Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*CP0024161,991,3380TA31.8% 85.4 / 11.0 44I40F (ATT→TTT) Clo1313_1697protein of unknown function DUF214
Reads supporting (aligned to +/- strand):  ref base T (25/5);  new base A (0/14);  total (25/19)
Fisher's exact test for biased strand distribution p-value = 1.01e-07
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.39e-01
Rejected as consensus: Frequency below/above cutoff threshold.

CAATTTTCCGAAGCCATACCACGGATTTTACCTCTTTATCTTTCTTTAAACTTTCAATCTGTTCTTTTTTCACGTCATATACTACGCCGTACCAGTCTCCCTCCCGTGCAACAACCATATCCACCAAAAAGTCCTGAAGACTTGAAATAAAG‑CATGTGA‑CCGCCGTAATCATTGATGCGGATAAAATAATTCCAACGATGGTGACGAGGGTTCTTGCCTTGTTCTTTTCAAGAATTTTTAGTGTTAATTTGTAAAAAACGTTCATTGCCGAATCACCTCGTCACGAAT  >  CP002416/1991191‑1991478
                                                                                                                                                   |                                                                                                                                              
cAATTTTCCGAAGCCATACCACGGATTTTACCTCTTTATCTTTCTTTAAACTTTCAATCTGTTCTTTTTTCACGTCATATACTACGCCGTACCAGTCTCCCTCCCGTGCAACAACCATATCCACCAAAAAGTCCTGAAGACTTGAAATaa                                                                                                                                              >  1:453677/1‑150 (MQ=255)
  aTTTTCCGAAGCCATACCACGGATTTTACCTCTTTATCTTTCTTTAAACTTTCAATCTGTTCTTTTTTCACGTCATATACTACGCCGTACCAGTCTCCCTCCCGTGCAACAACCATATCCACCAAAAAGTCCTGAAGACTTGAAATAAAg                                                                                                                                            <  1:776443/150‑1 (MQ=255)
                tACCACGGATTTTACCTCTTTATCTTTCTTTAAACTTTCAATCTGTTCTTTTTTCACGTCATATACTACGCCGTACCAGTCTCCCTCCCGTGCAACAACCATATCCACCAAAAAGTCCTGAAGACTTGAAATAAAG‑CATGTGA‑CCGCCGt                                                                                                                            >  1:908219/1‑150 (MQ=255)
                   cACGGATTTTACCTCTTTATCTTTCTTTAAACTTTCAATCTGTTCTTTTTTCACGTCATATACTACGCCGTACCAGTCTCCCTCCCGTGCAACAACCATATCCACCAAAAAGTCCTGAAGACTTGAAATAAAG‑CATGTGA‑CCGCCGTAAt                                                                                                                         >  1:1297473/1‑150 (MQ=255)
                                tctTTATCTTTCTTTAAACTTTCAATCTGTTCTTTTTTCACGTCATATACTACGCCGTACCAGTCTCCCTCCCGTGCAACAACCATATCCACCAAAAAGTCCTGAAGACTTGAAATAAAG‑CATGTGA‑CCGCCGTAATCATTGATGCGGAt                                                                                                            >  1:415428/1‑150 (MQ=255)
                                       ctttctttAAACTTTCAATCTGTTCTTTTTTCACGTCATATACTACGCCGTACCAGTCTCCCTCCCGTGCAACAACCATATCCACCAAAAAGTCCTGAAGACTTGAAATAAAG‑CATGTGA‑CCGCCGTAATCATTGATGCGGATAAaataa                                                                                                     >  1:767475/1‑150 (MQ=255)
                                        tttctttAAACTTTCAATCTGTTCTTTTTTCACGTCATATACTACGCCGTACCAGTCTCCCTCCCGTGCAACAACCATATCCACCAAAAAGTCCTGAAGACTTGAAATAAAG‑CATGTGA‑CCGCCGTAATCATTGATGAGGATAAaataat                                                                                                    >  1:1141035/1‑150 (MQ=255)
                                         ttctttAAACTTTCAATCTGTTCTTTTTTCACGTCATATACTACGCCGTACCAGTCTCCCTCCCGTGCAACAACCATATCCACCAAAAAGTCCTGAAGACTTGAAATAAAG‑CATGTGA‑CCGCCGTAATCATTGATGCGGATAAAATAAtt                                                                                                   >  1:1214303/1‑150 (MQ=255)
                                               aaaCTTTCAATCTGTTCTTTTTTCACGTCATATACTACGCCGTACCAGTCTCCCTCCCGTGCAACAACCATATCCACCAAAAAGTCCTGAAGACTTGAAATAAAG‑CATGTGA‑CCGCCGTAATCATTGATGCGGATAAAATAATTCCAACg                                                                                             >  1:797606/1‑150 (MQ=255)
                                                 aCTTTCAATCTGTTCTTTTTTCACGTCATATACTACGCCGTACCAGTCTCCCTCCCGTGCAACAACCATATCCACCAAAAAGTCCTGAAGACTTGAAATAAAG‑CATGTGA‑CCGCCGTAATCATTGATGCGGATAAAATAATTCCAACGAt                                                                                           >  1:853218/1‑150 (MQ=255)
                                                  cTTTCAATCTGTTCTTTTTTCACGTCATATACTACGCCGTACCAGTCTCCCTCCCGTGCAACAACCATATCCACCAAAAAGTCCTGAAGACTTGAAATAAAG‑CATGTGA‑CCGCCGTAATCATTGATGCGGATAAAATAATTCCAACGATg                                                                                          >  1:1337505/1‑150 (MQ=255)
                                                            gTTCTTTTTTCACGTCATATACTACGCCGTACCAGTCTCCCTCCCGTGCAACAACCATATCCACCAAAAAGTCCTGAAGACTTGAAATAAAG‑CATGTGA‑CCGCCGTAATCATTGATGCGGATAAAATAATTCCAACGATGGTGACGAggg                                                                                >  1:343765/1‑150 (MQ=255)
                                                               cTTTTTTCACGTCATATACTACGCCGTACCAGTCTCCCTCCCGTGCAACAACCATATCCACCAAAAAGTCCTGAAGACTTGAAATAAAG‑CATGTGA‑CCGCCGTAATCATTGATGCGGATAAAATAATTCCAACGATGGTGACGAGGGTTc                                                                             >  1:1277043/1‑150 (MQ=255)
                                                                  ttttCACGTCATATACTACGCCGTACCAGTCTCCCTCCCGTGCAACAACCATATCCACCAAAAAGTCCTGAAGACTTGAAATAAAG‑CATGTGA‑ACGACGTAATCATTGATGCGGATAAAATAATTCCAACGATGGTGACGAGGGTTCTTg                                                                          >  1:1282248/1‑150 (MQ=255)
                                                                      cACGTCATATACTACGCCGTACCAGTTTCCCTCCCGTGCAACAACCATATCCACCAAAAAGTCCTGAAGACTTGAAATAAAG‑CATGTGA‑CCGCCGTA‑TCATTGATGCGGATAAAATAATTCCAACGATGGTGACGAGGGTTCTTGCCTTg                                                                     >  1:283488/1‑150 (MQ=255)
                                                                                    cGCCGTACCAGTCTCCCTCCCGTGCAACAACCATATCCACCAAAAAGTCCTGAAGACTTGAAATAAAG‑CATGTGA‑CCGCCGTAATCATTGATGCGGATAAAATAATTCCAACGATGGTGACGAGGGTTCTTGCCTTGTTCTTTTCAAGaa                                                        >  1:984894/1‑150 (MQ=255)
                                                                                    cGCCGTACCAGTCTCCCTCCCGTGCAACAACCATATCCACCAAAAAGTCCTGAAGACTTGAAATAAAG‑CATGTGA‑CCGCCGTAATCATTGATGCGGATAAAATAATTCCAACGATGGTGACGAGGGTTCTTGCCTTGTTCTTTTCAAGaa                                                        >  1:947293/1‑150 (MQ=255)
                                                                                     gCCGTACCAGTCTCCCTCCCGTGCAACAACCATATCCACCAAAAAGTCCTGAAGACTTGAAATAAAG‑CATGTGA‑CCGCCGTAATCATTGATGCGGATAAAATAATTCCAACGATGGTGACGAGGGTTCTTGCCTTGTTCTTTTCAAGAAt                                                       >  1:848472/1‑150 (MQ=255)
                                                                                        gTACCAGTCTCCCTCCCGTGCAACAACCATATCCACCAAAAAGTCCTGAAGACTTGAAATAAAG‑CATGTGA‑CCGCCGTAATCATTGATGCGGATAAAATAATTCCAACGATGGTGACGAGGGTTCTTGCCTTGTTCTTTTCAAGAAtttt                                                    >  1:560660/1‑150 (MQ=255)
                                                                                            cAGTCTCCCTCCCGTGCAACAACCATATCCACCAAAAAGTCCTGAAGACTTGAAATAAAG‑CATGTGA‑CCGCCGTAATCATTGATGCGGATAAAATAATTCCAACGATGGTGACGAGGGTTCTTGCCTTGTTCTTTTCAAGAATTTTTAgt                                                >  1:1251449/1‑150 (MQ=255)
                                                                                             aGTCTCCCTCCCGTGCAACAACCATATCCACCAAAAAGTCCTGAAGACTTGAAATAAAG‑CATGTGA‑CCGCCGTAATCATTGATGCGGATAAAATAATTCCAACGATGGTGACGAGGGTTCTTGCCTTGTTCTTTTCAAGAATTTTTAgtg                                               >  1:447733/1‑150 (MQ=255)
                                                                                                  ccctcccGTGCAACAACCATATCCACCAAAAAGTCCTGAAGACTTGAAATAAAG‑CATGTGA‑CCGCCGTAATCATTGATGCGGATAAAATAATTCCAACGATGGTGACGAGGGTTCTTGCCTTGTTCTTTTCAAGAATTTTTAGTGTTAAt                                          >  1:325902/1‑150 (MQ=255)
                                                                                                  cccccccGTGCAACACCCATACCCACCAAAAAGCCATGAAGACTTGAAATAAAG‑CTTGTGA‑CCGCCGTAATCATTGATGCGGATAAAATAAtt                                                                                                   <  1:898827/89‑1 (MQ=255)
                                                                                                  cccccccGTGCAACAACCATCCCCACAAAAAAGTCCTGAAGACTTAAAAAAAAG‑CATGTGA‑CCGCCGTAATCATTGATGCGGATa                                                                                                           <  1:10849/81‑1 (MQ=255)
                                                                                                        cGTGCAACACCCATACCCACAAAAAAGTCCGGAAGACTGAAAATAAGG‑CATGTGA‑CCGCCGTAATCATTGATGCGGATAAAATAATTCCAACGATGGTGAc                                                                                     <  1:601928/101‑1 (MQ=255)
                                                                                                         ggccaacacCCATACCCACAAAAAAGTCCTGAAGACTGGAAAAAAAG‑CATGTGA‑CCGCCGTAATCATTGATGCGGATAAAATAATTCCAACGATg                                                                                          <  1:985475/92‑1 (MQ=255)
                                                                                                         ggacaccaacCATACCCACAAAAAAGTCCTGAAGATTAAAAAAAAAG‑CATGTGA‑CCGCCGTAATCATTGATGCGGATAAAATAATTCCa                                                                                                <  1:219318/83‑1 (MQ=255)
                                                                                                         gTGCAACACCCATATCCACAAAAAAGTCCTGAAGATTTAAAAAAAAG‑CATGTGA‑CCGCCGTAATCATTGATGCGGATAAAATAATTc                                                                                                  <  1:1293070/87‑1 (MQ=255)
                                                                                                         gTGCAACAACCATACCCACAAAAAAGTCCTGAAGACTTAAAATAAAG‑CATGTGA‑CCGCCGTAATCATTGATGCGGATAAAATAATTCCAACGATGGTGACGAGGGtt                                                                              <  1:652543/107‑1 (MQ=255)
                                                                                                           gCAACAACCATATCCACCAAAAAGTCCTGAAGACTTGAAATAAAG‑CATGTGA‑CCGCCGTAATCATTGATGCGGATAAAATAATTCCAACGATGGTGACGAGGGTTCTTGCCTTGTTCTTTTCAAGAATTTTTAGTGTTAATTTGTaaaaa                                 >  1:1242764/1‑150 (MQ=255)
                                                                                                            caacaaCCATATCCACCAAAAAGTCCTGAAGACTTGAAATAAAG‑CATGTGA‑CCGCCGTAATCATTGATGCGGATAAAATAATTCCAACGATGGTGACGAGGGTTCTTGCCTTGTTCTTTTCAAGAATTTTTAGTGTTAATTTGTaaaaaa                                >  1:6069/1‑150 (MQ=255)
                                                                                                               caacCATATCCACCAAAAAGTCCTGAAGACTTGAAATAAAG‑CATGTGA‑CCGCCGTAATCATTGATGCGGATAAAATAATTCCAACGATGGTGACGAGGGTTCTTGCCTTGTTCTTTTCAAGAATTTTTAGTGTTAATTTGTAAAAAACGt                             >  1:194464/1‑150 (MQ=255)
                                                                                                                        ccaccaAAAAGTCCTGAAGACTTGAAATAAAG‑CATGTGA‑CCGCCGTAATCATTGATGCGGATAAAATAATTCCAACGATGGTGACGAGGGTTCTTGCCTTGTTCTTTTCAAGAATTTTTAGTGTTAATTTGTAAAAAACGTTCATTGCCg                    >  1:840352/1‑150 (MQ=255)
                                                                                                                             aaaaatgccTGAAGACTAAAAAAAAGG‑CATGTGC‑CCGCCGTAATCATTGATGCGGATAAAATAATTCCAACGATGGTGACGAGGGTTCTTGCCTTGTTCTTTTCAAGAATTTTTAGTGTTAATTTGTAAAAAACGt                             <  1:184967/129‑1 (MQ=255)
                                                                                                                             aaaaaGTCCTGAAGCCTAAAAAAAAAG‑CATGTGA‑CCGCCGTAATCATTGATGCGGATAAAATAATTCCAACGATGGTGACGAGGGTTCTTGCCTTGTTCTTTTCAAGAATTTTTAGTGTTAATTTGTAAAAAACGTTc                           <  1:383407/138‑1 (MQ=255)
                                                                                                                             aaaaaGTCCTGAAAATTAAAAAAAAAG‑CATGTGA‑CCGCCGTAATCATTGATGCGGATAAAATAATTCCAACGATGGTGACGAGGGTTCTTGCCTTGTTCTTTTCAAGAATTTTTAgt                                                <  1:408831/117‑1 (MQ=255)
                                                                                                                             aaaaaGTCCTAAAGATTAAAAAAAAAG‑CTTGTGA‑CCGCCGTAATCATTGATGCGGATAAAATAATTCCAACGATGGTGACGAGGGTTCTTGCCTTGTTCTTTTCAAGAATTTTTAGTGTTAATTTGTAAAAAACg                              <  1:832709/135‑1 (MQ=255)
                                                                                                                             aaaaaGTCCAGAAGATTTAAAAAAAAG‑CATGTGA‑CCGCCGTAATCATTGATGCGGATAAAATAATTCCAACGATGGTGACGAGGGTTCTTGCCTTGTTCTTTTCAAGAATTTTTAGTGTTAATTTGTAAAAAACGTTCAt                         <  1:853217/140‑1 (MQ=255)
                                                                                                                             aaaaaGCCCTGAAGACTAAAAAAAAAG‑CATGTGA‑CCGCCGTAATCATTGATGCGGATAAAATAATTCCAACGATGGTGACGAGGGTTCTTGCCTTGTTCTTTTCAAGAATTTTTAGTGTTAATTTGt                                      <  1:508636/127‑1 (MQ=255)
                                                                                                                             aaaaaGCCCTGAAGA‑TTTAAAAAAAGACATGTGA‑CCGCCGTAATCATTGATGCGGATAAAATAATTCCAACGATGGTGACGAGGGTTCTTGCCTTGTTCTTTTCaa                                                           <  1:785411/106‑1 (MQ=255)
                                                                                                                              aaaaGTCCTGAAGCATAAAAAAAAAG‑CA‑GTGAACCGCCGTAATCATTGATGCGGATAAAATAATTCAAACGATGGTGACGAGGGTTCTTGCCTTGTTCTTTTCAAGAATTTTTAgtg                                               <  1:717703/117‑1 (MQ=255)
                                                                                                                                     cggaaaaattGAAAAAAGG‑CATGGTA‑CCGCCGTAATCATTGATGCGGATAAAATAATTCCAACGATGGTGACGAGGGTTCTTGCCTTGTTCTTTTCAAGAATTTTTAGTGTTAATTTGTAAAAAACGTTCATTGCCGa                   <  1:1286351/130‑1 (MQ=255)
                                                                                                                                          gtctaaaaaTAAAG‑CATGTGA‑CCGCCGTAATCATTGATGCGGATAAAATAATTCCAACGATGGTGACGAGGGTTCTTGCCTTGTTCTTTTCAAGAATTTTTAGTGTTAATTTGTAAAAAACGTTCATTGCCGAATCACCTCGTCACGAAt  <  1:947294/144‑1 (MQ=255)
                                                                                                                                           aCTTGAAAAAAAG‑CAGGTTT‑CCGCCGTAATCATTGATGCGGATAAAATAATTCCAACGATGGTGACGAGGGTTCTTGCCGTGTTCTTTTCAAGAATTTTTAGTGTTAATTTGTAAAAAACGtt                            <  1:337290/123‑1 (MQ=255)
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CAATTTTCCGAAGCCATACCACGGATTTTACCTCTTTATCTTTCTTTAAACTTTCAATCTGTTCTTTTTTCACGTCATATACTACGCCGTACCAGTCTCCCTCCCGTGCAACAACCATATCCACCAAAAAGTCCTGAAGACTTGAAATAAAG‑CATGTGA‑CCGCCGTAATCATTGATGCGGATAAAATAATTCCAACGATGGTGACGAGGGTTCTTGCCTTGTTCTTTTCAAGAATTTTTAGTGTTAATTTGTAAAAAACGTTCATTGCCGAATCACCTCGTCACGAAT  >  CP002416/1991191‑1991478

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑