Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	W3110S.gb	1,436,722	T→C	intergenic (‑751/+177)	ynaE ← / ← uspF	predicted DNA‑binding transcriptional regulator/stress‑induced protein, ATP‑binding protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	W3110S.gb	1,436,722	0	T	C	100.0%	228.7 / NA	67	intergenic (‑751/+177)	ynaE/uspF	predicted DNA‑binding transcriptional regulator/stress‑induced protein, ATP‑binding protein
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (21/46);  total (21/46)

TGTGATTTTTGCCCTTACTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGTCATGCCGGAACGCCCAGCAT  >  W3110S.gb/1436655‑1436787                                                                    |                                                                  tgtgATTTTTGCCCTTACTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACActt                                                                 >  1:609884/1‑70 (MQ=255)  gtgATTTTTGCCCTTACTTGTTCAGTTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTa                                                                >  1:2391091/1‑70 (MQ=255)  gtgATTTTTGCCCTTACTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTa                                                                >  1:1151351/1‑70 (MQ=255)  gtgATTTTTGCCCTTACTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTa                                                                >  1:803720/1‑70 (MQ=255)  gtgATTTTTGCCCTTACTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTa                                                                >  1:3571868/1‑70 (MQ=255)  gtgATTTTTGCCCTTACTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTa                                                                >  1:4053772/1‑70 (MQ=255)     aTTTTTGCCCTTACTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAg                                                            >  1:2591767/1‑71 (MQ=255)     aTTTTTGCCCTTACTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAg                                                            >  1:1490587/1‑71 (MQ=255)      tttttGCCCTTACTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGc                                                           <  1:3744209/71‑1 (MQ=255)                 aCTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTc                                                 <  1:10954/70‑1 (MQ=255)                  cTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGt                                               <  1:3877791/71‑1 (MQ=255)                   ttGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCaa                                                    >  1:2257894/1‑65 (MQ=255)                     gTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTta                                             <  1:1588171/70‑1 (MQ=255)                     gTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTta                                             <  1:1539215/70‑1 (MQ=255)                     gTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTta                                             <  1:3656538/70‑1 (MQ=255)                     gTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTta                                             <  1:4058567/70‑1 (MQ=255)                     gTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTta                                             <  1:3527896/70‑1 (MQ=255)                     gTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTta                                             <  1:1846666/70‑1 (MQ=255)                     gTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTta                                             <  1:4648550/70‑1 (MQ=255)                     gTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTta                                             <  1:1927296/70‑1 (MQ=255)                     gTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTta                                             <  1:314791/70‑1 (MQ=255)                     gTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTta                                             <  1:777365/70‑1 (MQ=255)                     gTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTta                                             <  1:1285943/70‑1 (MQ=255)                      ttCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTta                                             <  1:3206870/69‑1 (MQ=255)                          ggTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTta                                             <  1:3024537/65‑1 (MQ=255)                           gTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGCg                                                          <  1:222796/51‑1 (MQ=255)                           gTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGCGTCTCAATTCGt                                               <  1:3698983/62‑1 (MQ=255)                           gTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTta                                             <  1:1645663/64‑1 (MQ=255)                           gTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTta                                             <  1:1295008/64‑1 (MQ=255)                             tGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCaa                                                    >  1:3665274/1‑55 (MQ=255)                             tGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTtata                                           >  1:3322964/1‑64 (MQ=255)                                 ttGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGt                                               <  1:539529/56‑1 (MQ=255)                                 ttGTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTTATATGGCATCaga                                 <  1:4259852/70‑1 (MQ=255)                                   gTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTtata                                           >  1:1733811/1‑58 (MQ=255)                                   gTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTtata                                           >  1:4044394/1‑58 (MQ=255)                                   gTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTtata                                           >  1:2461367/1‑58 (MQ=255)                                   gTTCTTTCTTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTTATATGGCATCagaa                                >  1:3369097/1‑69 (MQ=255)                                    ttctttctTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTTATATGGCATCATAagag                             <  1:1344060/71‑1 (MQ=255)                                    ttctttctTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTTATATGGCATCAGAagag                             <  1:625108/71‑1 (MQ=255)                                    ttctttctTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTTATATGGCATCAGAagag                             <  1:4331359/71‑1 (MQ=255)                                    ttctttctTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTTATATGGCATCAGAagag                             <  1:4194752/71‑1 (MQ=255)                                    ttctttctTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTTATATGGCATCAGAagag                             <  1:2144657/71‑1 (MQ=255)                                    ttctttctTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTTATATGGCATCAGAagag                             <  1:1687012/71‑1 (MQ=255)                                    ttctttctTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTTATATGGCATCAGAagag                             <  1:184530/71‑1 (MQ=255)                                    ttctttctTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTTATATGGCATCAGAagag                             <  1:627563/71‑1 (MQ=255)                                    ttctttctTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTTATATGGCATCAGAagag                             <  1:3344193/71‑1 (MQ=255)                                    ttctttctTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTTATATGGCATCAGAagag                             <  1:2608895/71‑1 (MQ=255)                                    ttctttctTACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTTATATGGCATCAGAagag                             <  1:2036289/71‑1 (MQ=255)                                     tctttcttACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTTATATGGCATCAGAagag                             <  1:1338335/70‑1 (MQ=255)                                      ctttcttACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTta                                             >  1:185631/1‑53 (MQ=255)                                      ctttcttACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTa                           >  1:1939168/1‑71 (MQ=255)                                         tcttACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTa                           <  1:4221488/68‑1 (MQ=255)                                          cttACTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGc                        <  1:2604795/70‑1 (MQ=255)                                             aCTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGt                      <  1:2497011/69‑1 (MQ=255)                                              cTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTTATATGTCATCAGAAGAGTATGCGt                      <  1:904593/68‑1 (MQ=255)                                              cTAATTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGt                      <  1:4375731/68‑1 (MQ=255)                                                aaTTTCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGTCATGc                 >  1:1579029/1‑71 (MQ=255)                                                    tCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTTATATGGc                                       <  1:4022327/45‑1 (MQ=255)                                                    tCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTa                           >  1:2745968/1‑57 (MQ=255)                                                    tCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGTCATGCCgg              >  1:3955124/1‑70 (MQ=255)                                                    tCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGTCATGCCgg              <  1:1604274/70‑1 (MQ=255)                                                    tCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGTCATGCCgg              <  1:1301550/70‑1 (MQ=255)                                                    tCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGTCATGCCgg              >  1:333560/1‑70 (MQ=255)                                                    tCTTGATTTTGCGACACTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGTCATGCCgg              <  1:882576/70‑1 (MQ=255)                                                           tttGCGACACTTAAAAGCGACTCAATTCGTTATATGGCATCagaa                                >  1:3357193/1‑45 (MQ=255)                                                               cGACACTTAAAAGCGACTCAATTCGTTATATGGCATCAGAagag                             <  1:3829868/44‑1 (MQ=255)                                                               cGACACTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGTCATGCCGGAACGCCCAGCAt  <  1:1423282/71‑1 (MQ=255)                                                               cGACACTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGTCATGCCGGAACGCCCAGCAt  <  1:785448/71‑1 (MQ=255)                                                                    |                                                                  TGTGATTTTTGCCCTTACTTGTTCAGGTTGTATTGTTCTTTCTTACTAATTTCTTGATTTTGCGACATTTAAAAGCGACTCAATTCGTTATATGGCATCAGAAGAGTATGCGTCATGCCGGAACGCCCAGCAT  >  W3110S.gb/1436655‑1436787

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