAAATGAAGCGGGCGCTGGATAATTTTAAAGCGGTGCTGGATTTACGCGTCAACCAGAGCGATATCAGTGATGCACAAATAAAAAAGATCATTGCGGTGATCGACCGCGCCGCTTTTGATATT  >  NC_000913/3217107‑3217387

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑