Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,397,830	0	T	C	48.8%	30.6 / 13.1	43	I265V (ATT→GTT)	uspE	stress‑induced protein
Reads supporting (aligned to +/- strand):  ref base T (11/11);  new base C (0/21);  total (11/32)
Fisher's exact test for biased strand distribution p-value = 1.84e-04
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TTCGTCATCCAGTTCAACGGGTGTCTGATACTGGTCAGGTTTAATGACCAGCAGGTCGCAGCGAAGATGATCAATCACCTGTTCCGCC‑GTGTTGCCGAGGAATGCTGCTGAAATACCGGTGCGTCCTACCGTGCCCAGAACCACAATCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCTCTTCTGGCAGACCTTTTTCTACGTGCGTCATGTTTTCATTAATGCCGAATTTCTGCCGCAGGGCTTTCATTGCCAGCAAATGTTGCCCACGAATGGCATCGTTATAAA  >  NC_000913/1397684‑1397976                                                                                                                                                    |                                                                                                                                                   ttcGTCATCCAGTTCAACGGGTGTCTGATACTGGTCAGGTTTAATGACCAGCAGGTCGCAGCGAAGATGATCAATCACCTGTTCCGCC‑GTGTTGCCGAGGAATGCTGCTGAAATACCGGTGCGTCCTACCGTGCCCAGAACCACAATcccc                                                                                                                                                >  1:329270/1‑151 (MQ=255)      cATCCAGTTCAACGGGTGTCTGATACTGGTCAGGTTTAATGACCAGCAGGTCGCAGCGAAGATGATCAATCACCTGTTCCGCC‑GTGTTGCCGAGGAATGCTGCTGAAATACCGGTGCGTCCTACCGTGCCCAGAACCACAATCCCCGCCTg                                                                                                                                           <  1:373053/151‑1 (MQ=255)                 aCGGGTTTTTGATACGGGTCAGGTTTAATGACCAGCAGGTCGCAGCGAAGATGATCACTCCCCTTTCCCGCC‑GTTTTGCCGAGGAATGCTGCTAAAATCCCGGTGCGTCCTACCGTGCCCAAAACCACAATCCCCGCCTGTAAGTGCt                                                                                                                                   <  2:690094/148‑1 (MQ=255)                    ggTGTCTAATACTGCTCAGGTTTAATGACCAGCAGGTCGAAGCGAAGATGATCAATCCCCTGTTCCGCC‑GTTTTGCCGAGGAAGGCTGCTGAAATACCGGTGCGTCCTACCGTGCCCAAACCCAAAACCCCCGCCTGTAAGTGCTCCGcc                                                                                                                              <  1:203090/150‑1 (MQ=255)                            atatTGGCCAGTTTTAATGCCCAGCGGGCGGCAGCGAAGACGATCAATCCCCTGTTCCCCG‑CTTTTCCAGAGGAATGTTGCGAAAATCCCGTTGCGTCCCACCTCCCCCACAACCACACCCCCCGCCTGTAAGTGCTCCGCCAAATCa                                                                                                                        <  2:7091/148‑1 (MQ=255)                                  gTCAGTTTAAATGCCCAGCAGGTCGCAGCGAAGATGATCAATCCCCTTTCCCGCC‑GTGTTGCCGAGAAATGCTGCTAAAATCCCGGGGCGCCCTACCGGGCCAAAAACCACAACCCCCGCCTGTAAGTGCTCCGCCAAATCAGGaa                                                                                                                    <  2:457422/146‑1 (MQ=255)                                     aGGTTTAATGACCAGCAGGTCGCAGCGAAGATGATCAATCACCTGTTCCGCC‑GTGTTGCCGAGGAATGCTGCTGAAATACCGGTGCGTCCTACCGTGCCCAGAACCACAATCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACctct                                                                                                            >  1:144918/1‑151 (MQ=255)                                     aGGTTTAATGACCAGCAGGTCGCAGCGAAGATGATCAATCACCTGTTCCGCC‑GTGTTGCCGAGGAATGCTGCTGAAATACCGGTGCGTCCTACCGTGCCCAGAACCACAATCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACctct                                                                                                            >  2:234319/1‑151 (MQ=255)                                        tttAAGGCCCACCGGGCCGAAGCGAAGATGATCAATCCCCTGTTCCGCG‑GTGTCGCCGAGGAATGCTGCTAAAATCCCGGTGCCCCCTACCGTGCCAAGACCCACATTCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCtctt                                                                                                           <  2:502737/149‑1 (MQ=255)                                        ttaaaTGCCAAGCAGGTCGCAGCGAAGATGATCACCCCCCTGTTCCGCC‑GTGTTGCGGAGGAATCCTGCTAAAATCCCGGTGCGTCCTACCGTGCCCAGACCCACAATCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCtcttc                                                                                                          <  2:338539/147‑1 (MQ=255)                                         taaaTGCCCAGCAGGTCGCAGCGAAGATGATCAACCCCCTGTCCCGCC‑GTGTGGCCGAGAAAGGCGGCGAAAATGCCGGGGCTCCCTACCGTCCCAAGAACCACAACCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCtcttcg                                                                                                         <  2:464840/148‑2 (MQ=255)                                           aaTGACCAGCAGGGCCCAGCAAAGAGGATCAATCCCCTGTCCCGCC‑GTTTTGCGGAGGAATGCTGCTGAAATCCCGGTGCGTCCTCCCGTGCCCAGACCCAAAATCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCtcttct                                                                                                         <  1:126297/148‑1 (MQ=255)                                                    cggggcGCAGGAAAGATGATCAATCCCCTGTCCCGCC‑GTGTTGCGGAGGAATGCTGCTAAAATCCCGGGGCGCCCTACCGTGCCCAGAACCACAACCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCTCTTCTGGCAGAcc                                                                                                 <  2:231449/142‑1 (MQ=255)                                                      ggTCGCGGCGAAGATGACAAACCCCCTGTCCCGCC‑GTGTTGCCGAGAAATGCTGCTAAAATCCCGGTGCGCCCTCCCGTGCCCAAACCCCCAACCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCTCTTCTGGCAGACCtttt                                                                                             <  2:424448/149‑1 (MQ=255)                                                      ggTCGCAGCAAAGATGTCCAACCCCCTGTTCCCCC‑GTGTTCCCGAGAAATGCTGCTGAAATCCCGGTGCGTCCTACCGCCCCAAAACCCCCAACCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCTCTTCTGGCAGACCtttt                                                                                             <  1:673221/149‑1 (MQ=255)                                                                aggatgaaCAACCCCCTGTCCCGCC‑GTGTTGCCGAGGAATGCGGCTGAAATACCGGGGCGTCCTACCGTGCCCAGACCCACAACCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCTCTTCTGGCAGACCTTTTTCTACGTGCGTc                                                                                 <  2:85336/149‑1 (MQ=255)                                                                  gatgatCAATCACCTGTTCCGCC‑GTGTTGCCGAGGAATGCTGCTGAAATACCGGTGCGTCCTACCGTGCCCAGAACCACAATCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCTCTTCTGGCAGACCTTTTTCTACGTGCGTCAt                                                                               >  1:285426/1‑151 (MQ=255)                                                                         aatccCCTGTTCCGCC‑GTTTTGCCGAGGAATGCTGCTGAAATACCGGTGCGTCCTACCGTGCCCAGACCCACAACCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCTCTTCTGGCAGACCTTTTTCTACGTGCGTCATGtttt                                                                          <  1:29287/149‑1 (MQ=255)                                                                            caccttccccgcg‑gTTTTCCAGAGAAATGCTGCTGAAATCCCGGTGGTCCCTCCGGTGCCAAGACCCCAAACCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCTCTTCTGGCAGACCTTTTTCTACGTGCGTCATGTTTTCAtt                                                                      <  1:481463/142‑1 (MQ=255)                                                                                tGTTCCGCC‑GTGTTGCCGAGGAATGCTGCTGAAATACCGGTGCGTCCTACCGTGCCCAGAACCACAATCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCTCTTCTGGCAGACCTTTTTCTACGTGCGTCATGTTTTCATTAATg                                                                  >  2:448327/1‑150 (MQ=255)                                                                                ctttCCGCCGGTGTTGAACAGAATTGCTGCTGAAATCCCGTTGCTCCTTACGGGGCCCTTACCCAATGTCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCTCTTCTGGCAGACCTTTTTCTACGTGCGTCATGTTTTCATTAAt                                                                   <  2:257861/148‑1 (MQ=255)                                                                                  tcccgcc‑gTGTGGCAGAGGAATGCTGCTGAAATACCGGTGCCCCTTACCGTCCCCAGAACCACAATCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCTCTTCTGGCAGACCTTTTTCTACGTGCGTCATGTTTTCATTAATGc                                                                 <  1:273117/147‑1 (MQ=255)                                                                                    ccgcc‑gGGTTGCCGGGGAATGCTGCTAAAAATCCGGGGCCTCCCTCCGGGCCCAAAACCCAAACCCCCGCCTGTAAGTGCTCCGGCAAATCAGGAATTCCCTCTTCTGGCAGACCTTTTTCTACGTGCGTCATGTTTTCATTAATGCCGaa                                                             <  2:619507/151‑1 (MQ=255)                                                                                             ttGCCGAGGAATGCTGCTGAAATACCGGTGCGTCCTACCGTGCCCAGAACCACAATCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCTCTTCTGGCAGACCTTTTTCTACGTGCGTCATGTTTTCATTAATGCCGAATTTCTGcc                                                     >  1:144413/1‑151 (MQ=255)                                                                                             ttGCCGAGGAATGCTGCTGAAATACCGGTGCGTCCTACCGTGCCCAGAACCACAATCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCTCTTCTGGCAGACCTTTTTCTACGTGCGTCATGTTTTCATTAATGCCGAATTTCTGcc                                                     >  1:551371/1‑151 (MQ=255)                                                                                                    ggAATGCTGCTGAAATCCCGGTGCGTCCTCCCGTGCCCAGACCCACAACCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCTCTTCTGGCAGACCTTTTTCTACGTGCGTCATGTTTTCATTAATGCCGAATTTCTGCCGCAgg                                                <  1:16275/149‑1 (MQ=255)                                                                                                      aaTGCTGTTAAAATCCCGGTGCGTCCTACCGTCCCCACAACCACAACCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCTCTTCTGGCAGACCTTTTTCTACGTGCGTCATGTTTTCATTAATGCCGAATTTCTGCCGCAGGGc                                              <  2:326537/149‑1 (MQ=255)                                                                                                       aTGCTGCTAAAATCCCGGTGCGTCCTCCCGTCCCCAGACCCACAACCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCTCTTCTGGCAGACCTTTTTCTACGTGCGTCATGTTTTCATTAATGCCGAATTTCTGCCGCAGGGCttt                                           <  2:433840/151‑1 (MQ=255)                                                                                                           tgctgAAATCCCGGTGCTCCCTCCCGTCCCCAGACCCACAACCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCTCTTCTGGCAGACCTTTTTCTACGTGCGTCATGTTTTCATTAATGCCGAATTTCTGCCGCAGGGCTTTCa                                         <  1:424984/149‑1 (MQ=255)                                                                                                               aaaaTCCCGTTGCTCCCTACCGTGCCCAAACCCACAACCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCTCTTCTGGCAGACCTTTTTCTACGTGCGTCATGTTTTCATTAATGCCGAATTTCTGCCGCAGGGCTTTCATTGcc                                    <  1:284059/149‑1 (MQ=255)                                                                                                                aaaTCCCGGTGCGTCCTCCCGTCCCCAGACCCACAATCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCTCTTCTGGCAGACCTTTTTCTACGTGCGTCATGTTTTCATTAATGCCGAATTTCTGCCGCAGGGCTTTCATTGCCAg                                  <  1:468848/151‑1 (MQ=255)                                                                                                                   tACCGGTGCGTCCTACCGTGCCCAGAACCACAATCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCTCTTCTGGCAGACCTTTTTCTACGTGCGTCATGTTTTCATTAATGCCGAATTTCTGCCGCAGGGCTTTCATTGCCAGCa                                >  1:446/1‑150 (MQ=255)                                                                                                                        ggcggcccTCCCGTGCCAAAACCCCCAATCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCTCTTCTGGCAGACCTTTTTCTACGTGCGTCATGTTTTCATTAATGCCGAATTTCTGCCGCAGGGCTTTCATTGCCAGCAAATGt                           <  2:68872/144‑1 (MQ=255)                                                                                                                        gTGCGTCCTACCGTGCCCAGAACCACAACCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCTCTTCTGGCAGACCTTTTTCTACGTGCGTCATGTTTTCATTAATGCCGAATTTCTGCCGCAGGGCTTTCATTGCCAGCAAATGtt                          <  1:109870/151‑1 (MQ=255)                                                                                                                           cGTCCTACCGTGCCCAGAACCACAATCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCTCTTCTGGCAGACCTTTTTCTACGTGCGTCATGTTTTCATTAATGCCGAATTTCTGCCGCAGGGCTTTCATTGCCAGCAAATGTTGcc                       >  2:419488/1‑151 (MQ=255)                                                                                                                                  ccGTGCCCAGAACCACAATCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCTCTTCTGGCAGACCTTTTTCTACGTGCGTCATGTTTTCATTAATGCCGAATTTCTGCCGCAGGGCTTTCATTGCCAGCAAATGTTGCCCACGAAt                <  2:719534/151‑1 (MQ=255)                                                                                                                                  ccGTGCCAAGAACCACAACCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCTCTTCTGGCAGACCTTTTTCTACGTGCGTCATGTTTTCATTAATGCCGAATTTCTGCCGCAGGGCTTTCATTGCCAGCAAATGTTGCCCACGa                  <  2:231519/149‑1 (MQ=255)                                                                                                                                   cGTGCCCAGCCCCACAATCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCTCTTCTGGCAGACCTTTTTCTACGTGCGTCATGTTTTCATTAATGCCGAATTTCTGCCGCAGGGCTTTCATTGCCAGCAAATGTTGCCCACg                   <  2:659086/147‑1 (MQ=255)                                                                                                                                   cGTGCCCAGACCCACAACCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCTCTTCTGGCAGACCTTTTTCTACGTGCGTCATGTTTTCATTAATGCCGAATTTCTGCCGCAGGGCTTTCATTGCCAGCAAATGTTGCCCACGAAt                <  1:440686/150‑1 (MQ=255)                                                                                                                                      gcacAGAACCACAATCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCTCTTCTGGCAGACCTTTTTCTACGTGCGTCATGTTTTCATTAATGCCGAATTTCTGCCGCCGGGCTTTCATTGCCAGCAAATGTTGCCCACGAAt                >  2:403164/4‑147 (MQ=255)                                                                                                                                          aGACCCACAACCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCTCTTCTGGCAGACCTTTTTCTACGTGCGTCATGTTTTCATTAATGCCGAATTTCTGCCGCAGGGCTTTCATTGCCAGCAAATGTTGCCCACGAATGGc             <  2:421430/146‑1 (MQ=255)                                                                                                                                            accaccattCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCTCTTCTGGCAGACCTTTTTCTACGTGCGTCATGTTTTCATTAATGCCGAATTTCTGCCGCAGGGCTTTCATTGCCAGCAAATGTTGCCCACGAATGGCATCGTta      <  1:570404/143‑1 (MQ=255)                                                                                                                                            aaCCACAATCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCTCTTCTGGCAGACCTTTTTCTACGTGCGTCATGTTTTCATTAATGCCGAATTTCTGCCGCAGGGCTTTCATTGCCAGCAAATGTTGCCCACGAATGGTATCGtt       >  2:691722/1‑150 (MQ=255)                                                                                                                                                 caACCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCCCCTCTTCTGGCAGACCTTTTTCTACGTGCGTCATGTTTTCATTAATGCCGAATTTCTGCCGCATGGCTTTCATTGCCAGCAAATGTTGCCCACGAATGGCATCGTTATaaa  <  2:577363/150‑1 (MQ=255)                                                                                                                                                    |                                                                                                                                                   TTCGTCATCCAGTTCAACGGGTGTCTGATACTGGTCAGGTTTAATGACCAGCAGGTCGCAGCGAAGATGATCAATCACCTGTTCCGCC‑GTGTTGCCGAGGAATGCTGCTGAAATACCGGTGCGTCCTACCGTGCCCAGAACCACAATCCCCGCCTGTAAGTGCTCCGCCAAATCAGGAATCACCTCTTCTGGCAGACCTTTTTCTACGTGCGTCATGTTTTCATTAATGCCGAATTTCTGCCGCAGGGCTTTCATTGCCAGCAAATGTTGCCCACGAATGGCATCGTTATAAA  >  NC_000913/1397684‑1397976

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑