Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	75,091	0	G	T	55.2%	19.0 / 41.1	29	D130E (GAC→GAA)	thiB	thiamine/thiamine pyrophosphate/thiamine monophosphate ABC transporter periplasmic binding protein
Reads supporting (aligned to +/- strand):  ref base G (3/10);  new base T (15/1);  total (18/11)
Fisher's exact test for biased strand distribution p-value = 2.61e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.92e-06

CGCCATAGACTTTTTGCATCCATAGCAACAGACCCAGCCCCGGTGTACTGGTGCGCGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGTTTTTCAGTTTGTTCTTGTCATAAACGAAGGCGAAGTAGCCATAA‑TC‑AAACGGTACGAAAGTGTCATTATTCCAGCCGCCGGGAACGTTAACGGCATCCGCTGCCACACCGCTTTTGGCAAACAGTCCGGTTTTACTGGCGGCGTCTAACAGGTTGTTATCCAGCCC  >  NC_000913/74952‑75240                                                                                                                                            |                                                                                                                                                        cGCCATAGACTTTTTGCATCCATAGCAACAGACCCAGCCCCGGTGTACTGGTGCGCGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGGTTTTTTGTTTTTTTTTTTCTTAAAAGaa                                                                                                                                              >  1:605715/1‑151 (MQ=255)   ccATAGACTTTTTGCATCCATAGCAACAGACCCAGCCCCGGTGTACTGGTGCGCGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGTTTTTTAGTTTTTTTTTTTTATTAAAGaaag                                                                                                                                            >  2:682215/1‑149 (MQ=255)          cTTTTTGCATCCATAGCAACAGACCCAGCCCCGGTGTACTGGTGCGCGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGTTTTTCAGTTTGTTCTTGTCATAAACGAAGGCGAAGTa                                                                                                                                     <  1:653586/151‑1 (MQ=255)                   cccATAGCAACAGCCCCAGCCCCGGTGTACTGGTGCGCGGTTCCTGATAAATCCCCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGTTTTTCAGTTTGTTCTTGTCATAAACGAAGGCGAAGTAGCCATAA‑Tc                                                                                                                           <  1:128509/150‑1 (MQ=255)                            aCAGACCCAGCCCCGGTGTACTGGTGCGCGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGGTTTTTTGTTTTTTTTTTTTTTAAAAGAAAGCGGAGAAGCCATAA‑TC‑AAAAggga                                                                                                                  >  2:150794/1‑148 (MQ=255)                               aaCCCAGCCCCGGTGTGCTGGAGCGCGGATCTTAATAAATCACCCGCCAATTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGTGTTTGTCAGTTTGTTCTTGTCATAAACGAATGCGAATTAGCCATAA‑TC‑AGACGGTACGaa                                                                                                              <  1:662414/150‑1 (MQ=255)                                aCCCAGCCCCGGTGTACTGGTGCGCGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGGTTTTTAATTTTTTTTTTTCTTAAAAAAAGAGCAAGTAGCCCTAATTC‑CAACGG‑ACGaaa                                                                                                             >  1:742637/1‑151 (MQ=255)                                 cccAGCCCGGGTGTACTGGTGCGCGGTTCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGTTTTTCAGTTTGTTCTTGTCATAAACGAAGGCGAAGTAGCCATAA‑TC‑AAACGGTACGAAAg                                                                                                            <  1:48846/151‑1 (MQ=255)                                 cccAGCCCCGGTGTACTGGTGCGCGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGTTTTTCAGTTTGTTCTTGTCATAAACGAAGGCGAAGTAGCCATAA‑TC‑AAACGGTACGAAAg                                                                                                            <  2:323803/151‑1 (MQ=255)                                        ccGGTGTACTGGTGCGCGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGGTTTTTAGGTTGTTTTTTTCATAAAAGAAGGGGAAGGAGGCATAA‑TC‑AAAAGGGAAGaaaagggcatt                                                                                                     >  2:61988/1‑143 (MQ=255)                                           gtgtACTGGTGCGCGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGGTTTTTTGTTTTTTTTTTTCATAAACGAAGGGGAAGTAGCCCTAA‑TC‑AAAAGGTACGAAAGAGTCattatt                                                                                                  >  2:375833/1‑151 (MQ=255)                                           gtgtACTGGTGCGCGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGGTTTTTCGTTTTTTTTTTTCATTAACGAAAGGGGAGTAGCCCTAA‑ACAAAACGGTAGGAAAG‑GTCattttt                                                                                                  >  2:352785/1‑151 (MQ=255)                                           gtgtACTGGTGCGCGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGGTTTTCAGTTTGTTTTTTTCATAAAAGAAGGCGAAGTAGCCATAA‑TC‑AAAAGGTACGAAAGTGTCattatt                                                                                                  >  2:792140/1‑151 (MQ=255)                                             gtACTGGTGCGCGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGTTTTTTAGTTTTTTTTTTTCTTAAACAAAAGGGAAGGAGGCCTAA‑TC‑AAAAGGGACGAAAGAGTCattattt                                                                                                 >  2:742254/1‑149 (MQ=255)                                             gtACTGGTGCGCGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGGTTTTTAGTTTGTTCTTTTCATAAAAGAAGGCGAAGTAGGCATAA‑TC‑AAAAGGGACGAAAGAGTCatttttt                                                                                                 >  2:778635/1‑149 (MQ=255)                                                     gcgcGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGGTTTTTAGGTTTTTCCTTTCATAAAACAAGGCGGAGGAGCCATAA‑TC‑AAACAGGACGAAAGTGTGATTATTTCAGcccccg                                                                                        >  2:725188/1‑151 (MQ=255)                                                          gATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGTTTTTTAGTTTTTTTTTTTCATAAACGAAGGCGAAGTAGCCATAA‑TC‑AAACGGGACGAAAGTGTCATTATTTCAGCCGCCGGGaaa                                                                                   >  2:712521/1‑150 (MQ=255)                                                              cTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGTTTTTTTGTTTTTTTTTTTCATTAAAAAAGGCGGAGTAGGCATAA‑TC‑AAACAGGACGAAAGGGTCATTATTTCAGCCGCCgggggaggta                                                                               >  1:159251/1‑144 (MQ=255)                                                                  tAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGTTTTTCAGTTTGTTCTTGTCATAAACGAAGGCGAAGTAGCCATAA‑TC‑AAACGGTACGAAAGTGTCATTATTCCAGCCGCCGGGAACGTTAACgg                                                                           <  2:477790/151‑1 (MQ=255)                                                                                           tctcAACCAGTTCTTTCAGGCTTTGTGGCGGGTTTTTCAGTTTGTTCTTGTCATAAACGAAGGCGAAGTAGCCATAA‑TC‑AAACGGTACGAAAGTGTCATTATTCCAGCCGCCGGGAACGTTAACGGCATCCGCTGCCACACCGCTTTTGGc                                                  <  1:594094/151‑1 (MQ=255)                                                                                                    gTTCTTTCAGGCTTTGTGGCGGGTTTTTTAGTTTGTTTTTTTTATAAAAGAAGGCGAAGGAGCTATAA‑TC‑AAACGGGACGAAAGGGTTATTATTTCAACCGCCGGGGAAGGTAACGGCATCCGCCGCCCCACCGCCTTTTGCAAAAAGTc                                          >  2:295851/1‑150 (MQ=255)                                                                                                       cTTTCAGGCTTTGTGGCGGGGTTTTTCGTTTTTTTTTTTTATAAAACAAGGGGAAAAAGGCATAA‑TT‑AAAAGGTAAGAAAGTGTCATTTTTTCAGGCGCCCGGGAAGGTAACAGGATCCCCCGCCCCACCCCTTTTTGCCAAAAATCCggg                                      >  1:371218/1‑150 (MQ=255)                                                                                                         ttCAGGCTTTGTGGCGGGTTTTTCAGTTTGTTCTTGTCATAAACGAAGGCGAAGTAGCCATAA‑TC‑AAACGGTACGAAAGTGTCATTATTCCAGCCGCCGGGAACGTTAACGGCATCCGCTGCCACACCGCTTTTGGCAAACAGTCCGGttt                                    <  2:483353/151‑1 (MQ=255)                                                                                                                           tttttCAGTTTGTTCTTGTCATAAACGAAGGCGAAGTAGCCATAA‑TC‑AAACGGTACGAAAGTGTCATTATTCCAGCCGCCGGGAACGTTAACGGCATCCGCTGCCACACCGCTTTTGGCAAACAGTCCGGTTTTACTGGCGGCGTCTAAc                   <  1:150794/150‑1 (MQ=255)                                                                                                                                    ttGTTCTTGTCATAAACGAAGGCGAAGTAGCCATAA‑TC‑AAACGGTACGAAAGTGTCATTATTCCAGCCGCCGGGAACGTTAACGGCATCCGCTGCCACACCGCTTTTGGCAAACAGTCCGGTTTTACTGGCGGCGTCTAACAGGTTGTTAt         >  1:39943/1‑151 (MQ=255)                                                                                                                                    ttGTTCTTGTCATAAACGAAGGCGAAGTAGCCATAA‑TC‑AAACGGTACGAAAGTGTCATTATTCCAGCCGCCGGGAACGTTAACGGCATCCGCTGCCACACCGCTTTTGGCAAACAGTCCGGTTTTACTGGCGGCGTCTAACAGGTTGTTAt         >  1:485606/1‑151 (MQ=255)                                                                                                                                     tGTTCTTTTCATAAACGAAGGCAAAGTAGCCATAA‑TC‑AAACGGTACGAAAGTGTCATTATTCCATCCGCCGGGAACGTTAACGGCATCCGCTGCCACACCGCTTTTGGCAAACAGTCCGGTTTTACTGGCGGCGTCTAACAGGTTGTTATc        <  1:843051/151‑1 (MQ=255)                                                                                                                                      gTTCTTGTCATAAACGAAGGCGAAGTAGCCATAA‑TC‑AAACGGTACGAAAGTGTCATTATTCCAGCCGCCGGGAACGTTAACGGCATCCGCTGCCACACCGCTTTTGGCAAACAGTCCGGTTTTACTGGCGGCGTCTAACAGGTTGTTATc        >  1:51880/1‑150 (MQ=255)                                                                                                                                           tGTCATAAACGAAGGCGAAGTAGCCATAA‑TC‑AAACGGTACGAAAGTGTCATTATTCCAGCCGCCGGGAACGTTAACGGCATCCGCTGCCACACCGCTTTTGGCAAACAGTCCGGTTTTACTGGCGGCGTCTAACAGGTTGTTATCCAGccc  <  2:796257/151‑1 (MQ=255)                                                                                                                                            gTCATAAACGAAGGCGAAGTAGCCATAA‑TC‑AAACGGTACGAAAGTGTCATTATTCCAGCCGCCGGGAACGTTAACGGCATCCGCTGCCACACCGCTTTTGGCAAACAGTCCGGTTTTACTGGCGGCGTCTAACAGGTTGTTATCCAGccc  >  1:587411/1‑150 (MQ=255)                                                                                                                                            gTCATAAACGAAGGCGAAGTAGCCATAA‑TC‑AAACGGTACGAAAGTGTCATTATTCCAGCCGCCGGGAACGTTAACGGCATCCGCTGCCACACCGCTTTTGGCAAACAGTCCGGTTTTACTGGCGGCGTCTAACAGGTTGTTATCCAGccc  >  1:466891/1‑150 (MQ=255)                                                                                                                                            |                                                                                                                                                        CGCCATAGACTTTTTGCATCCATAGCAACAGACCCAGCCCCGGTGTACTGGTGCGCGGATCCTGATAAATCACCCGCCAGTTTTGATCGCTCTCAACCAGTTCTTTCAGGCTTTGTGGCGGGTTTTTCAGTTTGTTCTTGTCATAAACGAAGGCGAAGTAGCCATAA‑TC‑AAACGGTACGAAAGTGTCATTATTCCAGCCGCCGGGAACGTTAACGGCATCCGCTGCCACACCGCTTTTGGCAAACAGTCCGGTTTTACTGGCGGCGTCTAACAGGTTGTTATCCAGCCC  >  NC_000913/74952‑75240

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑