Predicted mutation
evidence	seq id	position	mutation	freq	annotation	gene	description
RA	NC_002947	5,657,781	A→T	13.3%	intergenic (‑87/‑165)	tktA ← / → sahR	transketolase A/methionine metabolism transcriptional regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_002947	5,657,781	0	A	T	13.3%	92.8 / 3.7	36	intergenic (‑87/‑165)	tktA/sahR	transketolase A/methionine metabolism transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base A (16/15);  new base T (3/2);  total (19/17)
Fisher's exact test for biased strand distribution p-value = 1.00e+00
Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00

GGCATCCATGCTGAGGGCACGAATGGCGTTGGCACGTTCACGACGGCTGGGCATCGCTGATCTCCTAGGGGGCTTGAATAGGTGGT‑‑GTCACGAAAAAGGCGGCCATTTTCGCCCACTGGGGGCGCTTGGGGCAAACATTTAAGCGCCAAGCGCCGGCTTTAAGCCGCAACTGAAGAAGCAGAGCGCGACTCGGGGCGCCCCAAAGCGTGTAACTTGAGGCTTTCGGCTTGCAGCTCATCGCCAATATCAAAACTTTTTGATATTGGCCTTGCTAGGGCATCGATGC  >  NC_002947/5657641‑5657926                                                                                                                                               |                                                                                                                                                  ggCATCCATGCTGAGGGCACGAATGGCGTTGGCACGTTCACGACGGCTGGGCATCGCTGATCTCCTAGGGGGCTTGAATAGGTGGT‑‑GTCACGAAAAAGCCGGCCATTTTCGCCCACTGGGGGCGCTTGGGGCAAACATTTaagcgcc                                                                                                                                             >  4:113277/1‑147 (MQ=255)     tCCATGCTGAGGGCACGAATGGCGTTGGCACGTTCACGACGGCTGGGCATCGCTGATCTCCTAGGGGGCTTGAATAGGTGGT‑‑GTCACGAAAAAGGCGGCCATTTTCGCCCACTGGGGGCGCTTGGGGCAAACATTTaagcgccaagcgc                                                                                                                                       <  7:43345/149‑1 (MQ=255)           cTGAGGGAACTATTGGGGTTGGAAGTTTCACGACGGCTGGCCTTCGCTTATCTCTTAGGGGGCTTGAATAGGTGCTACTTCACGAAAAAGGCGGCCATTTTCGCCCACTGGGGGCGCTTGGGGCAAACATTTAAGCGCCAAGCGCCgg                                                                                                                                    <  1:100177/148‑1 (MQ=255)               gggCACGAATGGCGTTGGCACGTTCACGACGGCTGGGCATCGCTGATCTCCTAGGGGGCTTGAATAGGTGGT‑‑GTCACGAAAAAGGCGGCCATTTTCGCCCACTGGGGGCGCTTGGGGCAAACATTTAAGCGCCAAGCGCCGGCTTTAAg                                                                                                                             >  7:42452/1‑149 (MQ=255)                      aaTGGCGTTGGCACGTTCACGACGGCTGGGCATCGCTGATCTCCTAGGGGGCTTGAATAGGTGGT‑‑GTCACGAAAAAGGCGGCCATTTTCGCCCACTGGGGGCGCTTGGGGCAAACATTTAAGCGCCAAGCGCCGGCTTTAAGCCGCAAc                                                                                                                      <  8:42452/149‑1 (MQ=255)                          gCGTTGGCACGTTCACGACGGCTGGGCATCGCTGATCTCCTAGGGGGCTTGAATAGGTGGT‑‑GTCACGAAAAAGGCGGCCATTTTCGCCCACTGGGGGCGCTTGGGGCAAACATTTAAGCGCCAAGCGCCGGCTTTAAGCCGCAACTgaa                                                                                                                  >  3:43907/1‑149 (MQ=255)                               ggCACGTTCACGACGGCTGGGCATCGCTGATCTCCTAGGGGGCTTGAATAGGTGGT‑‑GTCACGAAAAAGGCGGCCATTTTCGCCCACTGGGGGCGCTTGGGGCAAACATTTAAGCGCCAAGCGCCGGCTTTAAGCCGCAACTGaagaag                                                                                                              <  2:88046/148‑1 (MQ=255)                                          gacgGCTGGGCATCGCTGATCTCCTAGGGGGCTTGAATAGGTGGT‑‑GTCACGAAAAAGGCGGCCATTTTCGCCCACTGGGGGCGCTTGGGGCAAACATTTAAGCGCCAAGCGCCGGc                                                                                                                                   <  8:155866/116‑1 (MQ=255)                                              gCTGGGCATCGCTGATCTCCTAGGGGGCTTGAATAGGTGGT‑‑GTCACGAAAAAGGCGGCCATTTTCGCCCACTGGGGGCGCTTGGGGCAAACATTTAAGCGCCAAGCGCCGGCTTTAAGCCGCAACTGAAGAAGCAGAGCGCGACTCggg                                                                                              <  4:43907/149‑1 (MQ=255)                                                    cATCGCTGATCTCCTAGGGGGCTTGAATAGGTGGT‑‑GTCACGAAAAAGGCGGCCATTTTCGCCCACTGGGGGCGCTTGGGGCAAACATTTAAGCGCCAAGCGCCGGCTTTAAGCCGCAACTGAAGAAGCAGAgcgc                                                                                                      >  6:231111/1‑135 (MQ=255)                                                    cATCGCTGATCTCCTAGGGGGCTTGAATAGGTGGT‑‑GTCACGAAAAAGGCGGCCATTTTCGCCCACTGGGGGCGCTTGGGGCAAACATTTAAGCGCCAAGCGCCGGCTTTAAGCCGCAACTGAAGAAGCAGAgcgc                                                                                                      <  5:231111/135‑1 (MQ=255)                                                                ccTAGGGGGCTTGAATAGGTGGT‑‑GTCACGAAAAAGGCGGCCATTTTCGCCCACTGGGGGCGCTTGGGGCAAACATTTAAGCGCCAAGCGCCGGCTTTAAGCCGCAACTGAAGAAGCag                                                                                                           >  2:29299/1‑118 (MQ=255)                                                                ccTAGGGGGCTTGAATAGGTGGT‑‑GTCACGAAAAAGGCGGCCATTTTCGCCCACTGGGGGCGCTTGGGGCAAACATTTAAGCGCCAAGCGCCGGCTTTAAGCCGCAACTGAAGAAGCAGAGCGCGACTCGGGGCGCCCCAAAGCGTGTaa                                                                            >  1:140126/1‑149 (MQ=255)                                                                 cTAGGGGGCTTGAATAGGTGGT‑‑GTCACGAAAAAGGCGGCCATTTTCGCCCACTGGGGGCGCTTGGGGCAAACATTTAAGCGCCAAGCGCCGGCTTTAAGCCGCAACTGAAGAAGCAGAGCGCGACTCGGGGCGCCCCAAAGCGTGTAAc                                                                           >  3:170448/1‑149 (MQ=255)                                                                      gggCTTGAATAGGTGGT‑‑GTCACGAAAAAGGCGGCCATTTTCGCCCACTGGGGGCGCTTGGGGCAAACATTTAAGCGCCAAGCGCCGGCTTTAAGCCGCAACTGAAGAAGCAGAGCGCGACTCGGGGCGCCCCAAAGCGTGTAACTTGAg                                                                      <  4:170448/149‑1 (MQ=255)                                                                                      t‑‑gtCACGAAAAAGGCGGCCATTTTCGCCCACTGGGGGCGCTTGGGGCAAACATTTAAGCGCCAAGCGCCGGCTTTAAGCCGCAACTGAAGAAGCAGAGCGCGACTCGGGGCGCCCCAAAGCGTGTAACTTGAGGCTTTCGGCTTGCAGc                                                      >  2:182500/1‑149 (MQ=255)                                                                                         gtCACGAAAAAGGCGGCCATTTTCGCCCACTGGGGGCGCTTGGGGCAAACATTTAAGCGCCAAGCGCCGGCTTTAAGCCGCAACTGAAGAAGCAGAGCGCGACTCGGGGCGCCCCAAAGCGTGTAACTTGAGGCTTTCGGCTTGCAGc                                                      >  4:301795/1‑148 (MQ=255)                                                                                             cGAAAAAGGCGGCCATTTTCGCCCACTGGGGGCGCTTGGGGCAAACATTTAAGCGCCAAGCGCCGGCTTTAAGCCGCAACTGAAGAAGCAGAGCGCGACTCGGGGCGCCCCAAAGCGTGTAACTTGAGGCTTTCGGCTTGCAGCTCATc                                                 >  4:221345/1‑149 (MQ=255)                                                                                              gAAAAAGGCGGCCATTTTCGCCCACTGGGGGCGCTTGGGGCAAACATTTAAGCGCCAAGCGCCGGCTTTAAGCCGCAACTGAAGAAGCAGAGCGCGACTCGGGGCGCCCCAAAGCgt                                                                                >  4:273506/1‑117 (MQ=255)                                                                                               aaaaaGGCGGCCATTTTCGCCCACTGGGGGCGCTTGGGGCAAACATTTAAGCGCCAAGCGCCGGCTTTAAGCCGCAACTGAAGAAGCAGAGCGCGACTCGGGGCGCCCCAAAGCGTGTAACTTGAGGCTTTCGGCTTGCAGCTCATCGc                                               >  3:273469/1‑149 (MQ=255)                                                                                                       ggcCATTTTCGCCCACTGGGGGCGCTTGGGGCAAACATTTAAGCGCCAAGCGCCGGCTTTAAGCCGCAACTGAAGAAGCAGAGCGCGACTCGGGGCGCCCCAAAGCGTGTAACTTGAGGCTTTCGGCTTGCAGCTCATCGCCAATATCa                                       <  4:273469/149‑1 (MQ=255)                                                                                                                cGCCCACTGGGGGCGCTTGGGGCAAACATTTAAGCGCCAAGCGCCGGCTTTAAGCCGCAACTGAAGAAGCAGAGCGCGACTCGGGGCGCCCCAAAGCGTGTAACTTGAGGCTTTCGGCTTGCAGCTCATCGCCAATATCAAAACtttt                               <  5:138442/148‑1 (MQ=255)                                                                                                                cGCCCACTGGGGGCGCTTGGGGCAAACATTTAAGCGCCAAGCGCCGGCTTTAAGCCGCAACTGAAGAAGCAGAGCGCGACTCGGGGCGCCCCAAAGCGTGTAACTTGAGGCTTTCGGCTTGCAGCTCATCGCCAATATCAAAACtttt                               <  3:113277/148‑1 (MQ=255)                                                                                                                 gCCCACTGGGGGCGCTTGGGTCAAACATTTAAGCTCCAAGAGCCGGATTTAAGCCGCAACTGAAGAAGCAGAGCGCGACTCGTTGCGCCCCAAAGCGTGTAACTTGAGGCTTTCGGCTTGCAGCTCATCGCCAATATCAAAACttttt                              <  5:268472/148‑1 (MQ=255)                                                                                                                  cccACTGGGGGCGCTTGGGGCAAACATTTAAGCGCCAAGCGCCGGCTTTAAGCCGCAACTGAAGAAGCAGAGCGCGACTCGGGGCGCCCCAAAGCGTGTAACTTGAGGCTTTCGGCTTGCAGCTCATCGCCAATATCAAAACTTTTTGa                            >  7:195683/1‑149 (MQ=255)                                                                                                                         ggggCGCTTGGGGCAAACATTTAAGCGCCAAGCGCCGGCTTTAAGCCGCAACTGAAGAAGCAGAGCGCGACTCGGGGCGCCCCAAAGCGTGTAACTTGAGGCTTTCGGCTTGCAGCTCATCGCCAATATCAAAAAGTTTTGATATTgg                      <  3:301795/148‑1 (MQ=255)                                                                                                                          cggcgcttggcgcttAAATGTTTGCCCCAAGCGCCGGCTTTAAGCCGCAACTGAAGAAGCAGAGCGCGACTCGGGGCGCCCCaaa                                                                                    <  5:53996/84‑1 (MQ=21)                                                                                                                          cggcgcttggcgcttAAATGTTTGCCCCAAGCGCCGGCTTTAAGCCGCAACTGAAGAAGCAGAGCGCGACTCGGGGCGCCCCaaa                                                                                    >  6:53996/2‑85 (MQ=21)                                                                                                                          cggcgcttggcgcttAAATGTTTGCCCCAAGCGCCGGCTTTAAGCCGCAACTGAAGAAGCAGAGCGCGACTCGGGGCGCCCCAAAGCGTGTAACTTGAGGCTTTCGGCTTGCAGCTCATCGCCAATATCAAAACTTTTTGATATTGGcc                    >  5:128425/2‑149 (MQ=38)                                                                                                                           ggcgcttggcgcttAAATGTTTGCCCCAAGCGCCGGCTTTAAGCCGCAACTGAAGAAGCAGAGCGCGACTCGGGGCGCCCCAAAGCGTGTAACTTGAGGCTTTCGGCTTGCAGCTCATCGCCAATATCa                                       <  2:233678/129‑1 (MQ=38)                                                                                                                           ggcgcttggcgcttAAATGTTTGCCCCAAGCGCCGGCTTTAAGCCGCAACTGAAGAAGCAGAGCGCGACTCGGGGCGCCCCAAAGCGTGTAACTTGAGGCTTTCGGCTTGCAGCTCATCGCCAATATCa                                       >  1:233678/1‑129 (MQ=38)                                                                                                                           ggCGCTTGGGGCAAACATTTAAGCGCCAAGCGCCGGCTTTAAGCCGCAACTGAAGAAGCAGCGCGCGACTCGGGGCGCCCCAAAGCGTGTAACTTGAGGCTTTCGGCTTGCAGCTCATCGCCAATATCAAAACTTTTTGATATTGGCCt                   >  8:50478/1‑149 (MQ=255)                                                                                                                                   gggCAAACATTTAAGCGCCAAGCGCCGGCTTTAAGCCGCAACTGAAGAAGCAGAGCGCGACTCGGGGCGCCCCAAAGCGTGTAACTTGAGGCTTTCGGCTTGCAGCTCATCGCCAATATCAAAACTTTTTGATATTGGCCTTGCTAggg           >  1:219523/1‑149 (MQ=255)                                                                                                                                    ggCAAACATTTAAGCGCCAAGCGCCGGCTTTAAGCCGCAACTGAAGAAGCAGAGCGCGACTCGGGGCGCCCCAAAGCGTGTAACTTGAGGCTTTCGGCTTGCAGCTCATCGCCAATATCAAAACTTTTTGATATTGGCCTTGCTAggg           >  3:237323/1‑148 (MQ=255)                                                                                                                                       aaaCATTTAAGCGCCAAGCGCCGGCTTTAAGCCGCAACTGAAGAAGCAGAGCGCGACTCGGGGCGCCCCAAAGCGTGTAACTTGAGGCTTTCGGCTTGCAGCTCATCGCCAATATCAAAACTTTTTGATATTGGCCTTGCTAGGGCATc       >  3:311244/1‑149 (MQ=255)                                                                                                                                          cATTTAAGCGCCAAGCGCCGGCTTTAAGCCGCAACTGAAGAAGCAGAGCGCGACTCGGGGCGCCCCAAAGCGTGTAACTTGAGGCTTTCGGCTTGCAGCTCATCGCCAATATCAAAACTTTTTGATATTGGCCTTGCTAGGGCATCGAt    <  2:140126/149‑1 (MQ=255)                                                                                                                                            tttAAGCGCCAAGCGCCGGCTTTAAGCCGCAACTGAAGAAGCAGAGCGCGACTCGGGGCGCCCCAAAGCGTGTAACTTGAGGCTTTCGGCTTGCAGCTCATCGCCAATATCAAAACTTTTTGATATTGGCCTTGCTAGGGCATCGATGc  <  3:221345/149‑1 (MQ=255)                                                                                                                                            tttAAGCGCCAAGCGCCGGCTTTAAGCCGCAACTGAAGAAGCAGAGCGCGACTCGGGGCGCCCCAAAGCGTGTAACTTGAGGCTTTCGGCTTGCAGCTCATCGCCAATATCAAAACTTTTTGATATTGGCCTTGCTAGGGCATCGATGc  <  7:50478/149‑1 (MQ=255)                                                                                                                                               |                                                                                                                                                  GGCATCCATGCTGAGGGCACGAATGGCGTTGGCACGTTCACGACGGCTGGGCATCGCTGATCTCCTAGGGGGCTTGAATAGGTGGT‑‑GTCACGAAAAAGGCGGCCATTTTCGCCCACTGGGGGCGCTTGGGGCAAACATTTAAGCGCCAAGCGCCGGCTTTAAGCCGCAACTGAAGAAGCAGAGCGCGACTCGGGGCGCCCCAAAGCGTGTAACTTGAGGCTTTCGGCTTGCAGCTCATCGCCAATATCAAAACTTTTTGATATTGGCCTTGCTAGGGCATCGATGC  >  NC_002947/5657641‑5657926

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑