Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	468,271	(T)8→7	intergenic (+41/‑112)	cof → / → ybaO	thiamine pyrimidine pyrophosphate hydrolase; HMP‑PP phosphatase/putative DNA‑binding transcriptional regulator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	468,264	0	T	.	100.0%	149.5 / NA	32	intergenic (+34/‑119)	cof/ybaO	thiamine pyrimidine pyrophosphate hydrolase; HMP‑PP phosphatase/putative DNA‑binding transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base . (11/21);  total (11/21)

GCGCGCGGAGCTCCCGCATTTACCGGTGATTGGACATTGCCGAAATCAGGCTGTCTCTCACTATTTGACGCACTGGCTGGACTATCCACATCTACCTTATTCCCCCGAATAACGAGATCCCTTCCAGCACCGGGCAATTGCCCGGTTTTTTTTGCGTTGAATTTGTCATTTTGTGCCGTGGTGTTTAAACCGCACAGAATAAATTGTCGTGATTTCACCTTTAAAATAAAATTAAAAGAGAAAAAAATTCTCTGTGGAAGGGCTATGTTAGATAAAATTGACC  >  NC_000913/468119‑468401                                                                                                                                                  |                                                                                                                                          gcgcgcGGAGCTCCCGCATTTACCGGTGATTGGACATTGCCGAAATCAGGCTGTCTCTCACTATTTGACGCACTGGCTGGACTATCCACATCTACCTTATTCCCCCGAATAACGAGATCCCTTCCAGCACCGGGCAATTGCCCGGttttt                                                                                                                                       <  2:19542/150‑1 (MQ=255) gcgcgcGGAGCTCCCGCATTTACCGGTGATTGGACATTGCCGAAATCAGGCTGTCTCTCACTATTTGACGCACTGGCTGGACTATCCACATCTACCTTATTCCCCCGAATAACGAGATCCCTTCCAGCACCGGGCAATTGCCCGGttttt                                                                                                                                       <  1:13393/150‑1 (MQ=255)  cgcgagGAGCTCCCGCATTTACCGGTGATTGGACATTGCCGAAATCAGGCTGTCTCTCACTATTTGACGCACTGGCTGGACTCTCCACATCTACCTTATTCCCCCGAATAACGAGATCCCTTCCAGCACCGGGCAATTGCCCGGttttttt                                                                                                                                     >  1:203165/1‑151 (MQ=255)         aGCTCCCGCATTTACCGGTGATTGGACATTGCCGAAATCAGGCTGTCTCTCACTATTTGACGCACTGGCTGGACTATCCACATCTACCTTATTCCCCCGAATAACGAGATCCCTTCCAGCACCGGGCAATTGCCCGG‑TTTTTTTGCGTTGa                                                                                                                             <  1:161896/151‑1 (MQ=255)            tCCCGCATTTACCGGTGATTGGACATTGCCGAAATCAGGCTGTCTCTCACTATTTGACGCACTGGCTGGACTATCCACATCTACCTTATTCCCCCGAATAACGAGATCCCTTCCAGCACCGGGCAATTGCCCGG‑TTTTTTTGCGTTGAAtt                                                                                                                          >  1:135513/1‑151 (MQ=255)               cGCATTTACCGGTGATTGGACATTGCCGAAATCAGGCTGTCTCTCACTATTTGACGCACTGGCTGGACTATCCACATCTACCTTATTCCCCCGAATAACGAGATCCCTTCCAGCACCGGGCAATTGCCCGG‑TTTTTTTGCGTTGAATTTGt                                                                                                                       >  1:181930/1‑151 (MQ=255)                 cATTTACCGGTGATTGGACATTGCCGAAATCAGGCTGTCTCTCACTATTTGACGCACTGGCTGGACTATCCACATCTACCTTATTCCCCCGAATAACGAGATCCCTTCCAGCACCGGGCAATTGCCCGG‑TTTTTTTGCGTTGAATTTGTc                                                                                                                      >  2:516685/1‑150 (MQ=255)                         ggTGATTGGACATTGCCGAAATCAGGCTGTCTCTCACTATTTGACGCACTGGCTGGACTATCCACATCTACCTTATTCCCCCGAATAACGAGATCCCTTCCAGCACCGGGCAATTGCCCGG‑TTTTTTCGCGTTGAATTTGTCATTTTGTGc                                                                                                             <  2:254706/151‑1 (MQ=255)                                ggACATTGCCGAAATCAGGCTGTCTCTCACTATTTGACGCACTGGCTGGACTATCCACATCTACCTTATTCCCCCGAATAACGAGATCCCTTCCAGCACCGGGCAATTGCCCGG‑TTTTTTTGCGTTGAATTTGTCATTTTGTGCCgtggt                                                                                                       <  1:479164/150‑1 (MQ=255)                                      tGCCGAAATCAGGCTGTCTCTCACTATTTGACGCACTGGCTGGACTATCCACATCTACCTTATTCCCCCGAATAACGAGATCCCTTCCAGCACCGGGCAATTGCCCGG‑TTTTTTTGCGTTGAATTTGTCATTTTGTGCCGTGGTGTTTaa                                                                                                 <  1:551720/150‑1 (MQ=255)                                           aaaTCAGGCTGTCTCTCACTATTTGACGCACTGGCTGGACTATCCACATCTACCTTATTCCCCCGAATAACGAGATCCCTTCCAGCACCGGGCAATTGCCCGG‑TTTTTTTGCGTTGAATTTGTCATTTTGTGCCGTGGTGTTTAAACCGca                                                                                           <  2:538835/151‑1 (MQ=255)                                               cAGGCTGTCTCTCACTATTTGACGCACTGGCTGGACTATCCACATCTACCTTATTCCCCCGAATAACGAGATCCCTTCCAGCACCGGGCAATTGCCCGG‑TTTTTTTGCGTTGAATTTGTCATTTTGTGCCGTGGTGTTTAAACCGCACAGa                                                                                       <  1:624207/151‑1 (MQ=255)                                                 ggCTGTCTCTCACTATTTGACGCACTGGCTGGACTATCCACATCTACCTTATTCCCCCGAATAACGAGATCCCTTCCAGCACCGGGCAATTGCCCGG‑TTTTTTTGCGTTGAATTTGTCATTTTGTGCCGTGGTGTTTAAACCGCACAGAAt                                                                                     <  2:414896/151‑1 (MQ=255)                                                         ctcACTATTTGACGCACTGGCTGGACTATCCACATCTACCTTATTCCCCCGAATAACGAGATCCCTTCCAGCACCGGGCAATTGCCCGG‑TTTTTTTGCGTTGAATTTGTCATTTTGTGCCGTGGTGTTTAAACCGCACAGAATAAAtt                                                                                <  1:467929/148‑1 (MQ=255)                                                          tcACTATTTGACGCACTGGCTGGACTATCCACATCTACCTTATTCCCCCGAATAACGAGATCCCTTCCAGCACCGGGCAATTGCCCGG‑TTTTTTTGCGTTGAATTTGTCATTTTGTGCCGTGGTGTTTAAACCGCACAGAATAAATTGTCg                                                                            >  2:186907/1‑151 (MQ=255)                                                                   gACGCACTGGCTGGACTATCCACATCTACCTTATTCCCCCGAATAACGAGATCCCTTCCAGCACCGGGCAATTGCCCGG‑TTTTTTTGCGTTGAATTTGTCATTTTGTGCCGTGGTGTTTAAACCGCACAGAATAAATTGTCGTGATTTCAc                                                                   <  1:68109/151‑1 (MQ=255)                                                                                gACTATCCACATCTACCTTATTCCCCCGAATAACGAGATCCCTTCCAGCACCGGGCAATTGCCCGG‑TTTTTTTGCGTTGAATTTGTCATTTTGTGCCGTGGTGTTTAAACCGCACAGAATAAATTGTCGTGATTTGACCTTtaaaataaaa                                                      <  1:469330/151‑1 (MQ=255)                                                                                 aCTATCCACATCTACCTTATTCCCCCGAATAACGAGATCCCTTCCAGCACCGGGCAATTGCCCGG‑TTTTTTTGCGTTGAATTTGTCATTTTGTGCCGTGGTGTTTAAACCGCACAGAATAAATTGTCGTGATTTCACCTTTaaaataaaat                                                     >  2:615567/1‑151 (MQ=255)                                                                                 aCTATCCACATCTACCTTATTCCCCCGAATAACGAGATCCCTTCCAGCACCGGGCAATTGCCCGG‑TTTTTTTGCGTTGAATTTGTCATTTTGTGCCGTGGTGTTTAAACCGCACAGAATAAATTGTCGTGATTTCACCTTTaaaataaaat                                                     >  2:544228/1‑151 (MQ=255)                                                                                  cTATCCACATCTACCTTATTCCCCTGAATAACGAGATCCCTTCCAGCATCGGGCAATTGCCCAG‑TTTTTTTGCGTAGAATTTGTCATTTTGTGCCGTGGTGATTAACCCGCACAGAATAAATTGTCGTTATTGCATCTTtaaaata                                                         <  1:500395/146‑1 (MQ=255)                                                                                    aTCCACATCTACCTTATTCCCCCGAATAACGAGATCCCTTCCAGCACCGGGCAATTGCCCGG‑TTTTTTTGCGTTGAATTTGTCATTTTGTGCCGTGGTGTTTAAACCGCACAGAATAAATTGTCGTGATTTCACCTTTAAAATAAAAtt                                                    <  1:437817/149‑1 (MQ=255)                                                                                       cacaTCTACCTTATTCCCCCGAATAACGAGATCCCTTCCAGCACCGGGCAATTGCCCGG‑TTTTTTTGCGTTGAATTTGTCATTTTGTGCCGTGGTGTTTAAACCGCACAGAATAAATTGTCGTGATTTCACCTTTAAAATAAAATTaaa                                                 >  2:597681/1‑149 (MQ=255)                                                                                         caTCTACCTTATTCCCCCGAATAACGAGATCACTTCCAGCACCGGGCAATTGCCCGG‑TTTTTTTGCGTTGAATTTGTCATTTTGTGCCGTGGTGTTTAAACCGCACAGAATAAATTGTCGTGATTTCACCTTTAAAATAAAATTAAAagag                                             <  1:93518/151‑1 (MQ=255)                                                                                          aTCTACCTTATTCCCCCGAATAACGAGATCCCTTCCAGCACCGGGCAATTGCCCGG‑TTTTTTTGCGTTGAATTTGTCATTTTGTGCCGTGGTGTTTAAACCGCACAGAATAAATTGTCGTGATTTCACCTTTAAAATAAAATTAAAag                                               >  2:362965/1‑148 (MQ=255)                                                                                              aCCTTATTCCCCCGAATAACGAGATCCCTTCCAGCACCGGGCAATTGCCCGG‑TTTTTTTGCGTTGAATTTGTCATTTTGTGCCGTGGTGTTTAAACCGCACAGAATAAATTGTCGTGATTTCACCTTTAAAATAAAATTAAAAGAGaaaa                                         <  2:577364/150‑1 (MQ=255)                                                                                                  tATTCCCCCGAATAACGAGATCCCTTCCAGCACCGGGCAATTGCCCGG‑TTTTTTTGCGTTGAATTTGTCATTTTGTGCCGTGGTGTTTAAACCGCACAGAATAAATTGTCGTGATTTCACCTTTAAAATAAAATTAAAAGAGAAAAAAAtt                                    >  2:326632/1‑151 (MQ=255)                                                                                                   aTTCCCCCGAATAACGAGATCCCTTCCAGCACCGGGCAATTGCCCGG‑TTTTTTTGCGTTGAATTTGTCATTTTGTGCCGTGGTGTTTAAACCGCACAGAATAAATTGTCGTGATTTCACCTTTAAAATAAAATTAAAAGAGAAAAAAAtt                                    <  2:404598/150‑1 (MQ=255)                                                                                                     tCCCCCGAATAACGAGATCCCTTCCAGCACCGGGCAATTGCCCGG‑TTTTTTTGCGTTGAATTTGTCATTTTGTGCCGTGGTGTTTAAACCGCACAGAATAAATTGTCGTGATTTCACCTTTAAAATAAAATTAAAAGAGAAAAAAATtct                                  <  2:577160/150‑1 (MQ=255)                                                                                                      cccccGAATAACGAGATCCCTTCCAGCACCGGGCAATTGCCCGG‑TTTTTTTGCGTTGAATTTGTCATTTTGTGCCGTGGTGTTTAAACCGCACAGAATAAATTGTCGTGATTTCACCTTTAAAATAAAATTAAAAGAGAAAAAAATtctc                                 <  2:288752/150‑1 (MQ=255)                                                                                                      cccccGAATAACGAGATCCCTTCCAGCACCGGGCAATTGCCCGG‑TTTTTTTGCGTTGAATTTGTCATTTTGTGCCGTGGTGTTTAAACCGCACAGAATAAATTGTCGTGATTTCACCTTTAAAATAAAATTAAAAGAGAAAAAAATTctct                                <  2:610551/151‑1 (MQ=255)                                                                                                          cGAATAACGAGATCCCTTCCAGCACCGGGCAATTGCCCGG‑TTTTTTTGCGTTGAATTTGTCATTTTGTGCCGTGGTGTTTAAACCGCACAGAATAAATTGTCGTGATTTCACCTTTAAAATAAAATTAAAAGAGAAAAAAATTCTCTGTgg                            >  1:346696/1‑151 (MQ=255)                                                                                                             aTAACGAGATCCCTTCCAGCACCGGGCAATTGCCCGG‑TTTTTTTGCGTTGAATTTGTCATTTTGTGCCGTGGTGTTTAAACCGCACAGAATAAATTGTCGTGATTTCACCTTTAAAATAAAATTAAAAGAGAAAAAAATTCTCTGTGGAAg                         <  2:488704/151‑1 (MQ=255)                                                                                                                aCGAGATCCCTTCCAGCACCGGGCAATTGCCCGG‑TTTTTTTGCGTTGAATTTGTCATTTTGTGCCGTGGTGTTTAAACCGCACAGAATAAATTGTCGTGATTTCACCTTTAAAATAAAATTAAAAGAGAAAAAAATTCTCTGTGGAAGGGc                      >  1:648163/1‑151 (MQ=255)                                                                                                                     aTCCCTTCCAGCACCGGGCAATTGCCCGG‑TTTTTTTGCGTTGAATTTGTCATTTTGTGCCGTGGTGTTTAAACCGCACAGAATAAATTGTCGTGATTTCACCTTTAAAATAAAATTAAAAGAGAAAAAAATTCTCTGTGGAAGGGCTATGt                 <  2:369258/151‑1 (MQ=255)                                                                                                                                    gggCAATTGCCCGG‑TTTTTTTGCGTTGAATTTGTCATTTTGTGCCGTGGTGTTTAAACCGCACAGAATAAATTGTCGTGATTTCACCTTTAAAATAAAATTAAAAGAGAAAAAAATTCTCTGTGGAAGGGCTATGTTAGATAAAATTGAcc  <  1:186906/151‑1 (MQ=255)                                                                                                                                                  |                                                                                                                                          GCGCGCGGAGCTCCCGCATTTACCGGTGATTGGACATTGCCGAAATCAGGCTGTCTCTCACTATTTGACGCACTGGCTGGACTATCCACATCTACCTTATTCCCCCGAATAACGAGATCCCTTCCAGCACCGGGCAATTGCCCGGTTTTTTTTGCGTTGAATTTGTCATTTTGTGCCGTGGTGTTTAAACCGCACAGAATAAATTGTCGTGATTTCACCTTTAAAATAAAATTAAAAGAGAAAAAAATTCTCTGTGGAAGGGCTATGTTAGATAAAATTGACC  >  NC_000913/468119‑468401

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑