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%	48.8 / NA	19	G11R (GGA→AGA)	ymfD	e14 prophage; putative SAM‑dependent methyltransferase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (11/8);  total (11/8)

GCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATA  >  NC_000913_3_pae_tpiA/1197392‑1197632                                                                                                               |                                                                                                                                   gCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCCAAGATATCTAGAGGGCATCGTATGAGGTTTTGATGAATTCTATAAGCGAATATTAACTCTTTGCATTTTATAGTTCAaagtaagt                                                                                                           >  2:213364/1‑136 (MQ=255)                                   cctCTAAGATACTCGCACAGATATCCAGAGGGCATCGTATGAGGTTTTGCTGCATTCTATAAGCGAATATTAACTCTGTGCATATTATAGTTAAAAGCAAGTACCATTCAATTAATATTATTTGTAGAGAAAAAtt                                                                         >  2:18109/3‑136 (MQ=255)                                   cTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAAtt                                                                         >  2:154715/1‑136 (MQ=255)                                             aCTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTa                                                                                               <  2:78573/104‑1 (MQ=255)                                             aCTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTa                                                                                               >  1:78573/1‑104 (MQ=255)                                             aCTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCttt                                                                     >  2:90199/1‑130 (MQ=255)                                             aCTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCttt                                                                     <  1:90199/130‑1 (MQ=255)                                               tCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTtttattttat                                                             >  2:153313/1‑136 (MQ=255)                                                  cAAAGCTATCTAGAGGGCATCGTAAGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGt                                                          >  1:85933/1‑136 (MQ=255)                                                           cTAGAGGGCATCGTATGAGGTTTTGCTGCATCATCAAAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGAttt                                                 >  1:115528/1‑136 (MQ=255)                                                            tAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGAtttt                                                <  1:153313/136‑1 (MQ=255)                                                              gagGGCATCGTATGAGGTTTTGCTTCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTc                                              <  1:244109/136‑1 (MQ=255)                                                                               ttttGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGtt                                                                                          >  1:86107/1‑75 (MQ=255)                                                                               ttttGCTGCATTCTCTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGtt                                                                                          <  2:86107/75‑1 (MQ=255)                                                                                   gctgcATTCTCTGAGCGAATATTAACTCTGTGCAtatt                                                                                                                           <  1:42134/38‑1 (MQ=255)                                                                                   gctgcATTCTCTGAGCGAATATTAACTCTGTGCAtatt                                                                                                                           >  2:42134/1‑38 (MQ=255)                                                                                          tctcTGAGCGAATATTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAAc                  <  1:154715/136‑1 (MQ=255)                                                                                                      tatTAACTCTGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCTACTTGACTTTCAGTTCTGGGCTTAACTGTcaaagcaaa      <  2:115528/136‑1 (MQ=255)                                                                                                          aaCTCTGTGCATATTATAGTTCAAAGCAAGTAACATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTGTATCGTCCAGGCTTTTTCCGACTTGACTTTCAGTTCTAGTCTTAACTGTCAAAGCAAAGata  >  2:92010/1‑136 (MQ=255)                                                                                                               |                                                                                                                                   GCCAAAATCAAGGGCGTGGCCATTTTTCTCAATGCTTCTAATATACTCGCAAAGATATCTAGAGGGCATCGTATGAGGTTTTGCTGCATTCTCTGAGCGAATATTAACTCCGTGCATATTATAGTTCAAAGCAAGTACCATTCAATTAATGTTATTTTTAGTGAAAAATTCTTTTATTTTATCGTCCGGGATTTTTCCGACTTGACTTTCAGTTCTGGGCTTAACTGTCAAAGCAAAGATA  >  NC_000913_3_pae_tpiA/1197392‑1197632

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 13 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑