Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,984,718	0	G	C	40.5%	53.3 / 15.9	44	P292R (CCG→CGG)	yqeF	short chain acyltransferase
Reads supporting (aligned to +/- strand):  ref base G (8/17);  new base C (17/0);  total (25/19)
Fisher's exact test for biased strand distribution p-value = 4.41e-06
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.79e-01

CCACCATTGACATTGACCCGACGCTCATCCCACTCAAGCATCTTGCCAACCGAAAGCGCCTGTGCAGCAAACGCTTCATTAGCCTCGATAAGATCGACTTCAGCCAACTGCCAGCCTACACGCTCCAGGCAACGGCGGGTCGCATACA‑CCGGCG‑CAATTC‑CCATCAATGCCGGATCTACACCAACGCTGGCAAATGCGCGAATGCGGGCCAGCACGGGTAAATTCAACGCTCGTGCTTTGGCTTCGCTCATCATCATTACCGCAGCTGCGCCATCGTTTATGGATGATGCATTACCCGCTG  >  NC_000913/2984568‑2984868                                                                                                                                                        |                                                                                                                                                         ccaccaTTGACATTGACCCGACGCTCATCCCACTCAAGCATCTTGCCAACCGAAAGCGCCTGTGCAGCAAACGCTTCATTAGCCTCGATAAGATCGACTTCAGCCAACTGCCAGCCTACACGCTCCAGGCAACGGCGGGTCGCATACA‑CCg                                                                                                                                                          <  2:330091/151‑1 (MQ=255)         gacattgacCCGACGCTCATCCCACTCAAGCATCTTGCCAACCGAAAGCGCCTGTGCAGCAAACGCTTCATTAGCCTCGATAAGATCGACTTCAGCCAACTGCCAGCCTACACGCTCCAGGCAACGGCGGGTCGCATACA‑CCGGCG‑CAAt                                                                                                                                                  >  1:66595/1‑150 (MQ=255)              tgacCCGACGCTCATCCCACTCAAGCATCTTGCCAACCGAAAGCGCCTGTGCAGCAAACGCTTCATTAGCCTCGATAAGATCGACTTCAGCCAACTGCCAGCCTACACGCTCCAGGCAACGGCGGGGCGCATAAA‑CCGGCG‑Caaattcc                                                                                                                                              >  1:380277/1‑144 (MQ=255)                  ccGACGCTCATCCCACTCAAGCATCTTGCCAACCGAAAGCGCCTGTGCAGCAAACGCTTCATTAGCCTCGATAAGATCGACTTCAGCCAACTGCCAGCCTACACGCTCCAGGCAACGGCGGGTAGCCTACA‑CCCGCG‑CCAATC‑CCCTc                                                                                                                                          >  1:316998/1‑148 (MQ=255)                   cGACGCTCATCCCACTCAAGCATCTTGCCAACCGAAAGCGCCTGTGCAGCAAACGCTTCATTAGCCTCGATAAGATCGACTTCAGCCAACTGCCAGCCTACACGCTCCAGGCAACGGCGGGTCGCATACA‑CCGGCG‑CAATTC‑CCATCAATg                                                                                                                                      <  2:39074/151‑1 (MQ=255)                   cGACGCTCATCCCACTCAAGCATCTTGCCAACCGAAAGCGCCTGTGCAGCAAACGCTTCATTAGCCTCGATAAGATCGACTTCAGCCAACTGCCAGCCTACACGCTCCAGGCAACGGCGGGGCGCATACA‑CCCGCG‑CAATTT‑CCa                                                                                                                                            >  1:104467/1‑145 (MQ=255)                       gCTCATCCCACTCAAGCATCTTGCCAACCGAAAGCGCCTGTGCAGCAAACGCTTCATTAGCCTCGATAAGATCGACTTCAGCCAACTGCCAGCCTACACGCTCCAGGCAACGGCGGGTCGCATACA‑CCCGCG‑CAAATC‑CCCTCCATGCCg                                                                                                                                   >  1:379420/1‑150 (MQ=255)                          cATCCCACTCAAGCATCTTGCCAACCGAAAGCGCCTGTGCAGCAAACGCTTCATTAGCCTCGATAAGATCGACTTCAGCCAACTGCCAGCCTACACGCTCCAGGCAACGGCGGGGCGCATACA‑CACGCG‑CAAATc‑ccccacatgaccggtc                                                                                                                               >  2:474049/1‑137 (MQ=255)                                  tCAAGCATCTTGCCAACCGAAAGCGCCTGTGCAGCAAACGCTTCATTAGCCTCGATAAGATCGACTTCAGCCAACTGCCAGCCTACACGCTCCAGGCAACGGCGGGGCGCCACCA‑CCCGCG‑CCACTC‑CCCTCAAtatccggaaaacacc                                                                                                                         >  2:498971/1‑135 (MQ=255)                                           ttGCCAACCGAAAGCGCCTGTGCAGCAAACGCTTCATTAGCCTCGATAAGATCGACTTCAGCCAACTGCCAGCCTACACGCTCCAGGCAACGGCGGGGCGCCAAAA‑ACCGCG‑CAAATT‑CCCTCAAAGCCGGGTCTACACCAAcac                                                                                                                    >  2:425473/1‑143 (MQ=255)                                               cAACCGAAAGCGCCTGTGCAGCAAACGCTTCATTAGCCTCGATAAGATCGACTTCAGCCAACTGCCAGCCTACACGCTCCAGGCAACGGCGGGTCGCATACA‑CCGGCG‑CAATTC‑CCATCAATGCCGGATCTACACCAACGCTGGCAAATgc                                                                                                          <  1:140552/151‑1 (MQ=255)                                                   cGAAAGCGCCTGTGCAGCAAACGCTTCATTAGCCTCGATAAGATCGACTTCAGCCAACTGCCAGCCTACACGCTCCAGGCAACGGCGGGTCGCCTACA‑CCCGCG‑CAAATT‑CCCTCAATTCCGGGTCTACACCAACGCCGGCAAAAgcg                                                                                                         >  1:146605/1‑148 (MQ=255)                                                   cGAAAGCGCCTGTGCAGCAAACGCTTCATTAGCCTCGATAAGATCGACTTCAGCCAACTGCCAGCCTACACGCTCCAGGCAACGGCGGGATGCCTACACCCGCCG‑CACTTC‑CC‑TCCAACCCGGATCTGCAACCACCCTCGCCAAtac                                                                                                          >  2:81975/1‑145 (MQ=255)                                                    gAAAGCGCCTGTGCAGCAAACGCTTCATTAGCCTCGATAAGATCGACTTCAGCCAACTGCCAGCCTACACGCTCCAGGCAACGGCGGGTCGCATACA‑CCCCCG‑CCATTT‑CCATCAAAGCCCGGTCTACCCCAACCCTCGCCAAAGcgcg                                                                                                       >  2:517903/1‑149 (MQ=255)                                                                       aCGCTTCATTAGCCTCGATAAGATCGACTTCAGCCAACTGCCAGCCTACACGCTCCAGGCAACGGCGGGGCGCATACA‑CCCGCG‑CAATTC‑CCATCAATGCCGGGTCTACACCAACGCTGGCAAAAGCGCGAATGCGGGCCCGCACggg                                                                                     >  1:432704/1‑148 (MQ=255)                                                                        cGCTTCATTAGCCTCGATAAGATCGACTTCAGCCAACTGCCAGCCTACACGCTCCAGGCAACGGCGGGTCGCATACA‑CCGGCG‑CAATTC‑CCATCAATGCCGGATCTACACCAACGCTGGCAAATGCGCGAATGCGGGCCAGCACGGGTaaa                                                                                 <  1:480050/151‑1 (MQ=255)                                                                            tCATTAGCCTCGATAAGATCGACTTCAGCCAACTGCCAGCCTACACGCTCCAGGCAACGGCGGGTCGCATTCA‑CCGTCA‑CAATTC‑GGCTCAAAGCCGGATCTACACCAACGCTGGCAAATGCGCGAATGCGGGCCAGCACGGGTAAATTc                                                                              <  2:39752/150‑1 (MQ=255)                                                                             cATTAGCCTCGATAAGATCGACTTCAGCCAACTGCCAGCCTACACGCTCCAGGCAACGGCGGGTCGCATACA‑CCGGCG‑CAATTC‑CCCTCAATGCCGGATCTACACCAACGCCGGCAAATGCGCGAATGCGGGGCCGCACGGGGAAATTCa                                                                             >  1:556984/1‑150 (MQ=255)                                                                             cATTAGCCTCGATAAGATCGACTTCAGCCAACTGCCAGCCTACACGCTCCAGGCAACGGCGGGTCGCATACA‑CCGGCG‑CAATTC‑CCATCAATGCCGGATCTACACCAACGCTGGCAAATGCGCGAATGCGGGCCAGCACGGGTAAATTCa                                                                             <  1:256778/150‑1 (MQ=255)                                                                             cATTAGCCTCGATAAGATCGACTTCAGCCAACTGCCAGCCTACACGCTCCAGGCAACGGCGGGTCCCCAACA‑CCCTCG‑CAAATC‑CGCTCCATGTCCGCGCAACACCAACACCGGCGACGGCGCCGACACGGGGCAGCACCGGGaa                                                                                  >  2:56671/1‑145 (MQ=255)                                                                                       gATAAGATCGACTTCAGCCAACTGCCAGCCTACACGCTCCAGGCAACGGCGGGTCGCATACA‑CCGGCG‑CAATTC‑CCATCAATGCCGGATCTACACCAACGCTGGCAAATGCGCGAATGCGGGCCAGCACGGGTAAATTCAACGCTCGTGCt                                                                  <  1:469579/151‑1 (MQ=255)                                                                                        aTAAGATCGACTTCAGCCAACTGCCAGCCTACACGCTCCAGGCAACGGCGGGTCGCATACA‑CCGGCG‑CAATTC‑CCATCAATGCCGGATCTACACCAACGCTGGCAAATGCGCGAATGCGGGCCAGCACGGGTAAATTCAACGCTCGTGCtt                                                                 <  1:246651/151‑1 (MQ=255)                                                                                         tAAGATCGACTTCAGCCAACTGCCAGCCTACACGCTCCAGGCAACGGCGGGGCGCCTACC‑CCCGCG‑CCATTC‑CCCTCAATGCCGGGTCTACACCAACGCTGGCAAATGCGCGAATGCGGGCCAGCACGGGGAAATTCAACCCCTGTGCttt                                                                >  1:192059/1‑151 (MQ=255)                                                                                          aaGATCGACTTCAGCCAACTGCCAGCCTACACGCTCCAGGCAACGGCGGGTCGCATTTT‑TTTTAA‑TGATACGGCGACCA‑CCGAGATCTACACCAACGCTGGCAAATGCGCGAATGCGGGCCAGCACGGGTAAATTCAACGCTCGTGCTTTg                                                               <  2:303239/151‑1 (MQ=255)                                                                                               cGACTTCAGCCAACTGCCAGCCTACACGCTCCAGGCAACGGCGGGTCGCATACA‑CCGGCG‑CAATTC‑CCATCAATGCCGGATCTACACCAACGCTGGCAAATGCGCGAATGCGGGCCAGCACGGGTAAATTCAACGCTCGTGCTTTGGCtt                                                           <  2:366404/150‑1 (MQ=255)                                                                                               cGACTTCAGCCAACTGCCAGCCTACACGCTCCAGGCAACGGCGGGTCGCATACA‑CCCGCG‑CAATTC‑CCATCAATGCCGGATCTACACCAACGCCGGCAAAAGCGCGGATGCGGGCCAGCACGGGGAAATTCAACGCTCGTGCTTTGGCtt                                                           >  1:275588/1‑150 (MQ=255)                                                                                                     cAGCCAACTGCCAGCCTACACGCTCCAGGCGACGGCGGGTCGCATACA‑CCGGCG‑CAATTC‑CCATCAATGCCGGATCTACACCAACGCTGGCAAATGCGCGAATGCGGGCCAGCACGGGTAAATTCAACGCTCGTGCTTTGGCTTCGCtcat                                                    <  1:511968/151‑1 (MQ=255)                                                                                                     cAGCCAACTGCCAGCCTACACGCTCCAGGCAACGGCGGGTCGCATACA‑CCCGCG‑CAAATC‑CCCTCAATGCCCGATCTACACCAAAGCCGGCCAAAGCGCGAAAGCGGGCCAGCACGGGGAAATTCAAAGCCCGTGCCTTGGCCTccc                                                        >  2:276213/1‑145 (MQ=255)                                                                                                       gCCAACTGCCAGCCTACACGCTCCAGGCAACGGCGGGTCGCATACA‑CCGGCG‑CAATTC‑CCATCAATGCCGGATCTACACCAACGCTGGCAAATGCGCGAATGCGGGCCAGCACGGGTAAATTCAACGCTCGTGATTTGGCTTCGCtcatc                                                   <  2:379300/150‑1 (MQ=255)                                                                                                        ccAACTGCCAGCCTACACGCTCCAGGCAACGGCGGGTCGCACACA‑CCCGCGCCAATTC‑CC‑TCAATGCCGGATCTACACCCACGCTGGCAAAAGCGCGAATGCGGGCCAGCACGGGGAAATTCAACCCCCGTGCCTTTGCTTCGCtcatca                                                  >  2:388035/1‑150 (MQ=255)                                                                                                        ccAACTGCCAGCCTAAACGCTCCAGGCAACGGCGGGTCGCATACA‑CCCCCG‑CCAATC‑CCCTCCATGCCGGGACTACACCAACGCCGGCCAAAGCGCGAAAGCGGGGCCGCACGGGGAAATTCAAACCCCGTGCTTTGGCTTCGCtc                                                      >  2:234015/1‑146 (MQ=255)                                                                                                          aaCTGCCAGCCTACACGCTCCAGGCAACGGCGGGTCGCATACA‑CCGGCG‑CAATTC‑CCATCAATGCCGGGTCTACACCCACGCTGGCAAATGCGCGAATGCGGGCCCGCACGGGGAAATTCAAAGCCCGTGCTTTGGCTTCGCccatcatc                                                >  1:234696/1‑150 (MQ=255)                                                                                                            cTGCCAGCCTACACGCTCCAGGCAACGGCGGGTCGCATACA‑CCCGCG‑CAATTC‑CCCTCCAAGCCGGATCCACCCCCACACTGGCAAAAGGGCGAATGCGGGGCCCCCCGGGGAAAATCAACCCCCGTTCTTTTGCTTCGCccctcaac                                                >  2:336031/1‑146 (MQ=255)                                                                                                                   ccTACACGCTCCAGGCAACGGCGGGTCGCATACA‑CCGGCG‑CCATTC‑CCCTCCATGCCCGGTCTACACCCAACCCGGCCAAAACGCGAATGCGGGGCAGCACGGGGAAAATCAAAGCCCGGGCTTTTGCTTCGCCCCTCATCCtt                                             >  2:427238/1‑144 (MQ=255)                                                                                                                   ccTACACGCTCCAGGCAACGGCGGGTCGCATACA‑CCGGAA‑CAATTC‑CCCGCAATGCCAGATCTACACCAACGCTGGCAAATGCGCGAATGCGGGCCAGCACGGGTAAATTCAACGCTCGTGCTTTGGCTTCGCTCATCATCATTACCGCAg                                      <  2:580516/151‑1 (MQ=255)                                                                                                                        acGCTCCAGGCAACGGCGGGTCGCATACA‑CCCGCG‑CAATTT‑CCCCCAATGCCCGATCTACACCAACGCTGGCAAAAGCGCGAAAGCGGGCCAGCACGGGGAAATTAAACGCTCGTGCTTTTGCTTCGCTCACCATCATTACCGCAGCTgc                                  >  2:531318/1‑150 (MQ=255)                                                                                                                         cGCTCCAGGCAACGGCGGGTCGCATACA‑CCGGCG‑CAATTC‑CCATCAATGCCGGATCTACACCAACGCTGGCAAATGCGCGAATGCGGGCCAGCACGGGTAAATTCAACGCTCGTGCTTTGGCTTCGCTCATCATCATTACCGCAGCTgcgc                                <  1:20429/151‑1 (MQ=255)                                                                                                                             ccAGGCAGCGGCGGGTCGCATTCT‑CCTGAG‑CGATTC‑CCCGCACTGCCGGATCTACACCAACGCTGGCAAATGCGCGAATGCGGGCCAGCACGGGTAAATTCAACGCTCGTGCTTTGGCTTCGCTCATCATCATTACCGCAGCTGCGCCATc                            <  2:117497/151‑1 (MQ=255)                                                                                                                                   aaCGGCGGGTCGCATACA‑CCGGCG‑CAATTC‑CCATCAATGCCGGATCTACACCAACGCTGGCAAATGCGCGAATGCGGGCCAGCACGGGTAAATTCAACGCTCGTGCTTTGGCTTCGCTCATCATCATTACCGCAGCTGCGCCATCGTTTa                       <  1:468230/150‑1 (MQ=255)                                                                                                                                             cGCATACA‑CCGGCG‑CAATTC‑CCATCAATGCCGGATCTACACCAACGCTGGCAAATGCGCGAATGCGGGCCAGCACGGGTAAATTCAACGCTCGTGCTTTGGCTTCGCTCATCATCATTACCGCAGCTGCGCCATCGTTTATGGATGATGCa            <  1:425612/151‑1 (MQ=255)                                                                                                                                             cGCATACA‑CCGGCG‑CAATTC‑CCATCAATGCCGGATCTACACCAACGCTGGCAAATGCGCGAATGCGGGCCAGCACGGGTAAATTCAACGCTCGTGCTTTGGCTTCGCTCATCATCATTACCGCAGCTGCGCCATCGTTTATGGATGATGCa            <  1:562500/151‑1 (MQ=255)                                                                                                                                             cGCATACA‑CCGGCA‑CGATTC‑CCAGCAATGCGGGATCTACACCAACGCTGGCAAATGCGCGAATGCGGGCCAGCACGGGTAAATTCAACGCTCGTGCTTTGGCTTCGCTCATCATCATTACCGCAGCTGCGCCATCGTTTATGGATGATGCa            <  2:562268/151‑1 (MQ=255)                                                                                                                                               cATACA‑CCGGCG‑CAATTC‑CCATCAATGCCGGATCTACACCAACGCTGGCAAATGCGCGAATGCGGGCCAGCACGGGTAAATTCAACGCTCGTGCTTTGGCTTCGCTCATCATCATTACCGCAGCTGCGCCATCGTTTATGGATGATGCAtt          >  2:172600/1‑151 (MQ=255)                                                                                                                                               cATACA‑CAGGCG‑CAATTC‑CAATCAATGACGGATCTACACCAACGCTGGCAAATGCGCGAATGCGGGCCAGCACGGGTAAATTCAACGCTCGTGCTTTGGCTTCGCTCATCATCATTACCGCAGCTGCGCCATCGTTTATGGATGATGCAtt          >  2:202607/1‑151 (MQ=255)                                                                                                                                                aTACA‑CCGGCG‑CAATTC‑CCATCAATGCCGGATCTACACCAACGCTGGCAAATGCGCGAATGCGGGCCAGCACGGGTAAATTCAACGCTCGTGCTTTGGCTTCGCTCATCATCATTACCGCAGCTGCGCCATCGTTTATGGATGATGCATTa         <  2:12225/151‑1 (MQ=255)                                                                                                                                                        ggCG‑CAATTC‑CCATCAATGCCGGATCTACACCAACGCTGGCAAATGCGCGAATGCGGGCCAGCACGGGTAAATTCAACGCTCGTGCTTTGGCTTCGCTCATCATCATTACCGCAGCTGCGCCATCGTTTATGGATGACGCATTACCCGCTg  <  1:364453/151‑1 (MQ=255)                                                                                                                                                        |                                                                                                                                                         CCACCATTGACATTGACCCGACGCTCATCCCACTCAAGCATCTTGCCAACCGAAAGCGCCTGTGCAGCAAACGCTTCATTAGCCTCGATAAGATCGACTTCAGCCAACTGCCAGCCTACACGCTCCAGGCAACGGCGGGTCGCATACA‑CCGGCG‑CAATTC‑CCATCAATGCCGGATCTACACCAACGCTGGCAAATGCGCGAATGCGGGCCAGCACGGGTAAATTCAACGCTCGTGCTTTGGCTTCGCTCATCATCATTACCGCAGCTGCGCCATCGTTTATGGATGATGCATTACCCGCTG  >  NC_000913/2984568‑2984868

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑