Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,622,250	0	A	G	57.1%	6.6 / 21.9	21	E161G (GAG→GGG)	yjjJ	putative protein kinase
Reads supporting (aligned to +/- strand):  ref base A (4/5);  new base G (12/0);  total (16/5)
Fisher's exact test for biased strand distribution p-value = 6.19e-03
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.98e-03

AGGGCTTTTTAGGGCGCGCGTGGGGCAGGAAGTTAGCCGCGCAACTGAATCTGACTGATGATATACGTCTCTGGCAGGAAGAAGATGTGCTCTACGCCCTGACCGTATTTAACGGTGAATATACTGGCGGTTGGTTGGTCGGGGAGGGGAATTATCAGCGATGGATTACTGCACAACACCCTGCGGAAATTCCTCTGGATCAAAAACTCACCCATTACGAACAGCTGGCAAGTGATGCACTGGCAGGAGAAATTGTGGGTTCTTCTGCGGGCGGCGAGCAGCCAAAATTTA  >  NC_000913/4622106‑4622396                                                                                                                                                 |                                                                                                                                                   aGGGCTTTTTAGGGCGCGCGTGGGGCAGGAAGTTAGCCGCGCAACTGAATCTGACTGATGATATACGTCTCTGGCAGGAAGAAGATGTGCTCTACGCCCTGACCGTATTTAACGGTGAATATACTGGCGGTTGGGTGGTCggggggggg                                                                                                                                                >  2:192990/1‑149 (MQ=255)     cTTTTTAGGGCGCGCGTGGGGCAGGAAGTTAGCCGCGCAACTGAATCTGACTGATGATATACGTCTCTGGCAGGAAGAAGATGTGCTCTACGCCCTGACCGTATTTAACGGTGAATATACTGGCGGTTGGTTGGGCGGGGGGGGGGATAAt                                                                                                                                          >  1:516483/1‑151 (MQ=255)           aGGGCGCGCGTGGGGCAGGAAGTTAGCCGCGCAACTGAATCTGACTGATGATATACGTCTCTGGCAGGAAGAAGATGTGCTCTACGCCCTGACCGTATTTAACGGTGAATATACTGGCGGTTGGGTGGGCGGGGAGGGGAAtt                                                                                                                                            >  2:428727/1‑143 (MQ=255)                    gTGGGGCAGGAAGTTAGCCGCGCAACTGAATCTGACTGATGATATACGTCTCTGGCAGGAAGAAGATGTGCTCTACGCCCTGACCGTATTTAACGGTGAATATACTGGCGGTTGGTTGGTCGGGGGGGGGGATTATTAGCGATGGAtt                                                                                                                              >  2:276277/1‑148 (MQ=255)                                            gcTGAATCTGACTGATGATATACGTCTCTGGCAGGAAGAAGATGTGCTCTACGCCCTGACCGTATTTAACGGTGAATATACTGGCGGTTGGTTGGTTGGGGAGGGGGAATCTCAGGGATGGGTTACTTTACATCACCCTGCggggaat                                                                                                      >  1:357220/2‑143 (MQ=255)                                                        tgatgaTATACGTCTCTGGCAGGAAGAAGATGTGCTCTACGCCCTGACCGTATTTAACGGTGAATATACTGGCGGTTGGTTGGTCGGGGGGGGGAATTATCAGCGATGGATTACTGCACAAAACCCTGCGGAAATTCCTCTGGATCaaaa                                                                                        >  1:154631/1‑150 (MQ=255)                                                                  cGTCTCTGGCAGGAAGAAGATGTGCTCTACGCCCTGACCGTATTTAACGGTGAATATACTGGCGGTTGGTTGGTCGGGGGGGGGAATTATCAGCGATGGATTACTGCACAACACCCTGCGGAAATTCCTCTGGATCAAAAAATCACCCAtt                                                                             >  2:110749/1‑151 (MQ=255)                                                                            aGGAAGAAGATGTGCTCTACGCCCTGACCGTATTTAACGGTGAATATACTGGCGGTTGGTTGGGCGGGGGGGGGAATTATCAGCGGTGGGTTACTGCACAACACCCTGCGGGAATTCCTCTGGATCAAAAAATCACCCATTACGAACAGc                                                                    >  2:141322/1‑150 (MQ=255)                                                                                  aagaTGTGCTCTACGCCCTGACCGTATTTAACGGTGAATATACTGGCGGTTGGGTGGTCGGGGGGGGGAAATATCAGCGATGGGTTACTGCACAACACCCCGCGGGAATTCCTCTGGGTCAAAAAATCACCCATTACGAACAGCTgg                                                                 >  2:63266/1‑147 (MQ=255)                                                                                     aTGTGCTCTACGCCCTGACCGTATTTAACGGTGAATATACTGGCGGTTGGTTGGTCGGGGGGGGGAATTATCAGCGAAGGGTTACTGCACAACACCCCGCGGGAATTCCCCTGGGTCAAAAACTCACCCCTTACGAACAGCTGGGaa                                                              >  2:176648/1‑147 (MQ=255)                                                                                      tgtgCTCTACGCCCTGACCGTATTTAACGGTGAATATACTGGCGGTTGGTTGGTCGGGGGGGGGAATTATCAGCGATGGATTACTGCCCAACACCCTGCGGAAATTCCTCTGGGTCAAAAACTCACCCATTACGAACAGCTGGCAAGTg                                                           >  1:20941/1‑149 (MQ=255)                                                                                               cGCCCTGACCGTATTTAACGGTGAATATACTGGCGGTTGGTTGGTCGGGGAGGGGAATTATCAGCGATGGATTACTGCACAACACCCTGCGGAAATTCCTCTGGATCAAAAACTCACCCATTACGAACAGCTGGCAAGTGATGCACTGGCa                                                <  1:25629/151‑1 (MQ=255)                                                                                                  ccTGACCGTATTTAACGGTGAATATACTGGCGGTTGGTTGGTCGGGGGGGGGAATTATCAGCGATGGATTACTGCACAACACCCTGCGGAAATTCCTCTGGATCAAAAAATCACCCATTACGAACAGCTGGCAAGTGATGCACTGGCAgg                                              >  2:106794/1‑150 (MQ=255)                                                                                                       ccGTATTTAACGGTGAATATACTGGCGGTTGGTTGGTCGGGGGGGGGAATTATTAGCGACGGATTACTGCACCAAACCCTGCGGGAAGTCCTCTGGGTTAAAAAATCACCCATTACGAACAACTGGCAACAGAAGCACCTGCAGGAGgaa                                         >  1:526127/1‑150 (MQ=255)                                                                                                             ttAACGGTGAATATACTGGCGGTTGGGTGGTCGGGGGGGGGAATTATCAGCGATGGATTACTGCACAACACCCCGCGGGAATTCCTCTGGATCAAAAAATCAACCATTTCGAACAGCTGGCAAATGATGCACTGGCAGGAGAAAATTTggg                                  >  1:39647/1‑151 (MQ=255)                                                                                                                 ctgTGAATATACTGGCGGTTGGTTGGTCGGGGGGGGGGATTTTCTGCGATGGATTACTGCACAAAACCCTGGGGGAATTTCTCTGGGTCAAAAAATCACCCATTACGAACAGCTGGCAAGGGATGCACTGGCCGGAGGAATTGTTGGgtct                              >  1:365983/3‑151 (MQ=255)                                                                                                                  ggTGAATATACTGGCGGTTGGTTGGTCGGGGAGGGGAATTATCAGCGATGGATTACTGCACAACACCCTGCGGAAATTCCTCTGGATCAAAAACTCACCCATTACGAACAGCTGGCAAGTGATGCACTGGCAGGAGAAATTGTGGGttctt                             <  1:274981/151‑1 (MQ=255)                                                                                                                      aaTATACTGGCGGTTGGTTGGTCGGGGAGGGGAATTATCAGCGATGGATTACTGCACAACACCCTGCGGAAATTCCTCTGGATCAAAAACTCACCCATTACGAACAGCTGGCAAGTGATGCACTGGCAGGAGAAATTGTGGGTTCTTCTgc                         <  1:192961/151‑1 (MQ=255)                                                                                                                         ataCTGGCGGTTGGTTGGTCGGGGAGGGGAATTATCAGCGATGGATTACTGCACAACACCCTGCGGAAATTCCTCTGGATCAAAAACTCACCCATTACGAACAGCTGGCAAGTGATGCACTGGCAGGAGAAATTGTGGGTTCTTCTgcggg                      <  2:179737/151‑1 (MQ=255)                                                                                                                           aCTGGCGGTTGGTTGGTCGGGGAGGGGAATTATCAGCGATGGATTACTGCACAACACCCTGCGGAAATTCCTCTGGATCAAAAACTCACCCATTACGAACAGCTGGCAAGTGATGCACTGGCAGGAGAAATTGTGGGTTCTTCTgcgggcg                    <  2:489158/151‑1 (MQ=255)                                                                                                                               gCGGTTGGTTGGTCGGGGAGGGGAATTATCAGCGATGGATTACTGCACAACACCCTGCGGAAATTCCTCTGGATCAAAAACTCACCCATTACGAACAGCTGGCAAGTGATGCACTGGCAGGAGAAATTGTGGGTTCTTCTGCGGgcggcg                 >  2:38530/1‑150 (MQ=255)                                                                                                                                   ttggttggTCGGGGAGGGGAATTATCAGCGATGGATTACTGCACAACACCCTGCGGAAATTCCTCTGGATCAAAAACTCACCCATTACGAACAGCTGGCAAGTGATGCACTGGCAGGAGAAATTGTGGGTTCTTCTGCGGGCGGCGagc              >  1:166994/1‑149 (MQ=255)                                                                                                                                             ggggaggggaATTATCAGCGATGGATTACTGCACAACACCCTGCGGAAATTCCTCTGGATCAAAAACTCACCCATTACGAACAGCTGGCAAGTGATGCACTGGCAGGAGAAATTGTGGGTTCTTCTGCGGGCGGCGAGCAGCCAAAATTTa  <  1:208882/151‑1 (MQ=255)                                                                                                                                                 |                                                                                                                                                   AGGGCTTTTTAGGGCGCGCGTGGGGCAGGAAGTTAGCCGCGCAACTGAATCTGACTGATGATATACGTCTCTGGCAGGAAGAAGATGTGCTCTACGCCCTGACCGTATTTAACGGTGAATATACTGGCGGTTGGTTGGTCGGGGAGGGGAATTATCAGCGATGGATTACTGCACAACACCCTGCGGAAATTCCTCTGGATCAAAAACTCACCCATTACGAACAGCTGGCAAGTGATGCACTGGCAGGAGAAATTGTGGGTTCTTCTGCGGGCGGCGAGCAGCCAAAATTTA  >  NC_000913/4622106‑4622396

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑