Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	29,496	0	T	A	34.8%	34.4 / 10.6	23	intergenic (+301/‑155)	dapB/carA	dihydrodipicolinate reductase/carbamoyl phosphate synthetase small subunit, glutamine amidotransferase
Reads supporting (aligned to +/- strand):  ref base T (14/1);  new base A (0/8);  total (14/9)
Fisher's exact test for biased strand distribution p-value = 1.84e-05
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00
Rejected as consensus: Frequency below/above cutoff threshold.

GGTGTTATGTTTTTAAATTGTCTATAAGTGCCAAAAATTACATGTTTTGTCTTCTGTTTTTGTTGTTTTAATGTAAATTTTGACCATTTGGTCCACTTTTTTCTGCTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAATATTCTCTGGAGGGTGTTTTGATTAAGTCAGCGCTATTGGTTCTGGAAGACGGAACCCAGTTTCACGGTCGGGCCATAGGGGCAAC  >  NC_000913/29280‑29718                                                                                                                                                                                                                         |                                                                                                                                                                                                                               ggTGTTATGTTTTTAAATTGTCTATAAGTGCCAAAAATTACATGTTTTGTCTTCTGTTTTTGTTGTTTTAATGTAAATTTTGACCATTTGGTCCACTTTTTTCTGCTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTg                                                                                                                                                                                                          >  1:452945/1‑239 (MQ=255)   tgtTATGTTTTTAAATTGTCTATAAGTGCCAAAAATTACATGTTTTGTCTTCTGTTTTTGTTGTTTTAATGTAAATTTTGACCATTTGGTCCACTTTTTTCTGCTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGcctgttgtgcgag                                                                                                                                                                                                        >  2:83664/1‑228 (MQ=255)                               ccAAAAATTACATGTTTTGTCTTCTGTTTTTGTTGTTTTAATGTAAATTTTGACCATTTGGTCCACTTTTTTCTGCTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATgcc                                                                                                                                                                             >  1:101406/1‑238 (MQ=255)                                                         ttttttttttttTATTTTAATTTTTGCCCTTTTGCTCCTTTTTTTTTTGCTCTTTTTTTTTTAATTAATTTTTCTTGCTGCGAAGGCTTTTCCCAAAAAAGTTAAAATTATTTTTTTGCCGTTTAATCCTTAAAAAACATGCATGACCCAAAAAAAAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCat                                                                                                                                                                                           <  2:606916/198‑1 (MQ=255)                                                                   tttAATGTAAATTTTGACCATTTGGTCCACTTTTTTCTGCTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGaa                                                                                                                                                                                 >  1:606916/1‑198 (MQ=255)                                                                    ttAATGTAATTTTTGACCTTTTGGTCCATTTTTTTCTGCTCTTTTTTATTTCATGCATTTTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGTTTTTTTTGTCGTTTAATGCCTGTAAAACATGCATGAGCCAAAAAATAATAAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCAt                                                                                                                                       <  1:285075/239‑1 (MQ=255)                                                                                                cTTTTTTCTGCTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGaa                                                                                                                                                                                 >  1:278570/1‑169 (MQ=255)                                                                                                    tttCTGCTCTTTTTTATTCCATGCAATCTTCTTGCTGCGCAAGCTTTTTCCAGAACAGGTTAGATGATTTTTTTGTCGCTTAATGCTGGAAAAACAGGCATGAGCCAAAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCa                                                                                                       <  1:383840/239‑1 (MQ=255)                                                                                                               ttttATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGaa                                                                                                                 >  1:594543/1‑218 (MQ=255)                                                                                                                                  cttGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGtca                                                                                                                           >  1:128194/1‑189 (MQ=255)                                                                                                                                     gctacGCATGCGTTACCAAAAAAAGTTAAGATGATTTTTTGGCCGTTAAATGCCTAAAAAACATGAATGACCCAAAAAAAAAAAAAAAAAACCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAATATTCTCTGGAGGGTGtt                                                                      <  2:101406/239‑1 (MQ=255)                                                                                                                                                          aCAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTATGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCTTTGTGAATTACTATGCAAATAAATCGAGTGACTATTCTCTGGAGGGTGTTTTGACTAAGTCACTGCTATTg                                                 >  1:773163/1‑239 (MQ=255)                                                                                                                                                              gttaagagttCTTTTTGTCACTTAATCCCTAAAAAACAGGAAGGACCCAAAAAAAAATAAAAAAATCCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAATATTCTCTGGAGGGTGTTTTGATTAAGTCAgc                                                        <  2:417505/219‑1 (MQ=255)                                                                                                                                                              gTTGGATGATTTTTTTGTCGTTAAATGCCGAAAAAACATGCAGGGCCAAAAAAAAAATAAAAAAAACCCCGCCATTAAGTTGACTTTTAGCGCCCat                                                                                                                                                                                           <  1:2343/97‑1 (MQ=255)                                                                                                                                                              gTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAATATTCTCTGGAGGGTGTTTTGATTAAGTCAGCGCTATTGGtt                                              >  1:417505/1‑238 (MQ=255)                                                                                                                                                                        cTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAATATAAAAATTCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAATATTCTCTGGAGGGTGTTTTGATTAAGTCAGCGCTATTGGTTCTGGAAGACgg                                   >  1:624322/1‑239 (MQ=255)                                                                                                                                                                        cTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGaa                                                                                                                                                                                 >  2:2343/1‑97 (MQ=255)                                                                                                                                                                        cTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCAATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGAAAGCAGATTTGCATTGATTTACTTAATCATTGTGAATTAATATGCAAATAAAGTGAGTGAATATTCTCTGGAGGGTGTTTGATTTAAGTCAGCGTAATTGGTTTGGGAAgcggg                                   >  2:71844/1‑235 (MQ=255)                                                                                                                                                                                        gcctaaaaaaCCTGCATGACCCAAAAAAAAATAAAAAAACCCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAATATTCTCTGGAGGGTGTTTTGATTAAGTCAGCGCTATTGGTTCTGGAAGACGGAACCCAGTTTCACGGt                   <  1:71844/233‑1 (MQ=255)                                                                                                                                                                                                       atgAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAATATTCTCTGGAGGGTGTTTTGATTAAGTCAGCGCTATTGGTTCTGGAAGACGGAACCCAGTTTCACGGTCGGGCCATAGGGGCa    >  1:38027/1‑239 (MQ=255)                                                                                                                                                                                                         aaacacaaaaaGAATGAAAAAACCCCCGCCATTAAGTTGTCTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATATGCATTGATTTAAGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAATATTCTCGGGAAGGTATTTTGATGAAGGCAGCGCTATAGGTTCTGGAAGACGGAACCCAGATTCACGGTCGGGCCATAGGGGCAAc  <  2:624322/232‑1 (MQ=255)                                                                                                                                                                                                                     aataTAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCAtt                                                                                                                      >  2:136145/1‑111 (MQ=255)                                                                                                                                                                                                                     aataAAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCAtt                                                                                                                      <  1:136145/111‑1 (MQ=255)                                                                                                                                                                                                                         |                                                                                                                                                                                                                               GGTGTTATGTTTTTAAATTGTCTATAAGTGCCAAAAATTACATGTTTTGTCTTCTGTTTTTGTTGTTTTAATGTAAATTTTGACCATTTGGTCCACTTTTTTCTGCTCGTTTTTATTTCATGCAATCTTCTTGCTGCGCAAGCGTTTTCCAGAACAGGTTAGATGATCTTTTTGTCGCTTAATGCCTGTAAAACATGCATGAGCCACAAAATAATATAAAAAATCCCGCCATTAAGTTGACTTTTAGCGCCCATATCTCCAGAATGCCGCCGTTTGCCAGAAATTCGTCGGTAAGCAGATTTGCATTGATTTACGTCATCATTGTGAATTAATATGCAAATAAAGTGAGTGAATATTCTCTGGAGGGTGTTTTGATTAAGTCAGCGCTATTGGTTCTGGAAGACGGAACCCAGTTTCACGGTCGGGCCATAGGGGCAAC  >  NC_000913/29280‑29718

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑