Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	6,964	0	A	C	45.0%	59.1 / 11.3	40	G332G (GGT→GGG)	yaaJ	putative transporter
Reads supporting (aligned to +/- strand):  ref base A (18/4);  new base C (0/18);  total (18/22)
Fisher's exact test for biased strand distribution p-value = 6.80e-08
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TGTTCAGGCGTAAAAAGAAGAGATTGTTTTCGGCATAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACAAGGG‑TAACAAA‑CTCAGCACCCCAGGAACCC‑ATTAGCACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGTAGGTTGTGCCGTTACCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGACCAGGGTGTCGATAAAAATGCCAATCATCTGGACAATCCCTTGCGCTGCCGGATGCGGAGGCCAGGACGCCGCTGC  >  NC_000913/6816‑7110                                                                                                                                                        |                                                                                                                                                   tgttCAGGCGTAAAAAGAAGAGATTGTTTTCGGCATAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACAAGGG‑TAACAAA‑CTCAGCACCCCAGGAACCC‑ATTAGCACCCGCATCGCCTTCTGGATAAGCTGAATAcc                                                                                                                                                  >  2:772249/1‑151 (MQ=255)    tCAGGCGTAAAAAGAAGAGATTGTTTTCGGCATAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACAAGGG‑TAACAAA‑CTCAGCACCCCAGGAACCC‑ATTAGCACCCGCATCGCCTTCTGGATAAGCTGAATACCTTc                                                                                                                                               >  2:477095/1‑151 (MQ=255)     cAGGCGTAAAAAGAAGAGATTGTTTTCGGCATAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACAAGGG‑TAACAAA‑CTCAGCACCCCAGGAACCC‑ATTAGCACCCGCATCGCCTTCTGGATAAGCTGAATACCTTc                                                                                                                                               <  2:748101/150‑1 (MQ=255)             aaaaGAAGAGATTGTTTTCGGCATAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACAAGGG‑TAACAAA‑CTCAGCACCCCAGGAACCC‑ATTAGCACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCAt                                                                                                                                      >  2:531162/1‑151 (MQ=255)                agaagaGATTGTTTTCGGCATAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACAAGGG‑TAACAAA‑CTCAGCACCCCAGGAACCC‑ATTAGCACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGt                                                                                                                                    >  2:368369/1‑150 (MQ=255)                    gagaTTGTTTTCGGCATAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACAAGGG‑TAACAAA‑CTCAGCACCCCAGGAACCC‑ATTAGCACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGTAGGtt                                                                                                                               >  2:616958/1‑151 (MQ=255)                     agaTTGTTTTCGGCATAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACAAGGG‑TAACAAA‑CTCAGCACCCCAGGAACCC‑ATTAGCACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGTAGGtt                                                                                                                               >  1:629502/1‑150 (MQ=255)                             ttCGGCATAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACAAGGG‑TAACAAA‑CTCAGCACCCCAGGAACCC‑ATTAGCACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGTAGGTTGTGCCGtt                                                                                                                       <  2:510132/150‑1 (MQ=255)                              tCGGCATAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACAAGGG‑TAACAAA‑CTCAGCACCCCAGGAACCC‑ATTAGCACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGTAGGTTGTGCCGTTAc                                                                                                                     >  2:422450/1‑151 (MQ=255)                                ggCATAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACAAGGG‑TAACAAA‑CTCAGCACCCCAGGAACCC‑ATTAGCACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGTAGGTTGTGCCGTTAccc                                                                                                                   >  1:792042/1‑151 (MQ=255)                                   aTAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACAAGGG‑TAACAAA‑CTCAGCACCCCAGGAACCC‑ATTAGCACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGTAGGGTGTGCCGGTACCCGc                                                                                                                 >  2:83882/1‑150 (MQ=255)                                     aaaTGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACAAGGG‑TAACAAA‑CTCAGCACCCCAGGAACCC‑ATTAGCACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGTAGGTTGTGCCGTTACCCGcc                                                                                                                >  2:431748/1‑149 (MQ=255)                                               ggaaaCGAGGGAGCTGAAGGAAAAAAAAATAACCACAAGGG‑TAACAAA‑CTCAGCCCCCCAGAACCCT‑ATTAGCCCCCGCTTCCCCTTCTGGATAAGCTAAATCCCTTCCAGCGGCATGTAGGTTGTGCGTTTACCCGCCAGTAATATCAGc                                                                                                    <  1:170909/148‑1 (MQ=255)                                                         gAGCGGAAGGCAAACAAAAAAACCACAAGGT‑AAAAAAA‑CTCAGCCCCCCAGGAACCC‑TTAAGCCCCCGCCTCCCCTTCTGAATAAGCTTAATCCCTCCCAGCGGCGTGTGGGTTGTGCCTTTACCCGCCAGTAATATCAGCATGGCGCTTg                                                                                          <  1:796557/151‑1 (MQ=255)                                                            cTGAAGGCAAACAGAATAACCACAAGGG‑TAACAAA‑CTCAGCACCCCAGGAACCC‑ATTAGCACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGTAGGTTGTGCCGTTACCCGCCAGTAATATCAGCATGGCGCTTGCCg                                                                                       >  1:91603/1‑151 (MQ=255)                                                               aaGGAAAACAAAATAACCAC‑AGGG‑TAAAAAACCTCCGCCCCCCAGAACCCC‑TTAAGCCCCCGCATCGCTTTCGGGAAAAGCTAAATCCTTCCCAGCGGCTTGTAGGTTGCGCCGTTCCCCGCCAGTAATATCAGCATGGCGCTTGCCGt                                                                                      <  1:403110/149‑1 (MQ=255)                                                                 ggaaaaaaaaaTACCCAAAGGGG‑TAAAAAC‑CCCACCCCCCCAGAACCCA‑ATTAGCCCCCGCCTCGCCTTCTGGATAAGCTAAATCCCTCCCAGGGGAATGTGGGTTGTGCCGTTCCCCGCCAGTAATATCAGCATGGCGCTTGCCGTACa                                                                                   <  2:120142/141‑1 (MQ=255)                                                                    aaaCAGAATACCCACAGGGG‑AAAAAAC‑CTCACCCCCCCAGGACCCC‑ATTAGCCCCCGCATCGCCTTCTGGAAAAGCTAAATCCCTCCCGGCGGCATGTAGGTTGGGCCTTTCCCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATg                                                                               <  2:133244/151‑1 (MQ=255)                                                                      aacaaaacaccaccAGGGCTAACAAC‑CTCACCCCCACAGTACCCT‑TTTCCCACCCGCATCCCCTTCTGTAAAAGTTGAATCCCCTCCAGCGTATTTTGGGTTGTGCCGTTCCCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGAt                                                                                <  1:720791/141‑1 (MQ=255)                                                                       aaGAAAAACCAAAAGGT‑AAAAAAA‑CCCACCCCCCCAGAACCCC‑ATTAGCCCCCGCATCCCCTTCTGGAAAAGCTGAATCCCTCCCAGCGGCATGTAGGTGGTGCCGTTCCCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGAcc                                                                            <  1:345071/150‑1 (MQ=255)                                                                        aaaaaaacaacAAGGA‑AACCAAA‑CCCAGCACCCAAGAACCCC‑ATTCGCACCCGCACCGCCTTGGGGATAGCATGAATACCTTCCAGCGGCATGTGGGTTGTGCTGTTCCCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGACCa                                                                           <  2:165385/146‑1 (MQ=255)                                                                        aGAATAACCACAAGGG‑TAACAAA‑CTCAGCACCCCAGGAACCC‑ATTAGCACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGTAGGTTGTGCCGTTACCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGAcc                                                                            >  1:18533/1‑150 (MQ=255)                                                                         aaaTACCCAAAAGGA‑AAAAAAA‑CCCAGCCCCCCAGAACCCC‑ATTAGCCCCCGCTTCGCCTTCGGGAAAAGCTAAATCCCTCCCGGGGGCATGTAGGTTGTGCGGTTCCCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGACCAg                                                                          <  1:772220/150‑1 (MQ=255)                                                                          aaTACCCACAAGGG‑TAACAAA‑CTCAGCCCCCCAGGACCCA‑ATTAGCCCCCGCATCGCCTTCTGAATAAGCTAAATCCCTCCCAGCGGCATGTAGGTTGGGCCGTTACCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGACCAgg                                                                         <  2:151872/151‑1 (MQ=255)                                                                           aTACCCAAAAGGG‑AAAAAAA‑CCCACCCCCCCAGGACCCA‑ATAGGCCCCCGCATCGCCTTTGGGATAAGCGAAATCCCTCCCAGCGGCATGTAGGTGGTCCCTTTCCCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGACCAggg                                                                        <  1:841881/151‑1 (MQ=255)                                                                           aTAACCACAAGGG‑TAACAAA‑CTCAGCACCCCAGGAACCC‑ATTAGCACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGTAGGTTGTGCCGTTACCCGCCAGTAATATCa                                                                                                      >  2:853321/1‑121 (MQ=255)                                                                           aTAACCACAAGGG‑AAACAAA‑CCCAGCCCCCCAGAAACCC‑ATTAGCACCCGCATCGCCTTCTGAAAAAGCTGAATCCCTCCCAGCGGCATGTGGGTGGTGCCGTTACCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGACCAg                                                                          <  1:368346/149‑1 (MQ=255)                                                                             aaCCACAAGGG‑TAACAAA‑CTCAGCACCCCAGGAACCC‑ATTAGCACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGTAGGTTGTGCCGTTACCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGACCAGGgtg                                                                      >  2:330194/1‑151 (MQ=255)                                                                                cacaAGGG‑TAACAAA‑CTCAGCACCCCAGGAACCC‑ATTAGCACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGTAGGTTGTGCCGTTACCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGACCAGGGTGTCg                                                                   >  1:252635/1‑151 (MQ=255)                                                                                 acaAGGG‑AAACAAA‑CACACCCCCCAAGGACCCC‑ATTACCCCCCCCACCTCCTTCGGTATAGGCTAAATCCCTTCCAGCGGCTTTTAGTTTGTGCCGTTCCCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGACCAGGGTGTc                                                                    <  1:797194/149‑1 (MQ=255)                                                                                               accccacccccccAGGAACCC‑ATTACCCCCCGCTCCGCCTTCTGAAGAAGTTAAATCCCTCCCAGCGGATTGTAGGTTGTGCCTTTCCCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGACCAGGGTGTCGATAAAAATGCCaa                                                      <  2:422363/142‑1 (MQ=255)                                                                                                  cccaccccccAAGAACCCAATAAGCCCCCGCATCGCCTTTGGGAAAGGCTAAATCCCTCCCAGGGGAATGTGGGTTGGCCCGTTACCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGACCAGGGTGTCGATAAAAATGCCAat                                                     <  1:432830/144‑1 (MQ=255)                                                                                                      ccccccAGGACCCC‑ATTAGCCCCCGCATCGCCTTCGGGATAAGCTGAATCCCTCCCGGCGGATTGTGGGTTGGGCCGTTCCCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGACCAGGGTGTCGATAAAAATGCCAATCATCt                                                <  2:282563/148‑1 (MQ=255)                                                                                                      ccccccAGAAACCC‑ATTAGCCCCCGCCTCCCCTTCTGGATAAGCTGAATCCCTCCCAGCGGAATGGAGGTTGGGCCGTTACCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGACCAGGGTGTCGATAAAAATGCCAATCATCt                                                <  1:306739/148‑1 (MQ=255)                                                                                                          caagcaaCCA‑ATTACCCCCCGCATCGCCTCCAGATCACGGTGAAAACCCTCGAGCAGCATGTTGGTTGTGCCTTTGCCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGACCAGGGTGTCGATAAAAATGCCAATCATCTGGACa                                           <  1:841755/146‑1 (MQ=255)                                                                                                               acccc‑ATTGCCCCCCGCACCGCCTTCGGGAAAGGCTAAATCCCTCCCGGGGGCATGTGGGTTGTGCCTTTACCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGACCAGGGTGTCGATAAAAATGCCAATCATCTGGACaa                                          <  1:655185/145‑1 (MQ=255)                                                                                                                         gCACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGTAGGTTGTGCCGTTACCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGACCAGGGTGTCGATAAAAATGCCAATCATCTGGACAATCCCTTGCGCTGc                             >  2:592501/1‑151 (MQ=255)                                                                                                                                cATCGCCTTCTGGATAACATAAACCCCTCCCAGGGCCTTGTAGGTTGGGCTGTTCCCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGACCAGGGTGTCGATAAAAATGCCAATCATCTGGACAATCCCTTGCGCTGCCGGATGc                      <  1:97774/151‑1 (MQ=255)                                                                                                                                               aaGCTGAATACCTTCCAGCGGCATGTAGGTTGTGCCGTTACCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGACCAGGGTGTCGATAAAAATGCCAATCATCTGGACAATCCCTTGCGCTGCCGGATGCGGAGGCCAGGAcgcc       >  1:310313/1‑151 (MQ=255)                                                                                                                                                    gAATACCTTCCAGCGGCATGTAGGTTGTGCCGTTACCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGACCAGGGTGTCGATAAAAATGCCAATCATCTGGACAATCCCTTGCGCTGCCGGATGCGGAGGCCAGGACgccgctgc  >  2:359793/1‑151 (MQ=255)                                                                                                                                                        |                                                                                                                                                   TGTTCAGGCGTAAAAAGAAGAGATTGTTTTCGGCATAAATGTAGTTGGCAACGATGGAGCTGAAGGCAAACAGAATAACCACAAGGG‑TAACAAA‑CTCAGCACCCCAGGAACCC‑ATTAGCACCCGCATCGCCTTCTGGATAAGCTGAATACCTTCCAGCGGCATGTAGGTTGTGCCGTTACCCGCCAGTAATATCAGCATGGCGCTTGCCGTACAGATGACCAGGGTGTCGATAAAAATGCCAATCATCTGGACAATCCCTTGCGCTGCCGGATGCGGAGGCCAGGACGCCGCTGC  >  NC_000913/6816‑7110

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑