Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 2,680,483 A→T 15.0% L272Q (CTG→CAG)  PP_2350 ← LysR family transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029472,680,4830AT15.0% 94.1 / 11.6 40L272Q (CTG→CAG) PP_2350LysR family transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base A (19/15);  new base T (3/3);  total (22/18)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.14e-01

CTTGCCGGTGCTTGATGGCGACAAGCTGGTGGGGGTGATCACCCAGACCGACCTGATCGCCGGCCTCAAGCGTCAGTTGCTCAGCAAGATCGAGGCTTCAGATAACCGGGTCCCAGCGTTGTGACCAGTCGCTGGCGCCGGCAGCTACCAGCCGGCGCAGGATCGCGAAGGCCTGTTGCAGGGCTTCGCTGTCGCGTTTGCGTGGGTACACCAGGAAGGTCGGGTAGGTGAACTCCGGTGCCTGCGGTACCCGCTCGAACACGCCGCTGTCCAGATAGGCCTGCA  >  NC_002947/2680334‑2680618
                                                                                                                                                     |                                                                                                                                       
cTTGCCGGTGCTTGATGGCGACAAGCTGGTGGGGGTGATCACCCAGACCGACCTGATCGCCGGCCTCAAGCGTCAGTTGCTCAGCAAGATCGAGGCTTCAGATAACCGGGTCCCAGCGTTGTGACCAGTCGCTGGCGCCGGCAGCTACCa                                                                                                                                         >  1:66663/1‑150 (MQ=255)
          cTTGATGGCGACAAGCTGGTGGGGGTGATCACCCAGACCGACCTGATCGCCGGCCTCAAGCGTCAGTTGCTCAGCAAGATCGAGGCTTCAGATAACCGGGTCCCAGCGTTGTGACCAGTCGCTGGCGCCGGCTGGTAGCTGCCGgcgcca                                                                                                                               <  1:999217/150‑3 (MQ=255)
           ttGATGGCGACAAGCTGGTGGGGGTGATCACCCAGACCGACCTGATCGCCGGCCTCAAGCGTCAGTTGCTCAGCAAGATCGAGGCTTCAGATAACCGGGTCCCAGCGTTGTGACCAGTCGCTGTCGCCGGCAGCTACCAGCCGGCGCAgg                                                                                                                              >  1:447081/1‑150 (MQ=255)
                ggCGACAAGCTGGTGGGGGTGATCACCCAGACCGACCTGATCGCCGGCCTCAAGCGTCAGTTGCTCAGCAAGATCGAGGCTTCAGATAACCGGGTCCCAGCGTTGTGACCAGTCGCTGGCGCCGGCAGCTACCAGCCGGCGCAGGATcgc                                                                                                                         <  1:100715/150‑1 (MQ=255)
                  cGACAAGCTGGTGGGGGTGATCACCCAGACCGACCTGATCGCCGGCCTCAAGCGTCAGTTGCTCAGCAAGATCGAGGCTTCAGATAACCGGGTCCCAGCGTTGTGACCAGTCGCTGGCGCCGGCTGGTAGCTGCCGgcgcca                                                                                                                               <  2:179484/142‑3 (MQ=255)
                  cGACAAGCTGGTGGGGGTGATCACCCAGACCGACCTGATCGCCGGCCTCAAGCGTCAGTTGCTCAGCAAGATCGAGGCTTCAGATAACCGGGTCCCAGCGTTGTGACCAGTCGCTGGCGCCGGCTGGTAGCTGCCGgcgcca                                                                                                                               >  1:179484/1‑140 (MQ=255)
                   gACAAGCTGGTGGGGGTGATCACCCAGACCGACCTGATCGCCGGCCTCAAGCGTCAGTTGCTCAGCAAGATCGAGGCTTCAGATAACCGGGTCCCAGCGTTGTGACCAGTCGCTGGCGCCGGCAGCTACCAGCCgg                                                                                                                                    >  1:1007024/1‑136 (MQ=255)
                   gACAAGCTGGTGGGGGTGATCACCCAGACCGACCTGATCGCCGGCCTCAAGCGTCAGTTGCTCAGCAAGATCGAGGCTTCAGATAACCGGGTCCCAGCGTTGTGACCAGTCGCTGGCGCCGGCAGCTACCAGCCgg                                                                                                                                    <  2:1007024/136‑1 (MQ=255)
                   gACAAGCTGGTGGGGGTGATCACCCAGACCGACCTGATCGCCGGCCTCAAGCGTCAGTTGCTCAGCAAGATCGAGGCTTCAGATAACCGGGTCCCAGCGTTGTGACCAGTCGCTGGCGCCGGCAGCTACCAGCCgg                                                                                                                                    <  2:1007041/136‑1 (MQ=255)
                   gACAAGCTGGTGGGGGTGATCACCCAGACCGACCTGATCGCCGGCCTCAAGCGTCAGTTGCTCAGCAAGATCGAGGCTTCAGATAACCGGGTCCCAGCGTTGTGACCAGTCGCTGGCGCCGGCAGCTACCAGCCgg                                                                                                                                    >  1:1007041/1‑136 (MQ=255)
                   gACAAGCTGGTGGGGGTGATCACCCAGACCGACCTGATCGCCGGCCTCAAGCGTCAGTTGCTCAGCAAGATCGAGGCTTCAGATAACCGGGTCCCAGCGTTGTGACCAGTCGCTGGCGCCGGCAGCTACCAGCCGGCGCAGGATCGCGaa                                                                                                                      <  2:1110639/150‑1 (MQ=255)
                     cAAGCTGGTGGGGGTGATCACCCAGACCGACCTGATCGCCGGCCTCAAGCGTCAGTTGCTCAGCAAGGTCGAGGCTTCAGATAACCGGGTCCCAGCGTTGTGACCAGTCGCTGGCGCCGGCAGCTACCAGCCGGCGCCGGATCGCGCAgg                                                                                                                    >  1:973148/1‑150 (MQ=255)
                                gggTGATCACCCAGACCGACCTGATCGCCGGCCTCAAGCGTCAGTTGCTCAGCAAGATCGAGGCTTCAGATAACCGGGTCCAAGCGTTGTGACCAGTCGCTGGCGCCGGCAGCTACCAGCCGGCGCAGGATCGCGAAGGCCTGTTGCAgg                                                                                                         <  2:638053/150‑1 (MQ=255)
                                          ccAGACCGACCTGATCGCCGGCCTCAAGCGTCAGTTGCTCAGCAAGATCGAGGCTTCAGATAACCGGGTCCCAGCGTTGTGACCAGTCGCTGGCGCCGGCAGCTACCAGCCGGCGCAGGATCGCGAAGGCCTGTTGCAGGGCTTCGCTGt                                                                                               >  1:826627/1‑150 (MQ=255)
                                             gaccgaccTGATCGCCGGCCTCAAGCGTCAGTTGCTCAGCAAGATCGAGGCTTCAGATAACCGGGTCCCAGCGTTGTGACCAGTCGCTGGCGCCGGCAGCTACCAGCCGGCGCAGGATCGCGAAGGCCTGTTGCAGGGCTTCGCTGTcgc                                                                                            <  1:777986/150‑1 (MQ=255)
                                                     tGATCGCCGGCCTCAAGCGTCAGTTGCTCAGCAAGATCGAGGCTTCAGATAACCGGGTCCCAGCGTTGTGACCAGTCGCTGGCGCCGGCAGCTACCAGCCGGCGCAGGATCGCGAAGGCCTGTTGCAGGGCTTCGCTGTCGCGTTTGCGt                                                                                    <  1:772236/150‑1 (MQ=255)
                                                       aTCGCCGGCCTCAAGCGTCAGTTGCTCAGCAAGATCGAGGCTTCAGATAACCGGGTCCCAGCGTTGTGACCAGTCGCTGGCGCCGGCAGCTACCAGCCGGCGCAGGATCGCGAAGGCCTGTTGCAGGGCTTCGCTGTCGCGTTTGCGTgg                                                                                  <  1:1034071/150‑1 (MQ=255)
                                                        tCGCCGGCCTCAAGCGTCAGTTGCTCAGCAAGATCGAGGCTTCAGATAACCGGGTCCCAGCGTTGTGACCAGTCGCTGGCGCCGGCAGCTACCAGCCGGCGCAGGATCGCGAAGGCCTGtt                                                                                                              <  2:975119/121‑1 (MQ=255)
                                                        tCGCCGGCCTCAAGCGTCAGTTGCTCAGCAAGATCGAGGCTTCAGATAACCGGGTCCCAGCGTTGTGACCAGTCGCTGGCGCCGGCAGCTACCAGCCGGCGCAGGATCGCGAAGGCCTGtt                                                                                                              >  1:975119/1‑121 (MQ=255)
                                                                 tCAAGCGTCAGTTGCTCAGCAAGATCGAGGCTTCAGATAACCGGGTCCCAGCGTTGTGACCAGTCGCTGGCGCAGGCAGCTACCAGCCGGCGCAGGATCGCGAAGGCCTGTTGCAGGGCTGCGCTGTCGCGTTTGCGTGGGTACACCAgg                                                                        >  2:221865/1‑150 (MQ=255)
                                                                       gTCAGTTGCTCAGCAAGATCGAGGCTTCAGATAACCGGGTCCCAGCGTTGTGACCAGTCGCTGGCGCCGGCAGCTACCAGCCGGCGCAGGATCGCGAAGGCCTGTTGCAGGGCTTCGCTGTCGCGTTTGCGTGGGTACACCAGGAAGGTc                                                                  <  1:991733/150‑1 (MQ=255)
                                                                             tGCTCAGCAAGATCGAGGCTTCAGATAACCGGGTCCCAGCGTTGTGACCAGTCGCTGGCGCCGGCAGCTACCAGCCGGCGCAGGATCGCGAAGGCCTGTTGCAGGGCTTCGCTGTCGCGTTTGCGTGGGTACACCAGGAAGGTCGGGTAg                                                            >  1:1087584/1‑150 (MQ=255)
                                                                                  aGCAAGATCGAGGCTTCAGATAACCGGGTCCCAGCGTTGTGACCAGTCGCTGGCGCCGGCAGCTACCAGCCGGCGCAGGATCGCGAAGGCCTGTTGCAGGGCTTCGCTGTCGCGTTTGCGTGGGTACACCAGGAAGGTCGGGTAGGTGaa                                                       >  2:181091/1‑150 (MQ=255)
                                                                                    cAAGATCGAGGCTTCAGATAACCGGGTCCCAGCGTTGTGACCAGTCGCTGGCGCCGGCAGCTACCAGCCGGCGCAGGATCGCGAAGGCCTGTTGCAGGGCTTCGCTGTCGCGTTTGCGTGGGTACACCAGGAAGGTCGGGTAGGTGAACt                                                     >  1:638764/1‑150 (MQ=255)
                                                                                     aaGATCGAGGCTTCAGATAACCGGGTCCCAGCGTTGTGACCAGTCGCTGGCGCCGGCAGCTACCAGCCGGCGCAGGATCGCGAAGGCCTGTTGCAGGGCTTCGCTGTCGCGTTTGCGTGGGTACACCAGGAAGGTCGGGTAGGTGAACTc                                                    <  1:296627/150‑1 (MQ=255)
                                                                                        aTCGAGGCTTCAGATAACCGGGTCCCAGCGTTGTGACCAGTCGCTGGCGCCGGCAGCTACCAGCCGGCGCAGGATCGCGAAGGCCTGTTGCAGGGCTTCGCTGTCGCGTTTGCGTGGGTACACCAGGAAGGTCGGGTAGGTGAACTCCgg                                                 >  2:192655/1‑150 (MQ=255)
                                                                                        aTCGAGGCTTCAGATAACCGGGTCCCAGCGTTGTGACCAGTCGCTGGCGCCGGCAGCTACCAGCCGGCGCAGGATCGCGAAGGCCTGTTGCAGGGCTTCGCTGTCGCGTTTGCGTGGGTACACCAGGAAGGTCGGGTAGGTGAACTCCgg                                                 >  1:668131/1‑150 (MQ=255)
                                                                                                ttCAGATAACCGGGTCCCAGCGTTGTGACCAGTCGCTGGCGCCGGCAGCTACCAGCCGGCGCAGGATCGCGAAGGCCTGTTGCAGGGCTTCGCTGTCGCGTTTGCGTGGGTACACCAGGAAGGTCGGGTAGGTGAACTCCGGTGCCTGCg                                         >  2:1097797/1‑150 (MQ=255)
                                                                                                ttCAGATAACCGGGTCCCAGCGTTGTGACCAGTCGCTGGCGCCGGCAGCTACCAGCCGGCGCAGGATCGCGAAGGCCTGTTGCAGGGCTTCGCTGTCGCGTTTGCGTGGGTACACCAGGAAGGTCGGGTAGGTGAACTCCGGTGCCTGCg                                         <  2:776525/150‑1 (MQ=255)
                                                                                                          ctggTCACAGCGCTGGGACCAGTCGCTGGCGCCGGCAGCTACCAGCCGGCGCAGGATCGCGAAGGCCTGTTGCAGGGCTTCGCTGTCGCGTTTGCGTGGGTACACCAGGAAGGTCGGGTAGGTGAACTCCGGTGCCTGCGGTACCCGCtg                               >  2:841104/3‑149 (MQ=255)
                                                                                                                ccAGCGTTGTGACCAGTCGCTGGCGCCGGCAGCTACCAGCCGGCGCAGGATCGCGAAGGCCTGTTGCAGGGCTTCGCTGTCGCGTTTGCGTGGGTACACCAGGAAGGTCGGGTAGGTGAACTCCGGTACCTGCGGTACCCTCTCGAacac                         >  2:255561/1‑150 (MQ=255)
                                                                                                                           aCCAGTCGCTGGCGCCGGCAGCTACCAGCCGGCGCAGGATCGCGAAGGCCTGTTGCAGGGCTTCGCTGTCGCGTTTGCGTGGGTACACCAGGAAGGTCGGGTAGGTGAACTCCGGTGCCTGCGGTACCCGCTCGAACACGCCGCTGTCCa              >  1:1004262/1‑150 (MQ=255)
                                                                                                                            ccAGTCGCTGGCGCCGGCAGCTACCAGCCGGCGCAGGATCGCGAAGGCCTGTTGCAGGGCTTCGCTGTCAAGTTCGCGTGGGTACAAAAGGAAAGTGGGGTAGCTAAAGGCCGGTGGCTGCGTGTCACGCTCGAACACGCCGCTGTCCAg             >  2:345811/1‑150 (MQ=255)
                                                                                                                               gTCGCTGGCGCCGGCAGCTACCAGCCGGCGCAGGATCGCGAAGGCCTGTTGCAGGGCTTCGCTGTCGCGTTTGCGTGGGTACACCAGGAAGGTCGGGTAGGTGAACTCCGGTGCCTGCGGTACCCGCTCGaa                            <  1:62439/132‑1 (MQ=255)
                                                                                                                               gTCGCTGGCGCCGGCAGCTACCAGCCGGCGCAGGATCGCGAAGGCCTGTTGCAGGGCTTCGCTGTCGCGTTTGCGTGGGTACACCAGGAAGGTCGGGTAGGTGAACTCCGGTGCCTGCGGTACCCGCTCGaa                            >  2:62439/1‑132 (MQ=255)
                                                                                                                                  gCTGGCGCCGGCAGCTACCAGCCGGCGCAGGATCGCGAAGGCCTGTTGCAGGGCTTCGCTGTCGCGTTTGCGTGGGTACACCAGGAAGGTCGGGTAGGTGAACTCCGGTGCCTGCGGTACCCGCTCGAACACGCCGCTGTCCAGATAGGc       <  2:826627/150‑1 (MQ=255)
                                                                                                                                    ctgcgcCGGCTGGTAGCTGCCGGCGCCGGATCGCGAAGGCCTGTTGCAGGGCTTCGCTGTCGCGTTTGCGTGGGTACACCAGGAAGGTCgg                                                                <  2:884461/89‑1 (MQ=37)
                                                                                                                                     tgcgcCGGCTGGTAGCTGCCGGCGCAGGATCGCGAAGGCCTGTTGCAGGGCTTCGCTGTCGCGTTTGCGTGGGTACACCAGGAAGGTCGGGTAGGTGAACTCCGGTGCCTGCGGTACCCGCTCGAACACGCCGCTGTCCAGATAGGCCTg    >  2:1028565/2‑150 (MQ=255)
                                                                                                                                       cgcCGGCTGGTAGCTGCCGGCGCAGGATCGCGAAGGCCTGTTGCAGGGCTTCGCTGTCGCGTTTGCGTGGGTACACCAGGAAGGTCGGGTAGGTGAACTCCGGTGCCTGCGGTACCCGCTCGAACACGCCGCTGTCCAGATAGGCCTGca  >  1:153577/1‑150 (MQ=255)
                                                                                                                                                cTACCAGCCGGCGCAGGATCGCGAAGGCCTGTTGCAg                                                                                                          <  2:1034657/37‑1 (MQ=255)
                                                                                                                                                cTACCAGCCGGCGCAGGATCGCGAAGGCCTGTTGCAg                                                                                                          >  1:1034657/1‑37 (MQ=255)
                                                                                                                                                     |                                                                                                                                       
CTTGCCGGTGCTTGATGGCGACAAGCTGGTGGGGGTGATCACCCAGACCGACCTGATCGCCGGCCTCAAGCGTCAGTTGCTCAGCAAGATCGAGGCTTCAGATAACCGGGTCCCAGCGTTGTGACCAGTCGCTGGCGCCGGCAGCTACCAGCCGGCGCAGGATCGCGAAGGCCTGTTGCAGGGCTTCGCTGTCGCGTTTGCGTGGGTACACCAGGAAGGTCGGGTAGGTGAACTCCGGTGCCTGCGGTACCCGCTCGAACACGCCGCTGTCCAGATAGGCCTGCA  >  NC_002947/2680334‑2680618

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: ‑