Predicted mutation
evidence seq id position mutation freq annotation gene description
RA NC_002947 4,164,734 A→T 11.3% intergenic (+40/+77) PP_3665 → / ← PP_3666 AraC family transcriptional regulator/MHS family metabolite MFS transporter

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0029474,164,7340AT11.3% 146.8 / 11.1 53intergenic (+40/+77)PP_3665/PP_3666AraC family transcriptional regulator/MHS family metabolite MFS transporter
Reads supporting (aligned to +/- strand):  ref base A (25/22);  new base T (2/4);  total (27/26)
Fisher's exact test for biased strand distribution p-value = 4.20e-01
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 3.38e-01

GGTAGCGCTGGCCTGTGGCTTCAGTTCGCCTGCGCATTTTTCCAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACATCAGCATGGCCACCAGCGCCACCAGTG  >  NC_002947/4164586‑4164875
                                                                                                                                                    |                                                                                                                                             
ggTAGCGCTGGCCTGTGGCTTCAGTTCGCCTGCGCATTTTTCCAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCaa                                                                                                                                              <  1:155406/150‑1 (MQ=255)
 gTAGCGCTGGCCTGTGGCTTCAGTTCGCCTGCGCATTTTTCCAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTGCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAg                                                                                                                                             >  2:808362/1‑150 (MQ=255)
 gTAGCGCTGGCCTGTGGCTTCAGTTCGCCTGCGCATTTTTCCAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAg                                                                                                                                             >  2:1187669/1‑150 (MQ=255)
   aGCGCTGGCCTGTGGCTTCAGTTCGCCTGCGCATTTTTCCAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGcc                                                                                                                                           <  1:808362/150‑1 (MQ=255)
        tGGCCTGTGGCTTCAGTTCGCCTGCGCCTTTTTCTCCTTCTGAGTGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCgcgc                                                                                                                                      <  2:1002141/150‑1 (MQ=255)
           ccTGTGGCTTCAGTTCGCCTGCGCATTTTTCCAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCTTGCCcgcgaaga                                                                                                                                   <  2:881397/150‑5 (MQ=255)
           ccTGTGGCTTCAGTTCGCCTGCGCATTTTTCCAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCTTGCCcgcgaaga                                                                                                                                   <  1:475689/150‑5 (MQ=255)
            cTGTGGCTTCAGTTCGCCTGCGCATTTTTCCAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTac                                                                                                                                  >  2:414094/1‑150 (MQ=255)
            cTGTGGCTTCAGTTCGCCGGCGTATTTTTCCAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCATGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCTTGCCcgcgaagag                                                                                                                                  <  1:524691/150‑6 (MQ=255)
               tgGCTTCAGTTCGCCTGCGCATTTTTCCAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCCCGCCTACACg                                                                                                                               >  2:1186715/1‑150 (MQ=255)
                        ttCGCCTGCGCATTTTTCCAAGAGTTATAGCCGGTTCGTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGGATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCggt                                                                                                                      >  1:978899/1‑150 (MQ=255)
                         tCGCCTGCGACTTTTTCCAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCCGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCggtg                                                                                                                     <  1:548907/150‑1 (MQ=255)
                           gCCTGCGCATTTTTCCAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTacac                                                                                                                                <  2:1136607/137‑1 (MQ=255)
                           gCCTGCGCATTTTTCCAAGAGTTATAGCCGGTTATTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTacac                                                                                                                                >  1:1136607/1‑137 (MQ=255)
                                              agTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAg                                                                                                <  2:1069759/150‑1 (MQ=255)
                                                   taGCCGTTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTTCACTGAGGTGGGTCAGGTATTGGCATTGCTGGGCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGGCCGCCAGACGCCGTTGTAGGcacg                                                                                           >  2:553355/1‑150 (MQ=255)
                                                   taGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGcgcg                                                                                           <  1:965600/150‑1 (MQ=255)
                                                   taGCCGGTTCTTCGGGCTGTCGCCTTTAAGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGGCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGCTCCGCCACAGCCCGTTTTAGGcgcg                                                                                           >  2:149136/1‑150 (MQ=255)
                                                       cGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCTCCGACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTgag                                                                                       >  1:675678/1‑150 (MQ=255)
                                                       cGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTgag                                                                                       <  2:760581/150‑1 (MQ=255)
                                                          ttcttcGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGagaag                                                                                    <  2:650200/150‑1 (MQ=255)
                                                                                  gAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCt                                                            <  1:1186715/150‑1 (MQ=255)
                                                                                        cggcAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAgg                                                      <  1:1187669/150‑1 (MQ=255)
                                                                                         ggcAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAggg                                                     >  2:139218/1‑150 (MQ=255)
                                                                                            aGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGc                                                                                <  2:195124/120‑1 (MQ=255)
                                                                                            aGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGc                                                                                >  1:195124/1‑120 (MQ=255)
                                                                                             ggCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCa                                                                         >  2:346330/1‑126 (MQ=255)
                                                                                             ggCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCa                                                                         <  1:346330/126‑1 (MQ=255)
                                                                                              gCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGgc                                                                                              <  2:278991/104‑1 (MQ=255)
                                                                                              gCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGgc                                                                                              >  1:278991/1‑104 (MQ=255)
                                                                                               ccTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGt                                               >  2:717894/1‑150 (MQ=255)
                                                                                               ccTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGt                                               >  2:332375/1‑150 (MQ=255)
                                                                                                ctctctCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGc                                                                                <  2:45631/116‑1 (MQ=255)
                                                                                                ctctctCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGc                                                                                >  1:45631/1‑116 (MQ=255)
                                                                                                  ctctcCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGgcgc                                                                                            >  1:445735/1‑102 (MQ=255)
                                                                                                  ctctcCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGgcgc                                                                                            <  2:445735/102‑1 (MQ=255)
                                                                                                   tctcCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTgcgc                                           >  1:1090407/1‑150 (MQ=255)
                                                                                                       cACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGtc                                       >  2:543606/1‑150 (MQ=255)
                                                                                                       cACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGtc                                       <  2:1090407/150‑1 (MQ=255)
                                                                                                                   tCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACATc                           <  1:414094/150‑1 (MQ=255)
                                                                                                                             gCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACATCAGCATGGcca                 >  1:410262/1‑150 (MQ=255)
                                                                                                                             gCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACATCAGCATGGcca                 >  1:1161025/1‑150 (MQ=255)
                                                                                                                                 tGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCcgc                                                 >  2:302642/1‑114 (MQ=255)
                                                                                                                                 tGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCcgc                                                 <  1:302642/114‑1 (MQ=255)
                                                                                                                                    tGGCCTCTTCGCGGGCAAGCCAGCGCCTACACGTACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACATCAGCATGGCCACCAgcgc          <  2:153531/150‑1 (MQ=255)
                                                                                                                                      gCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAg                                                                             <  1:598155/81‑1 (MQ=255)
                                                                                                                                      gCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAg                                                                             >  2:598155/1‑81 (MQ=255)
                                                                                                                                       ccTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACATCAGCATGGCCACCAGCGccac       >  1:463444/1‑150 (MQ=255)
                                                                                                                                         tctTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCACCTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACATCAGCATGGCCACCAGCGccacca     <  2:978899/150‑1 (MQ=255)
                                                                                                                                         taggcgcgGGCTTGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCaa                                                        >  1:673816/5‑99 (MQ=255)
                                                                                                                                         taggcgcgGGCTTGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCaa                                                        <  2:673816/95‑1 (MQ=255)
                                                                                                                                           ttCGCGGGCAAGCCCGCGCCTACGCGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAAGTCAACTAATCTTCAAGTGCCGCCTGCGCCGTCGCCCGACACATCAGCATGGCCACCAGCGCCACCAGt   <  1:626630/150‑1 (MQ=255)
                                                                                                                                           ttCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACATCAGCATGGCCACCAGCGCCACCAGt   >  2:891717/1‑150 (MQ=255)
                                                                                                                                            acgcgGGCTTGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGGCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAAGGCCGCGTGCGCCGTCTCCCGACACATCAGCATGGCCACCAGCGCCACCAGtg  >  2:47865/2‑150 (MQ=255)
                                                                                                                                                    |                                                                                                                                             
GGTAGCGCTGGCCTGTGGCTTCAGTTCGCCTGCGCATTTTTCCAAGAGTTATAGCCGGTTCTTCGGGCTGTCGCCTTTAGGGGAGCGGCGGCAGGCCTCTCTCCACTGAGTTGGGTCAGGTATTGGCATTGCTGGCCTCTTCGCGGGCAAGCCCGCGCCTACACGCACATCGGTGGTCCGCCACAGGCCGTTGTAGGCGCGTGAGAAGAAGCCAGTGCAGGTCAACTAATCTTCAAGGGCCGCGTGCGCCGTCTCCCGACACATCAGCATGGCCACCAGCGCCACCAGTG  >  NC_002947/4164586‑4164875

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: ‑