Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,887,571	Δ1 bp	intergenic (+163/+7)	sokX → / ← cysH	small RNA SokX/phosphoadenosine phosphosulfate reductase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,887,570	0	G	.	100.0%	83.0 / NA	20	intergenic (+162/+8)	sokX/cysH	small RNA SokX/phosphoadenosine phosphosulfate reductase
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base . (8/12);  total (8/12)

TTTAAAATCAGGAATGCTGCTCGCAAAATAAAAACGCCCCCATCATTTCTGACAGAGGCGTTTAATTTGTCCGGCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGC  >  NC_000913/2887498‑2887642                                                                         |                                                                         tttAAAATCAGGAATGCTGCTCGCAAAATAAAAACGCCCCCATCATTTCTGACAGAGGCGTTTAATTTGTCC‑GCAATAttt                                                                 <  2:521108/81‑1 (MQ=255)   tAAAATCAGGAATGCTGCTCGCAAAATAAAAACGCCCCCATCATTTCTGACAGAGGCGTTTAATTTGTCC‑GCAATATTTa                                                                <  2:521109/80‑1 (MQ=255)      aaTCAGGAATGCTGCTCGCAAAATAAAAACGCCCCCATCATTTCTGACAGAGGCGTTTAATTTGTCC‑GCAATATTTACCCt                                                            >  2:521135/1‑81 (MQ=255)           ggAATGCTGCTCGCAAAATAAAAACGCCCCCATCATTTCTGACAGAGGCGTTTAATTTGTCC‑GCAATATTTACCCTTCgtg                                                       <  1:521110/81‑1 (MQ=255)            gAATGCTGCTCGCAAAATAAAAACGCCCCCATCATTTCTGACAGAGGCGTTTAATTTGTCC‑GCAATATTTACCCTTCgtgt                                                      <  1:521111/81‑1 (MQ=255)            gAATGCTGCTCGCAAAATAAAAACGCCCCCATCATTTCTGACAGAGGCGTTTAATTTGTCC‑GCAATATTTACCCTTCgtgt                                                      <  2:521112/81‑1 (MQ=255)               tgctgcTCGCAAAATAAAAACGCCCCCATCATTTCTGACAGAGGCGTTTAATTTGTCC‑GCAATATTTACCCTTCGTGTAAc                                                   <  1:521113/81‑1 (MQ=255)                             tAAAAACGCCCCCATCATTTCTGACAGAGGCGTTTAATTTGTCC‑GCAATATTTACCCTTCGTGTAACCCACATTCCCtttt                                     <  1:521114/81‑1 (MQ=255)                             tAAAAACGCCCCCATCATTTCTGACAGAGGCGTTTAATTTGTCC‑GCAATATTTACCCTTCGTGTAACCCACATTCCCtttt                                     <  2:521115/81‑1 (MQ=255)                                    gCCCCCATCATTTCTGACAGAGGCGTTTAATTTGTCC‑GCAATATTTACTCTTCGTGTAACCCACATTCCCTTTTTAAGcc                               >  1:521140/1‑80 (MQ=255)                                           tcatTTCTGACAGAGGCGTTTAATTTGTCC‑GCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAAc                       <  1:521117/81‑1 (MQ=255)                                           tcatTTCTGACAGAGGCGTTTAATTTGTCC‑GCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAAc                       <  1:521116/81‑1 (MQ=255)                                           tcatTTCTGACAGAGGCGTTTAATTTGTCC‑GCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAAc                       >  2:521134/1‑81 (MQ=255)                                             atTTCTGACAGAGGCGTTTAATTTGTCC‑GCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAAcgc                     >  1:521144/1‑81 (MQ=255)                                               ttCTGACAGAGGCGTTTAATTTGTCC‑GCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGt                   >  2:521141/1‑81 (MQ=255)                                               ttCTGACAGAGGCGTTTAATTTGTCC‑GCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGt                   >  2:521142/1‑81 (MQ=255)                                                    aCAGAGGCGTTTAATTTGTCC‑GCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTttctt              <  1:521118/81‑1 (MQ=255)                                                     cAGAGGCGTTTAATTTGTCC‑GCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTttcttc             >  2:521137/1‑81 (MQ=255)                                                             tttAATTTGTCC‑GCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCa     >  2:521139/1‑81 (MQ=255)                                                                 aTTTGTCC‑GCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGc  <  2:521119/80‑1 (MQ=255)                                                                         |                                                                         TTTAAAATCAGGAATGCTGCTCGCAAAATAAAAACGCCCCCATCATTTCTGACAGAGGCGTTTAATTTGTCCGGCAATATTTACCCTTCGTGTAACCCACATTCCCTTTTTAAGCCAAAGAAACGCGTTTCTTCTTCCGCCATGC  >  NC_000913/2887498‑2887642

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑