Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,576,077	0	C	A	47.1%	52.3 / 20.1	34	D515Y (GAT→TAT)	yddB	putative TonB‑dependent outer membrane receptor
Reads supporting (aligned to +/- strand):  ref base C (14/4);  new base A (0/16);  total (14/20)
Fisher's exact test for biased strand distribution p-value = 2.28e-06
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

ACGCGCAATAACGTTCTTACCGATTTTCTGCTGCAATCCCATTGCCAGTTCATCGTTATAAGGCGTTTTCAAATCCTGATAACGCGTCAGAGTTTTATTACCTGATACCGATTCCGTCCAGCTATTGCGGATATCACGTAATCCCATATCAAGAATATTCCCGCCATAGTAACGGTTATAACCTGCTGTAATCATTGAGGTTTGATTAGCAAAAATATCCCATTCCGTCATAAAGCGCGGGGAGATATTGTGGTTTGACAGATAGTTGTCATAGTCATACCGCACGCCGGGCATT  >  NC_000913/1575928‑1576222                                                                                                                                                      |                                                                                                                                                  aCGCGCAATAACGTTCTTACCGATTTTCTGCTGCAATCCCATTGCCAGTTCATCGTTATAAGGCGTTTTCAAATCCTGATAACGCGTCAGAGTTTTATTACCTGATACCGATTCCGTCCAGCTATTGCGGATATCACGTAATCCCATATCa                                                                                                                                                  <  1:190670/151‑1 (MQ=255)     gcAATAACGTTCTTACCGATTTTCTGCTGCAATCCCATTGCCAGTTCATCGTTATAAGGCGTTTTCAAATCCTGATAACGCGTCAGAGTTTTATTACCTGATACCGATTCCGTCCAGCTATTGCGGATATCACGTAATCCCATATCAAGa                                                                                                                                               >  2:167981/1‑150 (MQ=255)      cAATAACGTTCTTACCGATTTTCTGCTGCAATCCCATTGCCAGTTCATCGTTATAAGGCGTTTTCAAATCCTGATAACGCGTCAGAGTTTTATTACCTGATACCGATTCCGTCCAGCTATTGCGGATATCACGTAATCCCATATCAAGaa                                                                                                                                              <  1:86148/150‑1 (MQ=255)          aaCGTTCTTACCGATTTTCTGCTGCAATCCCATTGCCAGTTCATCGTTATAAGGCGTTTTCAAATCCTGATAACGCGTCAGAGTTTTATTACCTGATACCGATTCCGTCCAGCTATTGCGGATATCACGTAATCCCATATCAAGAATAtt                                                                                                                                          <  1:155260/150‑1 (MQ=255)             gTTCTTACCGATTTTCTGCTGCAATCCCATTGCCAGTTCATCGTTATAAGGCGTTTTCAAATCCTGATAACGCGTCAGAGTTTTATTACCTGATACCGATTCCGTCCAGCTATTGCGGATATCACGTAATCCCATATCAAGAATATTCCCg                                                                                                                                      <  2:579560/151‑1 (MQ=255)               tCTTACCGATTTTCTGCTGCAATCCCATTGCCAGTTCATCGTTATAAGGCGTTTTCAAATCCTGATAACGCGTCAGAGTTTTATTACCTGATACCGATTCCGTCCAGCTATTGCGGATATCACGTAATCCCATATCAAGAATATTCCCGcc                                                                                                                                    >  2:398745/1‑151 (MQ=255)               tCTTACCGATTTTCTGCTGCAATCCCATTGCCAGTTCATCGTTATAAGGCGTTTTCAAATCCTGATAACGCGTCAGAGTTTTATTACCTGATACCGATTCCGTCCAGCTATTGCGGATATCACGTAATCCCATATCAAGAATATTCCCGcc                                                                                                                                    >  1:57866/1‑151 (MQ=255)                cTTACCGATTTTCTGCTGCAATCCCATTGCCAGTTCATCGTTATAAGGCGTTTTCAAATCCTGATAACGCGTCAGAGTTTTATTACCTGATACCGATTCCGTCCAGCTATTGCGGATATCACGTAATCCCATATCAAGAATATTCCCGcc                                                                                                                                    >  1:378552/1‑150 (MQ=255)                    ccGATTTTCTGCTGCAATCCCATTGCCAGTTCATCGTTATAAGGCGTTTTCAAATCCTGATAACGCGTCAGAGTTTTATTACCTGATACCGATTCCGTCCAGCTATTGCGGATATCACGTAATCCCATATCAAGAATATTCCCGCCATAGt                                                                                                                               >  2:315837/1‑151 (MQ=255)                      gATTTTCTGCTGCAATCCCATTGCCAGTTCATCGTTATAAGGCGTTTTCAAATCCTGATAACGCGTCAGAGTTTTATTACCTGATACCGATTCCGTCCAGCTATTGCGGATATTACGTAATCCCATATCAAGAATATTCCCGCCATAGTa                                                                                                                              >  2:36863/1‑150 (MQ=255)                                    accccATTGCCAGTTCATCGTTATAAGGCTTTTTCAAATCCTGATACCGCGTAAGATTTTTATTCCCTGATACCGTTCCCGTCCAGCTATTGCGAATATCACGTAACCCCATATAAAAAATTTTCCCGCCATAGTAACGGTTATAACctg                                                                                                                <  2:514634/148‑1 (MQ=255)                                          ttGCAATTTCATTGTTATAAGGTTTTTTCAAATCCTGATAACGCGTAAGTTTTTTATTCCCTGATACCGTTTCCGTCCATTTATTGCGAATACCACTAACCCCCATATAAAGAATTTCCCCGCCATAGTAACGGTTATAACCTGCTGTaa                                                                                                          <  1:665555/150‑1 (MQ=255)                                             ccAGTTCATCGTTATAAGGCGTTTTCAAATCCTGATAACGCGTCAGAGTTTTATTACCTGATACCGATTCCGTCCAGCTATTGCGGATATCACGTAATCCCATATCAAGAATATTCCCGCCATAGTAACGGTTATAACCTGCTGTAATCAt                                                                                                      >  1:428568/1‑151 (MQ=255)                                                 ttCATCGTTATAAGGCTTTTTAAAATCCTGATAACGCGTCAGTTTTTTATTCCCTTATACCGTTCCCGCCCAGCTTTTGCGAATATCACGTACCCCCATAAAAAAAATATTCCCGCCATAGTAACGGTTATAACCTGCTGTAATc                                                                                                        <  1:167979/145‑1 (MQ=255)                                                     tctttATAGGGCTTTTTAAAATCCTAAAAACGCTTCAGATTTTTTTTCCCTGATCCCGATCCCGCCCAGTTATTGCGGATACCACTAAACCCCATATAAAAAATTTTCCCGCCATAGTAACGGTTATAACCTGCTGTAATCATTGAGGt                                                                                                <  2:133755/146‑1 (MQ=255)                                                                       aaatctgaaTAACGCGTAAGTTTTTTTTTCCCTGATACCGTTCCCGCCCAGTTATGGGGGATATCACGTAACCCAATATAAAGAATATTGCCGCCATAGTAACGGTTATAACCTGCTGTAATCATTGAGGTTTGATTAGCAAAAATATccc                                                                            <  2:290270/143‑1 (MQ=255)                                                                              gATAACGCGTCAGAGTTTTATTACCTGATACCGATTCCGTCCAGCTATTGCGGATATCACGTAATCCCATATCAAGAATATTCCCGCCATAGTAACGGTTATAACCTGCTGTAATCATTGAGGTTTGATTAGCAAAAATATCCCATTCCGt                                                                     >  1:556408/1‑151 (MQ=255)                                                                                           agTTTTATTACCTGATACCGATTCCGTCCAGCTATTGCGGATATCACGTAATCCCATATCAAGAATATTCCCGCCATAGTAACGGTTATAACCTGCTGTAATCATTGAGGTTTGATTAGCAAAAATATCCCATTCCGTCATAAAGCGCggg                                                        >  1:332377/1‑151 (MQ=255)                                                                                             ttttttTACCTGATCCCGATCCCGCCCAGTTTTTGCGGATACCACGTAACCCAATATAAAAATTTTCCCCGCCATAGTAACGGTTATAACCTGCTGTAATCATTGAGGTTTGATTAGCAAAAATATCCCATTCCGTCATAAAgcg                                                            <  2:249655/145‑1 (MQ=255)                                                                                                 caatcttGATCCCGATCCCGCCCAGCTATTGCGGATATCACGTAACCCCATAAAAAAAATATCCCCGCCATAGTAACGGTTATAACCTGCTGTAATCATTGAGGTTTGATTAGCAAAAATATCCCATTCCGTCATAAAGCGCGGGgag                                                     <  2:489984/142‑1 (MQ=255)                                                                                                    aCCTGATACCGATTCCGTCCAGCTATTGCGGATATCACGTAATCCCATATCAAGAATATTCCCGCCATAGTAACGGTTATAACCTGCTGTAATCATTGAGGTTTGATTAGCAAAAATATCCCATTCCGTCATAAAGCGCGGGGAGATATtg                                               >  2:189538/1‑151 (MQ=255)                                                                                                       tGATACCGATTCCGTCCAGCTATTGCGGATATCACGTAATCCCATATCAAGAATATTCCCGCCATAGTAACGGTTATAACCTGCTGTAATCATTGAGGTTTGATTAGCAAAAATATCCCATTCCGTCATAAAGCGCGGGgag                                                     >  1:489982/1‑142 (MQ=255)                                                                                                         atccctaTTCCGCCCATTTATTGATGATATCACATAACCCCAAATAAAAAATATCCCCGCCATAGTAACGGTTATAACCTGCTGTAATCATTGAGGTTTGATTAGCAAAAATATCCCATTCCGTCATAAAGCGCGGGGAGATATTGTgg                                            <  1:530140/143‑1 (MQ=255)                                                                                                            ccaaTTCCGTCCAGTTATTGCGATTATCACGTAATCCTATAAAAAAAATTTTCCCGCCATAGTAACGGTTATAACCTGCTGTAATCATTGAGGTTTGATTAGCAAAAATATCCCATTCCGTCATAAAGCGCGGGGAGATATTGTGGttt                                         <  1:164452/146‑1 (MQ=255)                                                                                                                      ccAGTTTTTGCGGATATCACATACCCCAATATAAAAAATATTCCCGCCATAGTAACGGTTATAACCTGCTGTAATCATTGAGGTTTGATTAGCAAAAATATCCCATTCCGTCATAAAGCGCGGGGAGATATTGTGGTTTGACAGATAGtt                              <  1:603439/150‑1 (MQ=255)                                                                                                                      ccAGTTATGGGGGATATCACGTAACCCAATATAAAGAATATTCCCGCCATAGTAACGGTTATAACCTGCTGTAATCATTGAGGTTTGATTAGCAAAAATATCCCATTCCGTCATAAAGCGCGGGGAGATATTGTGGTTTGACAGATAGt                               <  1:126542/149‑1 (MQ=255)                                                                                                                           tATTGAGAATATCACATAACCCCATAAAAAAAATATTCCCGCCATAGTAACGGTTATAACCTGCTGTAATCATTGAGGTTTGATTAGCAAAAATATCCCATTCCGTCATAAAGCGCGGGGAGATATTGTGGTTTGACAGATAGTTg                             <  1:5781/146‑1 (MQ=255)                                                                                                                             ttGCGGATATCACGTAATCCCATATCAAGAATATTCCCGCCATAGTAACGGTTATAACCTGCTGTAATCATTGAGGTTTGATTAGCAAAAATATCCCATTCCGTCATAAAGCGCGGGGAGATATTGTGGTTTGACAGATAGTTgtcatagt                      >  2:504876/1‑151 (MQ=255)                                                                                                                              tGCGGATATTAGATAATCCTATATAAAAAATATTCCCGCCATAGTAACGGTTATAACCTGCTGTAATCATTGAGGTTTGATTAGCAAAAATATCCCATTCCGTCATAAAGCGCGGGGAGATATTGTGGTTTGACAGATAGTTgtcatagt                      <  1:128619/150‑1 (MQ=255)                                                                                                                                        acatactCCCATATAAAAAATTTTCCCGCCATAGTAACGGTTATAACCTGCTGTAATCATTGAGGTTTGATTAGCAAAAATATCCCATTCCGTCATAAAGCGCGGGGAGATATTGTGGTTTGACAGATAGTTGTCATAGTCATACCGCAc            <  1:462215/144‑1 (MQ=255)                                                                                                                                            aaTCCCATATCAAGAATATTCCCGCCATAGTAACGGTTATAACCTGCTGTAATCATTGAGGTTTGATTAGCAAAAATATCCCATTCCGTCATAAAGCGCGGGGAGATATTGTGGTTTGACAGATAGTTGTCATAGTCATACCGCACGCCgg       >  1:593445/1‑151 (MQ=255)                                                                                                                                            aaTCCCAAATAAAGAATATCCCCGCCATAGTAACGGTTATAACCTGCTGTAATCATTGAGGTTTGATTAGCAAAAATATCCCATTCCGTCATAAAGCGCGGGGAGATATTGTGGTTTGACAGATAGTTGTCATAGTCATACCGCACGcc         <  2:505192/149‑1 (MQ=255)                                                                                                                                              ccccATAAAAAAAATATTCCCGCCATAGTAACGGTTATAACCTGCTGTAATCATTGAGGTTTGATTAGCAAAAATATCCCATTCCGTCATAAAGCGCGGGGAGATATTGTGGTTTGACAGATAGTTGTCATAGTCATACCGCACGCCGGGc     <  2:363000/150‑1 (MQ=255)                                                                                                                                                 cATATCAAGAATATTCCCGCCATAGTAACGGTTATAACCTGCTGTAATCATTGAGGTTTGATTAGCAAAAATATCCCATTCCGTCATAAAGCGCGGGGAGATATTGTGGTTTGACAGATAGTTGTCATAGTCATACCGCACGCCGGGCAtt  >  2:298450/1‑151 (MQ=255)                                                                                                                                                      |                                                                                                                                                  ACGCGCAATAACGTTCTTACCGATTTTCTGCTGCAATCCCATTGCCAGTTCATCGTTATAAGGCGTTTTCAAATCCTGATAACGCGTCAGAGTTTTATTACCTGATACCGATTCCGTCCAGCTATTGCGGATATCACGTAATCCCATATCAAGAATATTCCCGCCATAGTAACGGTTATAACCTGCTGTAATCATTGAGGTTTGATTAGCAAAAATATCCCATTCCGTCATAAAGCGCGGGGAGATATTGTGGTTTGACAGATAGTTGTCATAGTCATACCGCACGCCGGGCATT  >  NC_000913/1575928‑1576222

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑