Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913_3_pae_tpiA	1,197,502	C→T	G11R (GGA→AGA)	ymfD ←	e14 prophage; putative SAM‑dependent methyltransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913_3_pae_tpiA	1,197,502	0	C	T	100.0%	94.4 / NA	28	G11R (GGA→AGA)	ymfD	e14 prophage; putative SAM‑dependent methyltransferase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (14/14);  total (14/14)

ATTCATCAGAATATCTAAGTTTTCCGCAGCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAA  >  NC_000913_3_pae_tpiA/1197364‑1197628                                                                                                                                           |                                                                                                                               aTTCATCAGAATATCTAAGTTTTCCGCAGCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTGGAGATCATCGTATGAGTTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCAtatta                                                                                                                      <  1:276691/149‑1 (MQ=255)   tcatcaGAATATCTAAGTTTTCCGCAGCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATtata                                                                                                                    <  2:381870/149‑1 (MQ=255)   tcatcaGAATATCTAAGTTTTCCGCAGCCAAAAGCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATtata                                                                                                                    <  1:303626/149‑1 (MQ=255)                tAAGTTTTCCGCAGCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGt                                                                                                       >  2:233713/1‑149 (MQ=255)                              ccAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAAt                                                                                         <  1:645446/149‑1 (MQ=255)                                                             tGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAAt                                                                                         >  1:167206/1‑118 (MQ=255)                                                             tGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAAt                                                                                         <  2:167206/118‑1 (MQ=255)                                                                ttCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCg                                                       >  1:441862/1‑149 (MQ=255)                                                                   tAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTcc                                                    >  2:480513/1‑149 (MQ=255)                                                                      tataCTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTTGTGACATTTGTGTTGATTTTATCGTCCggg                                                 >  2:143588/1‑149 (MQ=255)                                                                           tCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGAtttt                                            >  1:4763/1‑149 (MQ=255)                                                                              cAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTcc                                         >  1:238928/1‑149 (MQ=255)                                                                                      tCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCgacttaac                                 >  2:300546/1‑149 (MQ=255)                                                                                         cgatctcATCGTATGAGGTTTTGCTGCATTCTCTGAGCGCATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCTTGCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTGTTCCGACTTGACttt                              <  2:573318/143‑1 (MQ=255)                                                                                           agGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCa                            <  1:3141/149‑1 (MQ=255)                                                                                           agGGCATCGTAGGAGGTTTTGCTGCATTCTCTGCGCGAATATTTGTTCTGTGTATCTTATAGTTCAAAGCTGGTATCATTCAATTAATGGTCTTTTTAGTGCAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCa                            <  2:147158/149‑1 (MQ=255)                                                                                            gggCATCGTATGAGGTTTTGCTGCCTTCTCTGAGCGAGTATTAACTCTGTGCTTATTATAGTTCAAAGCACGTACCATTCAATTAATGTTATTCTTAGTGAAAAATTCTTTTATTTTATCGTCCGCGATTCTTCCGACTTGTCTTTCAg                           <  1:645771/149‑1 (MQ=255)                                                                                              gCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGtt                         >  1:122854/1‑149 (MQ=255)                                                                                                aTCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCt                       >  2:590061/1‑149 (MQ=255)                                                                                                aTCGTATGAGGTTATGCTGCATTCTCAGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAgatcg                       >  1:573318/1‑145 (MQ=255)                                                                                                  cGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTgg                     <  2:122854/149‑1 (MQ=255)                                                                                                   gTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCCAGTACCATTCAATTAATGGTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTggg                    >  1:516262/1‑149 (MQ=255)                                                                                                      tGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGAATTTCAGTTCTGGGCtt                 >  1:211084/1‑149 (MQ=255)                                                                                                            tttGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGt           <  1:575357/149‑1 (MQ=255)                                                                                                               gctgcATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTcaa        <  1:480513/149‑1 (MQ=255)                                                                                                                 tgcATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTcaaag      <  1:233713/149‑1 (MQ=255)                                                                                                                  gcATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTcaaagc     >  1:356806/1‑149 (MQ=255)                                                                                                                     ttCTCTGAGCGAATATTAAGTCTGTGCATATTATAGTTCAAAGCAAGTATCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTTCGGGATTTTTCCGACTTGATTTTCAGTTCTGGGCTTAACTGTcaaagcaaa  <  2:592905/149‑1 (MQ=255)                                                                                                                                           |                                                                                                                               ATTCATCAGAATATCTAAGTTTTCCGCAGCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAA  >  NC_000913_3_pae_tpiA/1197364‑1197628

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑