Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,415,810	0	T	C	44.4%	73.3 / 17.3	54	D526G (GAT→GGT)	recE	Rac prophage; exonuclease VIII, 5' to 3' specific dsDNA exonuclease
Reads supporting (aligned to +/- strand):  ref base T (28/2);  new base C (0/24);  total (28/26)
Fisher's exact test for biased strand distribution p-value = 2.32e-13
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ATTCTCATTGTGCGGATGTTCAGCGCCTTCCATTTCCTCCGGATCATTTTCCTTAGCTTCAACCTGACTCTCTTCATCGAATGTTTCCTGGTATGTTGCGTCGCCCATCACCGCACCACAGTCAGGGCAG‑TTATCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTCAGGTTGATTCATATCTGGGCTGGTTTTTTCCGTTTCTGGCTGGTTCTGGTACACACAATCGCGAGTCTGGATCCCCTTTACCCATTT  >  NC_000913/1415677‑1415958                                                                                                                                       |                                                                                                                                                     aTTCTCATTGTGCGGATGTTCAGCGCCTTCCATTTCCTCCGGATCATTTTCCTTAGCTTCAACCTGACTCTCTTCATCGAATGTTTCCTGGTATGTTGCGTCGCCCATCACCGCACCACAGTCAGGGCAG‑TTATCCCCGCCAGTCTGGcc                                                                                                                                      >  1:58546/1‑150 (MQ=255) aTTCTCATTGTGCGGATGTTCAGCGCCTTCCATTTCCTCCGGATCATTTTCCTTAGCTTCAACCTGACTCTCTTCATCGAATGTTTCCTGGTATGTTGCGTCGCCCATCACCGCACCACAGTCAGGGCAG‑TTATCCCCGCCAGTCTGGCCg                                                                                                                                     >  2:617950/1‑151 (MQ=255)    ctcATTGTGCGGATGTTCAGCGCCTTCCATTTCCTCCGGATCATTTTCCTTAGCTTCAACCTGACTCTCTTCATCGAATGTTTCCTGGTATGTTGCGTCGCCCATCACCGCACCACAGTCAGGGCAG‑TTATCCCCGCCAGTCTGGCCGc                                                                                                                                    >  1:529817/1‑149 (MQ=255)      cATTGTGCGGATGTTCAGCGCCTTCCATTTCCTCCGGATCATTTTCCTTAGCTTCAACCTGACTCTCTTCATCGAATGTTTCCTGGTATGTTGCGTCGCCCATCACCGCACCACAGTCAGGGCAG‑TTATCCCCGCCAGTCTGGCCGCAGGc                                                                                                                                >  1:741098/1‑151 (MQ=255)       aTTGTGCGGATGTTCAGCGCCTTCCATTTCCTCCGGATCATTTTCCTTAGCTTCAACCTGACTCTCTTCATCGAATGTTTCCTGGTATGTTGCGTCGCCCATCACCGCACCACAGTCAGGGCAG‑TTATCCCCGCCAGTCTGGCCGCAGGc                                                                                                                                >  2:1019489/1‑150 (MQ=255)        tggtgGGGTTGTTCAGCCCCTCCCTTTCCCCCCGGATCTTTTTCCTTAGCTCCACCCTGCCTCTCTTCATCGAATGTTCCCTGTTTTGTTGCGCCCCCCATCCCCGCCCCACAGTGAGGGCAG‑TTACCCCCGCCAGTCTGGCCGCAGGCa                                                                                                                               <  2:98668/148‑1 (MQ=255)            gCGGTTTTTCAGCCCTTTCCTTTCCCCCCGGTTTTTTTTCCTTGCCTTCACCCTGCCTCTCTTCATCAATTTTTTCTTGGTTTGTTGCGCCCCCCACCCCCCCACCACAGCCAGGGCAG‑TTACCCCCGCCAGTCTGGCCGCAGGCATTGCa                                                                                                                          <  2:70374/151‑1 (MQ=255)            gCGGATGTTCAGCGCCTTCCATTTCCTCCGGATCATTTTCCTTAGCTTCAACCTGACTCTCTTCATCGAATGTTTCCTGGTATGTTGCGTCGCCCATCACCGCACCACAGTCAGGGCAG‑TTATCCCCGCCAGTCTGGCCGCAGGCATTGc                                                                                                                           >  2:799527/1‑150 (MQ=255)              ggttGTTCACCCCCTTCCTTTTCCCCCGGATCTTTTTCCTTAGCTTCCCCCTCCCTCTCTCCATCGAATTTTTCCTGTTTTGTTGCCCCCCCCTCCCCCGCCCCAAAGTCAGGGATT‑TTATCCCCGCCAGTCTGGCCGCAGGc                                                                                                                                <  1:1090459/140‑1 (MQ=255)              gggtGTCCAGCCCCTTCCATTCCCCCCGGATTTTTTTCCTTAGCTCCACCCTCACTCTCTTCATCGATTTTTTCCTGGTATGTTGCGTCCCCCACCCCCCCCCCACAGTCGGGGCAG‑TTACCCCCGCCAGTCTGGCCGCAGGCATTGCAgg                                                                                                                        <  2:809325/148‑1 (MQ=255)                   ttCAGCGCCTTCCATTTCCTCCGGATCATTTTCCTTAGCTTCAACCTGACTCTCTTCATCGAATGTTTCCTGGTATGTTGCGTCGCCCATCACCGCACCACAGTCAGGGCAG‑TTATCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTAtt                                                                                                                   >  2:557316/1‑151 (MQ=255)                   ttCAGCCCCTTCCTTTCCCCCCGGATCTTTTTCTTTGCCTCCACCCTACTTCCCTGCAGCTATTTTTTCGTGGTAGGTTGCGCCCCCCCTCCCCCCCCCACAGTGGGGGCAG‑TTCCCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTa                                                                                                                     <  2:1064821/149‑1 (MQ=255)                     cgcccctttcattttCCTCCGATTCTTTTTCCTTACCTCCACCCTTCCTCTCTTCATAAATTTTTTCTTGTTTTGTTGCGCCCCCCACCCCCACCCCCCGGTGGGGTTGT‑TTACCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTAttt                                                                                                                  <  1:1080055/138‑1 (MQ=255)                        ccccttccttTCCCTCCGGATCTTTTTCCTTAGCTTCACCCTGCCTCTCTTCATGATATGTTTCCTGTTATGTCCCCCCGCCCCCCCCCCCCCCACAGGCGGGGCTT‑TTACCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCg                                                                                                               <  1:173254/148‑1 (MQ=255)                        ccccTTCCATTCCCCCGGAATTTTTTTCCTTACCTCCACCCTCCCCCTCTCCATCGAATGTTTCCTGGTATGTTGCGCCCCCCACCCCCCCCCCACAGCCGGGGCTT‑TTACCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTcc                                                                                                                <  1:1012251/147‑1 (MQ=255)                          ccTTCCATTTCCTCCGGATCATTTTCCTTAGCTTCAACCTGACTCTCTTCATCGAATGTTTCCTGGTATGTTGCGTCGCCCATCACCGCACCACAGTCAGGGCAG‑TTATCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGtt                                                                                                            >  2:496139/1‑151 (MQ=255)                            ttCCATTTCCTCCGGATCATTTTCCTTAGCTTCAACCTGACTCTCTTCATCGAATGTTTCCTGGTATGTTGCGTCGCCCATCACCGCACCACAGTCAGGGCAG‑TTATCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTcc                                                                                                          >  2:15251/1‑151 (MQ=255)                              ccATTTCCTCCGGATCATTTTCCTTAGCTTCAACCTGACTCTCTTCATCGAATGTTTCCTGGTATGTTGCGTCGCCCATCACCGCACCACAGTCAGGGCAG‑TTATCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTg                                                                                                        >  2:425846/1‑151 (MQ=255)                                        cgtaTCTTTTTCCTTAGCTCCACCCTGCCTCTCTTCATCGATTTTTTCCTGGTATGTTGCGCCCCCCACCCCCGCCCCACAGTGGGGGCAT‑TTACCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCactact                                                                                              <  2:159000/148‑1 (MQ=255)                                         gtaTCTTTTTCTTTACCTCCACCCTGACTCTCTTCATCGATTTTTTCTTGTTTTGTGGCGCCGCCCACCCCCGCACCACGGTCGGGGCAT‑TTTCCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTg                                                                                             <  1:1111368/149‑1 (MQ=255)                                         ggatttttttCCTTACCTCCACCCGCCCCCTCTTCATCAAATTTTCCTTTGTTTGTTGCGCCCCCCACCCCCGCCCCACATTCGGGGCTT‑TCACCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTg                                                                                             <  1:466409/145‑1 (MQ=255)                                         ggATCATTTTCCTTAGCTTCAACCTGACTCTCTTCATCGAATGTTTCCTGGTATGTTGCGTCGCCCATCACCGCACCACAGTCAGGGCAG‑TTATCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTg                                                                                             >  2:775005/1‑151 (MQ=255)                                              aTTTTCCTTAGCTTCAACCTGACTCTCTTCATCGAATGTTTCCTGGTATGTTGCGTCGCCCATCACCGCACCACAGTCAGGGCAG‑TTATCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTc                                                                                         >  1:635277/1‑150 (MQ=255)                                               ttttCCTTAGCTTCACCCTGCCTCTCTCCATCAATTGTTTCCTGGTTTGTGGCCCCGCCCACCCCCCCCCCACAGTCGGGGCAT‑TTACCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTCa                                                                                        <  2:348916/150‑1 (MQ=255)                                                 ttCCTTAGCTCCACCCTTCCTCTCTTCATCGATTGTTCCTGGGTATGTGGCGCCCCCCACCCCCGCCCCACAGTCGGGGCAT‑TTACCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTCAgg                                                                                      <  1:889488/150‑1 (MQ=255)                                                   ccTTAGCTTCAACCTGACTCTCTTCATCGAATGTTTCCTGGTATGTTGCGTCGCCCATCACCGCACCACAGTCAGGGCAG‑TTATCCCCGCCAGTCTGGCCGCAGGCATTTCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTCAGGtt                                                                                    >  1:416609/1‑150 (MQ=255)                                                   ccTTAGCTTCAACCTGACTCTCTTCATCGAATGTTTCCTGGTATGTTGCGTCGCCCATCACCGCACCACAGTCAGGGCAG‑TTATCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTCAGGTTg                                                                                   >  1:202479/1‑151 (MQ=255)                                                   ccTTACTTTCACCCTGCCTCTCTTCATCGATTTTTTTTTGGTTTTTTGCGTCCCCCATCACCACCCCACCG‑CGGGGGAGTTTCCCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTCAGGtt                                                                                    <  2:420819/150‑1 (MQ=255)                                                     ttAGCTTCAACCTGACTCTCTTCATCGAATGTTTCCTGGTATGTTGCGTCGCCCATCACCGCACCACAGTCAGGGCAG‑TTATCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTCAGGTTGAt                                                                                 >  1:500416/1‑151 (MQ=255)                                                       aGCTTCAACCTGACTCTCTTCATCGAATGTTTCCTGGTATGTTGCGTCGCCCATCACCGCACCACAGTCAGGGCAG‑TTATCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTCAGGTTGATTc                                                                               >  1:611124/1‑151 (MQ=255)                                                          ttCAACCTGACTCTCTTCATCGAATGTTTCCTGGTATGTTGCGTCGCCCATCACCGCACCACAGTCAGGGCAG‑TTATCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTCAGGTTGATTCat                                                                             >  2:822617/1‑150 (MQ=255)                                                          taaacccggcctctttTCATCGAATGTTTCAGGTTATGTTGCGCCCCCCCCCCCCGCCCCCGAGTGGGGGTAT‑TTGCCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTCAGGTTGATTc                                                                               <  1:859568/138‑1 (MQ=255)                                                             aaCCTGACTCTCTTCATCGAATGTTTCCTGGTATGTTGCGTCGCCCATCACCGCACCACAGTCAGGTCAG‑TTATCCCCGTCAGTCTGGCCGCAGGCATTGGAGGCTATTTCCGGTTCCTGTTGAACTACTGGCCCGGGTTGATTCatattt                                                                         >  1:526247/1‑149 (MQ=255)                                                             aaCCTGACTCTCTTCATCGAATGTTTCCTGGTATGTTGCGTCGCCCATCACCGCACCACAGTCAGGGCAG‑TTATCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTCAGGTTGATTCATATCt                                                                         >  2:1048111/1‑151 (MQ=255)                                                              ccctccctctccTCAGCGATTTTTCCCTGTTATGTGGCTCCGCCCCCCCCCCCACCACGGCCGGGGCAG‑TTACCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTCAGGTTGATTCatat                                                                           <  1:70968/142‑1 (MQ=255)                                                               ccTGCCTCTCTTCATCGATTTTTTCTTGGTATGTTGCGCCCCCCACCCCCCCCCCACAGTCAGGGCAT‑TTACCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTCAGGTTGATTc                                                                               <  2:697270/143‑1 (MQ=255)                                                                      ctctCCAACGATTGTTTCCGGGTATGTTGCGCCCCCCCCCCCCGCCCCACAGAGGGGGCAT‑TTACCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTCAGGTTGATTCATATCTGGGCTGGt                                                                 <  1:154786/150‑1 (MQ=255)                                                                                aaTGTTTCCTGGTATGTTGCGTCGCCCATCACCGCACCACAGTCAGGGCAG‑TTATCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTCAGGTTGATTCATATCTGGGCTGGTTTTTTCCGttt                                                      >  2:435889/1‑151 (MQ=255)                                                                                 aTGTTTCCTGGTATGTTGCGTCGCCCATCACCGCACCACAGTCAGGGCAG‑TTATCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTCAGGTTGATTCATATCTGGGCTGGTTTTTTCCGTTTc                                                     >  1:149497/1‑151 (MQ=255)                                                                                  tttttCTTGGTATCTTGCTCCCCCCCCCCCCCCCCCAAAGTCGGGGCGT‑TTACCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTCAGGTTGATTCATATCTGGGCTGGTTTTTTCCGtt                                                       <  1:1157597/146‑1 (MQ=255)                                                                                   gTTTCCTGGTATGTTGCGTCGCCCATCACCGCACCACAGTCAGGGCAG‑TTATCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTCAGGTTGATTCATATCTGGGCTGGTTTTTTCCGTTTct                                                    >  1:349190/1‑150 (MQ=255)                                                                                    tttCCTGGTATGTTGCGTCGCCCATCACCGCACCACAGTCAGGGCAG‑TTATCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTCAGGTTGATTCATATCTGGGCTGGTTTTTTCCGTTTctgg                                                  >  1:512666/1‑151 (MQ=255)                                                                                             aTGTTGCGTCGCCCATCACCGCACCACAGTCAGGGCAG‑TTATCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTCAGGTTGATTCATATCTGGGCTGGTTTTTTCCGTTTCTGGCTGGTTCTg                                         >  2:393215/1‑151 (MQ=255)                                                                                                     tCGCCCATCACCGCACCACAGTCAGGGCAG‑TTATCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTCAGGTTGATTCATATCTGGGCTGGTTTTTTCCGTTTCTGGCTGGTTCTGGTacacac                                 >  2:496647/1‑151 (MQ=255)                                                                                                      cccccACCCCCCCACCACAGTCGGGGCAT‑TTCCCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTCAGGTTGATTCATATCTGGGCTGGTTTTTTCCGTTTCTGGCTGGTTCt                                          <  2:612644/139‑1 (MQ=255)                                                                                                            ccccccccccacAGTCGGGGCTT‑TTACCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTCAGGTTGATTCATATCTGGGCTGGTTTTTTCCGTTTCTGGCTGGTTCTGGTACACACAATcg                            <  1:1117174/141‑1 (MQ=255)                                                                                                              acccccccacAGGGAGGGCAG‑TTATCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTCAGGTTGATTCATATCTGGGCTGGTTTTTTCCGTTTCTGGCTGGTTCTGGTACACACAATCGCGa                         <  1:974811/144‑1 (MQ=255)                                                                                                               cccccccacAGACAGGCCAT‑TTCCCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTCAGGTTGATTCATATCTGGGCTGGTTTTTTCCGTTTCTGGCTGGTTCTGGTACACACAATCGCGa                         <  1:942325/144‑1 (MQ=255)                                                                                                                    ccacAGTAAGGCCAG‑TTCCCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTCAGGTTGATTCATATCTGGGCTGGTTTTTTCCGTTTCTGGCTGGTTCTGGTACACACAATCGCGAGTCTg                    <  2:398282/149‑1 (MQ=255)                                                                                                                          tCAGGGCAG‑TTATCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTCAGGTTGATTCATATCTGGGCTGGTTTTTTCCGTTTCTGGCTGGTTCTGGTACACACAATCGCGAGTCTGGATCCCCt            >  2:197700/1‑151 (MQ=255)                                                                                                                            ggggCAT‑TTACCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTCAGGTTGATTCATATCTGGGCTGGTTTTTTCCGTTTCTGGCTGGTTCTGGTACACACAATCGCGAGTCTGGATCCCCttt          <  2:754360/150‑1 (MQ=255)                                                                                                                             gggCTG‑TTCCCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTCAGGTTGATTCATATCTGGGCTGGTTTTTTCCGTTTCTGGCTGGTTCTGGTACACACAATCGCGAGTCTGGATCCCCTTTa         <  2:96358/151‑1 (MQ=255)                                                                                                                               gCAG‑TTATCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTCAGGTTGATTCATATCTGGGCTGGTTTTTTCCGTTTCTGGCTGGTTCTGGTACACACAATCGCGAGTCTGGATCCCCTTTAcc       >  2:923630/1‑151 (MQ=255)                                                                                                                                     tATCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTCAGGTTGATTCATATCTGGGCTGGTTTTTTCCGTTTCTGGCTGGTTCTGGTACACACAATCGCGAGTCTGGATCCCCTTTACCCAttt  >  1:380624/1‑151 (MQ=255)                                                                                                                                       |                                                                                                                                                     ATTCTCATTGTGCGGATGTTCAGCGCCTTCCATTTCCTCCGGATCATTTTCCTTAGCTTCAACCTGACTCTCTTCATCGAATGTTTCCTGGTATGTTGCGTCGCCCATCACCGCACCACAGTCAGGGCAG‑TTATCCCCGCCAGTCTGGCCGCAGGCATTGCAGGCTATTTCCGGTTCCTGTTGCACTACTGGCTCAGGTTGATTCATATCTGGGCTGGTTTTTTCCGTTTCTGGCTGGTTCTGGTACACACAATCGCGAGTCTGGATCCCCTTTACCCATTT  >  NC_000913/1415677‑1415958

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑