Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 2,250,031 A→T 9.5% L184Q (CTG→CAG)  PP_1984 ← LysR family transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029472,250,0310AT 9.5% 122.9 / 5.4 42L184Q (CTG→CAG) PP_1984LysR family transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base A (20/18);  new base T (2/2);  total (22/20)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.66e-01

CACCATCATCTTGATGGTTTCCAGGTAGTTGGTGCTCATGGCGATGTTCGGCGTCAAGCCCTGGCTTTCGAACAGGCGCTGGACAATATGGTGGGTAAAGGTGTTGCCGCCGGGAAATACCGCCGGGTGGCGGGCGATGTCAGCCAGGCTGACCGACTGGTTGTTGGCCAGCGGGTGCTCGGGGGCGGCGACGAAGTCCAGGGCGTCGTCCCACACCGGCACGGCCTTGACCAAATGGTGCGGCTCGGGCGCCAGGGTGATAACGGCGATTTCGGCGCGGCCATGCAGAATCTCG  >  NC_002947/2249886‑2250180
                                                                                                                                                 |                                                                                                                                                     
cacCATCATCTTGATGGTTTCCAGGTAGTTGGTGCTCATGGCGATGTTCGGCGTCAAGCCCTGGCTTTCGAACAGGCGCTGGACAATATGGTGGGTAAAGGTGTTGCCGCCGGGAAATACCGCCGGGTGGCGGGCGATGTCAGCCAGGCt                                                                                                                                                   >  2:321660/1‑150 (MQ=255)
cacCATCATCTTGATGGTTTCCAGGTAGTTGGTGCTCATGGCGATGTTCGGCGTCAAGCCCTGGCTTTCGAACAGGCGCTGGACAATATGGTGGGTAAAGGTGTTGCCGCCGGGAAATACCGCCGGGTGGCGGGCGATGTCAGCCAGGCt                                                                                                                                                   >  1:25807/1‑150 (MQ=255)
   catcatCTTGATGGTTTCCAGGTAGTTGGTGCTCATGGCGATGTTCGGCGTCAAGCCCTGGCTTTCGAACAGGCGCTGGACAATATGGTGGGTAAAGGTGTTGCCGCCGGGAAATACCGCCGGGTGGCGGGCGATGTCAGCCAGGCTGAc                                                                                                                                                >  2:352387/1‑150 (MQ=255)
      catcTTGATGGTTTCCAGGTAGTTGGTGCTCATGGCGATGTTCGGCGTCAAGCCCTGGCTTTCGAACAGGCGCTGGACAATATGGTGGGTAAAGGTGTTGCCGCCGGGAAATACCGCCGGGTGGCGGGCGATGTCAGCCTGGCTGAcatc                                                                                                                                             <  1:746937/150‑4 (MQ=255)
                gTTTCCAGGTAGTTGGTGCTCATGGCGATGTTCGGCGTCAAGCCCTGGCTTTCGAACAGGCGCTGGACAATATGGTGGGTAAAGGTGTTGCCGCCGGGAAATACCGCCGGGTGGCGGGCGATGTCAGCCAGGCTGACCGACTGGttgttg                                                                                                                                   >  2:498921/1‑150 (MQ=255)
                gTTTCCAGGTAGTTGGTGCTCATGGCGATGTTCGGCGTCAAGCCCTGGCTTTCGAACAGGCGCTGGACAATATGGTGGGCAAAGGTGTTGCCGCCGGGAAATACCGCCGGGTGGCGGGCGATGTCAGCCAGGCTGACCGACTGGttgttg                                                                                                                                   <  1:730740/150‑1 (MQ=255)
                 tttCCAGGTAGTTGGTGCTCATGGCGATGTTCGGCGTCAAGCCCTGGCTTTCGAACAGGCGCTGGACAATATGGTGGGTAAAGGTGTTGCCGCCGGGAAATACCGCCGGGTGGCGGGCGTTGTCAGCCAGGCTGACCGACTGGTTGTTgg                                                                                                                                  <  1:1056822/150‑1 (MQ=255)
                      aGGTAGTTGGTGCTCATGGCGATGTTCGGCGTCAAGCCCTGGCTTTCGAACAGGCGCTGGACAATATGGTGGGTAAAGGTGTTGCCGCCGGGAAATACCGCCGGGTGGCGGGCGATGTCAGCCAGGCTGACCGACTGgttgt                                                                                                                                     <  1:858446/142‑1 (MQ=255)
                      aGGTAGTTGGTGCTCATGGCGATGTTCGGCGTCAAGCCCTGGCTTTCGAACAGGCGCTGGACAATATGGTGGGTAAAGGTGTTGCCGCCGGGAAATACCGCCGGGTGGCGGGCGATGTCAGCCAGGCTGACCGACTGgttgt                                                                                                                                     >  2:858446/1‑142 (MQ=255)
                        gTAGTTGGTGCTCATGGCGATGTTCGGCGTCAAGCCCTGGCTTTCGAACAGGCGCTGGACAATATGGTGGGTAAAGGTGTTGCCGCCGGGAAATACCGCCGGGTGGCGGGCGATGTCAGCCAGGCTGACCGACTGgtt                                                                                                                                       >  1:1189802/1‑138 (MQ=255)
                        gTAGTTGGTGCTCATGGCGATGTTCGGCGTCAAGCCCTGGCTTTCGAACAGGCGCTGGACAATATGGTGGGTAAAGGTGTTGCCGCCGGGAAATACCGCCGGGTGGCGGGCGATGTCAGCCAGGCTGACCGACTGgtt                                                                                                                                       <  2:1189802/138‑1 (MQ=255)
                        gTAGTTGGTGCTCATGGCGATGTTCGGCGTCAAGCCCTGGCTTTCGAACAGGCGCTGGACAATATGGTGGGTAAAGGTGTTGCCGCCGGGAAATACCGCCGGGTGGCGGGCGATGTCAGCCAGGCTGACCGACTGGTTGTTGGCCAGCgg                                                                                                                           >  1:1084940/1‑150 (MQ=255)
                            ttGGTGCTCATGGCGATGTTCGGCGTCAAGCCCTGGCTTTCGAACAGGCGCTGGACAATATGGTGGGTAAAGGTGTTGCCGCCGGGAAATACCGCCGGGTGGCGGGCGATGTCAGCCAGGCTGACCGACTGGTTGTTGGCCAGCGGGTGc                                                                                                                       >  2:1214149/1‑150 (MQ=255)
                                  cTCATGGCGATGTTCGGCGTCAAGCCCTGGCTTTCGAACAGGCGCTGGACAATATGGTGGGTAAAGGTGTTGCCGCCGGGAAATACCGCCGGGTGGCGGGCGATGTCAGCCAGGCTGACCGACTGGTTGTTGGCCAGCGGGTGCTCgggg                                                                                                                 <  1:352387/150‑1 (MQ=255)
                                       ggCGATGTTCGGCGTCAAGCCCTGGCTTTCGAACAGGCGCTGGACAATATGGTGGGTAAAGGTGTTGCCGCCGGGAAATACCGCCGGGTGGCGGGCGATGTCAGCCAGGCTGACCGACTGGTTGTTGGCCAGCGGGTGCTCGGGggcggc                                                                                                            <  2:1019623/150‑1 (MQ=255)
                                                  gCGTCAAGCCCTGGCTTTCGAACAGGCGCTGGACAATATGGTGGGTAAAGGTGTTGCCGCCGGGAAATACCGCCGGGTGGCGGGCGATGTCAGCCAGGCTGACCGACTGGTTGTTGGCCAGCGGGTGCTCGGGGGCGGCGACGAAGTCCa                                                                                                 >  2:1091194/1‑150 (MQ=255)
                                                    gTCAAGCCCTGGCTTTCGAACAGGCGCTGGACAATATGGTGGGTAAAGGTGTTGCCGCCGGGAAATACCGCCGGGTGGCGGGCGATGTCAGCCAGGCTGACCGACTGGTTGTTGGCCAGCGGGTGCTCGGGGGCGGCGACGAAGTCCAgg                                                                                               <  2:1048313/150‑1 (MQ=255)
                                                         gCCCTGGCTTTCGAACAGGCGCTGGACAATATGGTGGGTAAAGGTGTTGCCGCCGGGAAATACCGCCGGGTGGCGGGCGATGTCAGCCAGGCTGACCGACt                                                                                                                                           <  2:636830/101‑1 (MQ=255)
                                                         gCCCTGGCTTTCGAACAGGCGCTGGACAATATGGTGGGTAAAGGTGTTGCCGCCGGGAAATACCGCCGGGTGGCGGGCGATGTCAGCCAGGCTGACCGACt                                                                                                                                           >  1:636830/1‑101 (MQ=255)
                                                               gCTTTCGAACAGGCGCTGGACAATATGGTGGGTAAAGGTGTTGCCGCCGGGAAATACCGCCGGGTGGCGGGCGATGTCAGCCAGGCTGACCGACTGGTTGTTGGCCAGCGGGTGCTCGGGGGCGGCGACGAAGTCCAGGGCGTCGTCCca                                                                                    <  1:321660/150‑1 (MQ=255)
                                                                 tttCGAACAGGCGCTGGACAATATGGTGGGTAAAGGTGTTGCCGCCGGGAAATACCGCCGGGTGGCGGGCGATGTCAGCCAGGCTGACCGACTGGTTGTTGGCCAGCGGGTGCTCGGGGGCGGCGACGAAGTCCAGGGCGTCGTCCcaca                                                                                  <  1:568395/150‑1 (MQ=255)
                                                                      aaCAGGCGCTGGACAATATGGTGGGTAAAGGTGTTGCCGCCGGGAAATACCGCCGGGTGGCGGGCGATGTCAGCCAGGCTGACCGACTGGTTGTTGGCCAGCGGGTGCTCGGGGGCGGCGACGAAGTCCAGGGCGTCGTCCCACACCGGc                                                                             >  2:992136/1‑150 (MQ=255)
                                                                                 gACAATATGGTGGGTAAAGGTGTTGCCGCCGGGAAATACCGCCGGGTGGCGGGCGATGTCAGCCAGGCTGACCGACTGGTTGTTGGCCAGCGGGTGCTCGGGGGCGGCGACGAAGTCCAGGGCGTCGTCCCACACCGGCACGGCCTTGAc                                                                  <  1:854188/150‑1 (MQ=255)
                                                                                     atatGGTGGGTAAAGGTGTTGCCGCCGGGAAATACCGCCGGGTGGCGGGCGATGTCAGCCAGGCTGACCGACTGGTTGTTGGCCAGCGGGTGCTCGGGGGCGGCGACGAAGTCCAGGGCGTCGTCCCACACCGGCACGGCCTTGACCaaa                                                              <  2:612529/150‑1 (MQ=255)
                                                                                       atGGTGGGTAAAGGTGTTGCCGCCGGGAAATACCGCCGGGTGGCGGGCGATGTCAGCCAGGCTGACCGACTGGTTGTTGGCCAGCGGGTGCTCGGGGGCGGCGACGAAGTCCAGGGCGTCGTCCCACACCGGCACGGCCTTGACCAAATg                                                            <  2:1084940/150‑1 (MQ=255)
                                                                                           tggGTAAAGGTGTTGCCGCCGGGAAATACCGCCGGGTGGCGGGCGATGTCAGCCAGGCTGACCGACTGGTTGTTGGCCAGCGGGTGCTCGGGGGCGGCGACGAAGTCCAGGGCGTCGTCCCACACCGGCACGGCCTTGACCAAATGGTGc                                                        >  1:30209/1‑150 (MQ=255)
                                                                                                aaaGGTGTTGCCGCCGGGAAATACCGCCGGGTGGCGGGCGATGTCAGCCAGGCTGACCGACTGGTTGTTGGCCAGCGGGTGCTCGGGGGCGGCGACGAAGTCCAGGGCGTCGTCCCACACCGGCACGGCCTTGACCAAATGGTGCGGCTc                                                   >  2:777489/1‑150 (MQ=255)
                                                                                                       ttGCCGCCGGGAAATACCGCCGGGTGGCGGGCGATGTCAGCCAGGCTGACCGACTGGTTGTTGGCCAGCGGGTGCTCGGGGGCGGCGACGAAGTCCAGGGCGTCGTCCCACACCGGCACGGcc                                                                       <  2:1108206/123‑1 (MQ=255)
                                                                                                       ttGCCGCCGGGAAATACCGCCGGGTGGCGGGCGATGTCAGCCAGGCTGACCGACTGGTTGTTGGCCAGCGGGTGCTCGGGGGCGGCGACGAAGTCCAGGGCGTCGTCCCACACCGGCACGGcc                                                                       >  1:1108206/1‑123 (MQ=255)
                                                                                                              cgGGAAATACCGCCGGGTGGCGGGCGATGTCAGCCAGGCTGACCGACTGGTTGTTGGCCAGCGGGTGCTCGGGGGCGGCGACGAAGTCCAGGGCGTCGTCCCACACCGGCACGGCCTTGACCAAATGGTGc                                                        <  1:1166324/131‑1 (MQ=255)
                                                                                                              cgGGAAATACCGCCGGGTGGCGGGCGATGTCAGCCAGGCTGACCGACTGGTTGTTGGCCAGCGGGTGCTCGGGGGCGGCGACGAAGTCCAGGGCGTCGTCCCACACCGGCACGGCCTTGACCAAACGGTGc                                                        >  2:1166324/1‑131 (MQ=255)
                                                                                                                 gAAATACCGCCGGGTGGCGGGCGATGTCAGCCAGGCTGACCGACTGGTTGTTGGCCAGCGGGTGCTCGGGGGCGGCGACGAAGTCCAGGGCGTCGTCCCACACCGGCACGGCCTTGACCAAATGGTGTGGCTCGGGCGCCAGGGTGATaa                                  >  1:490520/1‑150 (MQ=255)
                                                                                                                                 gcgggcgATGTCAGCCAGGCTGACCGACTGGTTGTTGGCCAGCGGGTGCTCGGGGGCGGCGACGAAGTCCAGGGCGTCGTCCCACACCGGCACGGCCTTGACCAAATGGTGCGGCTCGGGCGCCAGGGTGATAACGGCGATTTCGGcgcg                  >  2:388047/1‑150 (MQ=255)
                                                                                                                                      gtcggTCAGCCTGGCTGACCGACTGGTTGTTGGCCAGCGGGTGCTCGGGGGCGGCGACGAAGTCCAGGGCGTCGTCCCACACCGGCACGGCCTTGACCAAATGGTGCGGCTCGGGCGCCAGGGTGATa                                   >  1:827044/5‑128 (MQ=255)
                                                                                                                                      gtcggTCAGCCTGGCTGACCGACTGGTTGTTGGCCAGCGGGTGCTCGGGGGCGGCGACGAAGTCCAGGGCGTCGTCCCACACCGGCACGGCCTTGACCAAATGGTGCGGCTCGGGCGCCAGGGTGATa                                   <  2:827044/124‑1 (MQ=255)
                                                                                                                                      gtcggTCAGCCTGGCTGACCGACTGGTTGTTGGCCAGCGGGTGCTCGGGGGCGGCGACGAAGTCCAGGGCGTCGTCCCACACCGGCACGGCCTTGACCAAATGGTGCGGCTCGGGCGCCAGGGTGATAACGGCGATTTCGGCGCGGCCAt             >  1:61633/5‑150 (MQ=255)
                                                                                                                                       gATGTCAGCCAGGCTGACCGACTGGTTGTTGGCCAGCAGGTGCTCGGGGGCGGCGACGAAGTCCAGGGCGTCGTCCCACACCGGCACGGCCTTGACCAAAGGTTTCGGCTCGGGCGCCAGGGTGATAACGGCGATTTCGGCGCGGCCATg            >  1:1042149/1‑150 (MQ=255)
                                                                                                                                             aGCCAGGCTGACCGACTGGTTGTTGGCCAGCGGGTGCTCGGGGGCGGCGACGAAGTCCAGGGCGTCGTCCCACACCGGCACGGCCtt                                                                     <  1:316232/87‑1 (MQ=255)
                                                                                                                                             aGCCAGGCTGACCGACTGGTTGTTGGCCAGCGGGTGCTCGGGGGCGGCGACGAAGTCCAGGGCGTCGTCCCACACCGGCACGGCCtt                                                                     >  2:316232/1‑87 (MQ=255)
                                                                                                                                               ccAGGCTGACCGACTGGTTGTTGGCCAGCGGGTGCTCGGGGGCGGGGACGAAGTCCAGGGCGTCGTCCCACACCGGCACGGCCTTGACCAAATGGTGCGGCTCGGGCGCCAGGGTGATAACGGCGATTTCGGCGCGGCCATGCAGAAtct    <  1:1084583/150‑1 (MQ=255)
                                                                                                                                               ccAGGCTGACCGACTGGTTGTTGGCCAGCGGGTGCTCGGGGGCGGCGACGAAGTCCAGGGCGTCGTCCCACACCGGCACGGCCTTGACCAAATGGTGCGGCTCGGGCGCCAGGGTGATAACGGCGATTTCGGCGCGGCCATGCAGAAtct    >  2:127906/1‑150 (MQ=255)
                                                                                                                                                cAGGCTGACCGACTGGTTGTTGGCCAGCGGGTGCTCGGGGGCGGCGACGAAGTCCAGGGCGTCGTCCCACACCGGCACGGCCTTGACCAAATGGTGCGGCTCGGGCGCCAGGGTGATAACGGCGATTTCGGCGCGGCCATGCAGAAtctc   <  1:777489/150‑1 (MQ=255)
                                                                                                                                                 aGGCTGACCGACTGGTTGTTGGCCAGCGGGTGCTCGGGGGCGGCGACGAAGTCCAGGGCGTCGTCCCACACCGGCACGGCCTTGACCAAATGGTGCGGCTCGGGCGCCAGGGTGATAACGGCGATTTCGGCGCGGCCATACAAAATcgcg  >  2:161915/1‑150 (MQ=255)
                                                                                                                                                 |                                                                                                                                                     
CACCATCATCTTGATGGTTTCCAGGTAGTTGGTGCTCATGGCGATGTTCGGCGTCAAGCCCTGGCTTTCGAACAGGCGCTGGACAATATGGTGGGTAAAGGTGTTGCCGCCGGGAAATACCGCCGGGTGGCGGGCGATGTCAGCCAGGCTGACCGACTGGTTGTTGGCCAGCGGGTGCTCGGGGGCGGCGACGAAGTCCAGGGCGTCGTCCCACACCGGCACGGCCTTGACCAAATGGTGCGGCTCGGGCGCCAGGGTGATAACGGCGATTTCGGCGCGGCCATGCAGAATCTCG  >  NC_002947/2249886‑2250180

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑