Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	29,496	0	T	A	49.0%	38.8 / 29.3	49	intergenic (+301/‑155)	dapB/carA	dihydrodipicolinate reductase/carbamoyl phosphate synthetase small subunit, glutamine amidotransferase
Reads supporting (aligned to +/- strand):  ref base T (17/8);  new base A (0/24);  total (17/32)
Fisher's exact test for biased strand distribution p-value = 2.20e-07
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

TTAATGTAAATTTTGACCATTTGGTCCACTTTTTTCTGCTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAATATTCTCT  >  NC_000913/29347‑29640                                                                                                                                                      |                                                                                                                                                 ttAATGTAAATTTTGACCATTTGGTCCACTTTTTTCTGCTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAatat                                                                                                                                                  >  1:156664/1‑150 (MQ=255)   aaTGTAAATTTTGACCATTTGGTCCACTTTTTTCTGCTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAATATaa                                                                                                                                                <  2:683207/150‑1 (MQ=255)   aaTGTAAATTTTGACCATTTGGTCCACTTTTTTCTGCTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAATATaa                                                                                                                                                >  1:854716/1‑150 (MQ=255)      gTAAATTTTGACCATTTGGTCCACTTTTTTCTGCTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAATATaaaaa                                                                                                                                             <  1:954434/150‑1 (MQ=255)         aaTTTTGACCATTTGGTCCACTTTTTTCTGCTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAATATAAAAAATcc                                                                                                                                         >  2:409097/1‑151 (MQ=255)                          ccACTTTTTTCTGCTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACtt                                                                                                                        >  1:584558/1‑151 (MQ=255)                            aCTTTTTTCTGCTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACtttt                                                                                                                      >  2:359544/1‑151 (MQ=255)                                 tttCTGCTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAgcgc                                                                                                                 >  1:346186/1‑151 (MQ=255)                                      gCTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCat                                                                                                             >  1:978843/1‑150 (MQ=255)                                         cGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATAtct                                                                                                         >  1:907716/1‑151 (MQ=255)                                           tttttATTTCATGCAATTTTCTTGCTGCGCAAGCTTTTTCCAAAACGGGTTAGATGATTTTTTTGTCGTTTAATGCCTGAAAAACATGCATGAGCCAAAAAATAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATAtc                                                                                                          <  1:970730/148‑1 (MQ=255)                                             tttATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTcc                                                                                                       >  2:699827/1‑149 (MQ=255)                                                  ttCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATgc                                                                                                >  2:860361/1‑151 (MQ=255)                                                       gCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGccgccg                                                                                           >  2:718718/1‑151 (MQ=255)                                                         aaTCTTCTTGCTGCGCAGGCTTTTTCCAAAAAAGGTTAGATGATTTTTTTGTCGCTTAATGCCTGAAAAACATGCATGGGCCAAAAAAAAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATgccgc                                                                                             <  1:745852/147‑1 (MQ=255)                                                                tggcggcgaacgctttttCAAGAAGGGGTTAAAGGATTTTTTTGACGCTAAAGCCCTGTAAAACATGCATGAGCCACAAAAAAATAAAAAAAACCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGttt                                                                                        <  2:453502/131‑1 (MQ=255)                                                                      cgcAAGCTTTTTCCAGAACAGTTTAGATGATTTTTTTGTCGCTTAATGCCTGAAAAACATGCATGACCCAAAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATtc                                                                             <  1:499874/150‑1 (MQ=255)                                                                      cgcAAGCTTTTTCAAAAAAAGGTTAGATGATTTTTTTGTCTTTTAATGCTTTTAAAACATGCATGACCCAAAAAATAATAAAAAAAACCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAAt                                                                               <  2:468550/148‑1 (MQ=255)                                                                        cAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATtcgtc                                                                          >  1:824761/1‑151 (MQ=255)                                                                        cAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATtcgtc                                                                          >  1:830187/1‑151 (MQ=255)                                                                              tttgcaaaaaaagtttAGATGATATTTTGGTCGCTTAATCCGTGAAAAACGTTAGAGAGCCAAAAAATAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTa                                                                      <  1:473196/135‑1 (MQ=255)                                                                                  ccAGAACAGGTTAGATGATTTTTTTGTCGCTTAATCCCTGAAAAACATGCATGAGCCAAAAAAAAATAAAAAAAACCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCa                                                                  <  1:762775/149‑1 (MQ=255)                                                                                  ccAAAACAGTTTAGATGATTTTTTTGTCGCTTAATGCCTGAAAAACATGCATGACCCAAAAAATAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAg                                                                 <  1:114328/150‑1 (MQ=255)                                                                                      aaCAGGTTAGATGATCTTTTTGTCGTTTAATGCCTGTAAAACATGCATGAGCCAAAAAATAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTg                                                            <  1:719084/151‑1 (MQ=255)                                                                                      aaCAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTg                                                            >  1:754423/1‑151 (MQ=255)                                                                                          ggTTAAATGATTTTTTTGTCGTTAAATGCCTGAAAAAAATGAATGACCCAAAAAAAAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCa                                                          <  2:734170/149‑1 (MQ=255)                                                                                               gatgatCTTTTTGCAGTGTAATCCCTGAAAAACATGCAAGAGCCACAAAATAATATAAAAAACGCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGa                                                      <  2:222578/148‑1 (MQ=255)                                                                                                atattCTTTTTGCCGTTTAATGCCGGAAAAACATCCATGGGCCAAAAAATAAAAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGAt                                                     <  1:104299/144‑1 (MQ=255)                                                                                                    tttttttGTCGTTTAATGCCTGAAAAACATGCATGAGCCAAAAAATAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGt                                               <  1:435186/148‑1 (MQ=255)                                                                                                    tCTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGtc                                              >  2:812761/1‑151 (MQ=255)                                                                                                      ttttttTCTTTTAATGCCTGAAAAAAATGAATGAGCCAAAAAATAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGtc                                              <  2:914679/149‑1 (MQ=255)                                                                                                      tttttGTCGTTTAATCCCTGAAAAAAATGAATGACCCAAAAAATAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACg                                                <  2:984655/147‑1 (MQ=255)                                                                                                      tttttGTCGCTTAATGCCTTAAAACCATGCTTGACCCAAAAAATAATATAAAAATCCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGtca                                             <  2:468645/150‑1 (MQ=255)                                                                                                      tttttGTCGCTAAATCCCTTAAAAAAATGAATTAGCCAAAAAAAAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGtca                                             <  2:589461/150‑1 (MQ=255)                                                                                                      tttttGTCGCTAAATCCCTAAAAAACATGAAGGAGCCAAAAAAAAATATAAAAAACCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGtca                                             <  1:924182/150‑1 (MQ=255)                                                                                                         ttGTCGCTAAAGGCCTGAAAAACATGCAGGAGCAACAAAATAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGtcatca                                          <  1:811719/150‑1 (MQ=255)                                                                                                             cGCTTAATGCCTGAAAAACATGCATGACCCACAAAATAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATtg                                       <  1:784736/149‑1 (MQ=255)                                                                                                                ttAATGCTTGAAAAACATGCATGAGCCACAAAATAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGa                                    <  1:246987/149‑1 (MQ=255)                                                                                                                ttAATGCTTGAAAAACATGCAGGAGCCAAAAAAAAATAAAAAAAACCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATtgtg                                     <  2:688158/148‑1 (MQ=255)                                                                                                                  aaTGCCTGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAAtt                                 >  1:813379/1‑150 (MQ=255)                                                                                                                           aaaaCATGCATGGCCCAAAAAAAAATAAAAAAAACCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCa                         <  1:855849/149‑1 (MQ=255)                                                                                                                           aaaaCATGCATGACCCAAAAAATAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCaaa                       <  1:728563/151‑1 (MQ=255)                                                                                                                            aaaCATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAAt                      >  2:1969/1‑151 (MQ=255)                                                                                                                              aCATGCAGGACCCAAAAAAAAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATaa                    <  1:821384/151‑1 (MQ=255)                                                                                                                                 tgcatgACCCAAAAAATAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATaaa                   <  1:971806/149‑1 (MQ=255)                                                                                                                                  gcaggAGCCAAAAAAAAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATaa                    <  2:189030/147‑1 (MQ=255)                                                                                                                                           aaaaaaaaATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAatat       <  1:409138/149‑1 (MQ=255)                                                                                                                                           aaaaaaTAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAagtga               <  1:860455/141‑1 (MQ=255)                                                                                                                                            caAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAATAtt      >  2:450013/1‑151 (MQ=255)                                                                                                                                                ataataAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAATATTctct  <  2:439378/151‑1 (MQ=255)                                                                                                                                                      |                                                                                                                                                 TTAATGTAAATTTTGACCATTTGGTCCACTTTTTTCTGCTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAATATTCTCT  >  NC_000913/29347‑29640

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑