Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,771,492	G→T	M115I (ATG→ATT)	yfjT →	CP4‑57 prophage; uncharacterized protein YfjT

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,771,492	0	G	T	100.0%	160.9 / NA	46	M115I (ATG→ATT)	yfjT	CP4‑57 prophage; uncharacterized protein YfjT
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base T (21/25);  total (21/25)

GCCGGGGATAAAACGGTCAGCTCGCATGATGACAGTACCGGCATCACAGTGGTGATGGACCATAAGCAATATGCCATTCCCTCAACCCTTGGCTGGCGTAACGGAGATAATGCCTGGTTCAGCTTCATCATGGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGATCGTTTAACCCTGATGTTCGGAATGCACAAAAGGTCCTGCCAACATTAGCGGACTGCACTAACGACTGACGGCTGCGCCTTC  >  NC_000913/2771361‑2771628                                                                                                                                    |                                                                                                                                         gCCGGGGATAAAACGGTCAGCTCGCATGATGACAGTACCGGCATCACAGTGGTGATGGACCATAAGCAATATGCCATTCCCTCAACCCTTGGCTGGCGTAACGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCg                                                                                                                                  >  2:166469/1‑140 (MQ=255)            aaCGGTCAGCTCGCATGATGACAGTACCGGCATCACAGTGGTGATGGACCATAAGCAATATGCCATTCCCTCAACCCTTGGCTGGCGTAACGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGc                                                                                                                       <  2:599618/140‑1 (MQ=255)               ggTCAGCTCGCATGATGACAGTACCGGCATCACAGTGGTGATGGACCATAAGCAATATGCCATTCCCTCAACCCTTGGCTGGCGTAACGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGt                                                                                                                    >  1:236026/1‑140 (MQ=255)                gTCAGCTCGCATGATGACAGTACCGGCATCACAGTGGTGATGGACCATAAGCAATATGCCATTCCCTCAACCCTTGGCTGGCGTAACGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGtt                                                                                                                   <  2:239420/140‑1 (MQ=255)                  cAGCTCGCATGATGACAGTACCGGCATCACAGTGGTGATGGACCATAAGCAATATGCCATTCCCTCAACCCTTGGCTGGCGTAACGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCg                                                                                                                 <  1:278342/140‑1 (MQ=255)                     cTCGCATGATGACAGTACCGGCATCACAGTGGTGATGGACCATAAGCAATATGCCATTCCCTCAACCCTTGGCTGGCGTAACGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCGACg                                                                                                              >  1:419938/1‑140 (MQ=255)                      tCGCATGATGACAGTACCGGCATCACAGTGGTGATGGACCATAAGCAATATGCCATTCCCTCAACCCTTGGCTGGCGTAACGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGt                                                                                                             <  2:715960/140‑1 (MQ=255)                       cGCATGATGACAGTACCGGCATCACAGTGGTGATGGACCATAAGCAATATGCCATTCCCTCAACCCTTGGCTGGCGTAACGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTc                                                                                                            >  2:403458/1‑140 (MQ=255)                           tgatgaCAGTACCGGCATCACAGTGGTGATGGACCATAAGCAATATGCCATTCCCTCAACCCTTGGCTGGCGTAACGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACg                                                                                                        <  1:403458/140‑1 (MQ=255)                                  aGTACCGGCATCACAGTGGTGATGGACCATAAGCAATATGCCATTCCCTCAACCCTTGGCTGGCGTAACGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGa                                                                                                 >  1:689191/1‑140 (MQ=255)                                      ccGGCATCACAGTGGTGATGGACCATAAGCAATATGCCATTCCCTCAACCCTTGGCTGGCGTAACGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAg                                                                                             >  2:424708/1‑140 (MQ=255)                                          cATCACAGTGGTGATGGACCATAAGCAATATGCCATTCCCTCAACCCTTGGCTGGCGTAACGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAg                                                                                         >  1:641781/1‑140 (MQ=255)                                            tCACAGTGGTGATGGACCATAAGCAATATGCCATTCCCTCAACCCTTGGCTGGCGTAACGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGtt                                                                                       >  2:635801/1‑140 (MQ=255)                                            tCACAGTGGTGATGGACCATAAGCAATATGCCATTCCCTCAACCCTTGGCTGGCGTAACGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGtt                                                                                       >  1:108435/1‑140 (MQ=255)                                               caGTGGTGATGGACCATAAGCAATATGCCATTCCCTCAACCCTTGGCTGGCGTAACGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGa                                                                                    <  2:280143/140‑1 (MQ=255)                                               caGTGGTGATGGACCATAAGCAATATGCCATTCCCTCAACCCTTGGCTGGCGTAACGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGa                                                                                    <  2:192013/140‑1 (MQ=255)                                                    gtgATGGACCATAAGCAATATGCCATTCCCTCAACCCTTGGCTGGCGTAACGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGATCGtt                                                                               <  2:320512/140‑1 (MQ=255)                                                    gtgATGGACCATAAGCAATATGCCATTCCCTCAACCCTTGGCTGGCGTAACGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGATCGtt                                                                               >  2:586347/1‑140 (MQ=255)                                                    gtgATGGACCATAAGCAATATGCCATTCCCTCAACCCTTGGCTGGCGTAACGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGATCGtt                                                                               >  1:529221/1‑140 (MQ=255)                                                            ccATAAGCAATATGCCATTCCCTCAACCCTTGGCTGGCGTAACGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGATCGTTTAACCCTg                                                                       >  2:487114/1‑140 (MQ=255)                                                                   cAATATGCCATTCCCTCAACCCTTGGCTGGCGTAACGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGATCGTTTAACCCTGATGTTCg                                                                <  2:576611/140‑1 (MQ=255)                                                                   cAATATGCCATTCCCTCAACCCTTGGCTGGCGTAACGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGATCGTTTAACCCTGATGTTCg                                                                <  2:731756/140‑1 (MQ=255)                                                                   cAATATGCCATTCCCTCAACCCTTGGCTGGCGTAACGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGATCGTTTAACCCTGATGTTCg                                                                <  2:236026/140‑1 (MQ=255)                                                                     atatGCCATTCCCTCAACCCTTGGCTGGCGTAACGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGATCGTTTAACCC‑GATGTTCGGaa                                                             <  1:737505/140‑1 (MQ=255)                                                                                        cctggctggcGGAACGGAGATAATGCCTGATACAGCTTCATCATTGCTATCCGCAAGGCCCGGCAGTTCGACGTCTCCGTCAATGACCAGAAAGTTGGATCGTTTAACTCGGATGTTCGGAATGCACAAAAGATCCTGcc                                           <  2:738545/138‑1 (MQ=255)                                                                                         ttGGCTGGCGTAACGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGATCGTTTAACCCTGATGTTCGGAATGCACAAAAGGTCCTGCCa                                          >  2:715418/1‑140 (MQ=255)                                                                                          tggctggcGTAACGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGATCGTTTAACCCTGATGTTCGGAATGCACAAAAGGTCCTGCCaa                                         >  1:144464/1‑140 (MQ=255)                                                                                          tggctggcGTAACGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGATCGTTTAACCCTGATGTTCGGAATGCACAAAAGGTCCTGCCaa                                         <  1:522782/140‑1 (MQ=255)                                                                                           ggctggcGTAACGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGATCGTTTAACCCTGATGTTCGGAATGCACAAAAGGTCCTGCCAAc                                        >  1:539332/1‑140 (MQ=255)                                                                                                gcGTAACGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGATCGTTTAACCCTGATGTTCGGAATGCACAAAAGGTCCTGCCAACATTAg                                   >  1:351342/1‑140 (MQ=255)                                                                                                 cGTAACGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGATCGTTTAACCCTGATGTTCGGAATGCACAAAAGGTCCTGCCAACATTAGc                                  >  2:338925/1‑140 (MQ=255)                                                                                                  gTAACGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGATCGTTTAACCCTGATGTTCGGAATGCACAAAAGGTCCTGCCAACATTAGCg                                 <  1:626897/140‑1 (MQ=255)                                                                                                   tAACGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGATCGTTTAACCCTGATGTTCGGAATGCACAAAAGGTCCTGCCAACATTAGCgg                                >  1:324610/1‑140 (MQ=255)                                                                                                    aaCGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGATCGTTTAACCCTGATGTTCGGAATGCACAAAAGGTCCTGCCAACATTAGCGGa                               <  1:402099/140‑1 (MQ=255)                                                                                                     aCGGAGATAATGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGATCGTTTAACCCTGATGTTCGGAATGCACAAAAGGTCCTGCCAACATTAGCGGAc                              <  2:351342/140‑1 (MQ=255)                                                                                                             aaTGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGATCGTTTAACCCTGATGTTCGGAATGCACAAAAGGTCCTGCCAACATTAGCGGACTGCACTaa                      <  1:475693/140‑1 (MQ=255)                                                                                                               tGCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGATCGTTTAACCCTGATGTTCGGAATGCACAAAAGGTCCTGCCAACATTAGCGGACTGCACTAACg                    >  1:66841/1‑140 (MQ=255)                                                                                                                gCCTGGTTCAGCTTCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGATCGTTTAACCCTGATGTTCGGAATGCACAAAAGGTCCTGCCAACATTAGCGGACTGCACTAACGa                   >  1:9032/1‑140 (MQ=255)                                                                                                                            ttCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGATCGTTTAACCCTGATGTTCGGAATGCACAGAAGGTCCTGCCAACATTAGCGGACTGCACTAACGACTGACGGCTgcg       <  1:525516/140‑1 (MQ=255)                                                                                                                            ttCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGATCGTTTAACCCTGATGTTCGGAATGCACAAAAGGTCCTGCCAACATTAGCGGACTGCACTAACGACTGACGGCTgcg       <  2:358612/140‑1 (MQ=255)                                                                                                                            ttCATCATTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGATCGTTTAACCCTGATGTTCGGAATGCACAAAAGGTCCTGCCAACATTAGCGGACTGCACTAACGACTGACGGCTgcg       <  2:194423/140‑1 (MQ=255)                                                                                                                             tcatcaTTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGATCGTTTAACCCTGATGTTCGGAATGCACAAAAGGTCCTGCCAACATTAGCGGACTGCACTAACGACTGACGGCTgcgc      >  2:746317/1‑140 (MQ=255)                                                                                                                              catcatTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGATCGTTTAACCCTGATGTTCGGAATGCACAAAAGGTCCTGCCAACATTAGCGGACTGCACTAACGACTGACGGCTGCGcc     <  2:117170/140‑1 (MQ=255)                                                                                                                              catcatTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGATCGTTTAACCCTGATGTTCGGAATGCACAAAAGGTCCTGCCAACATTAGCGGACTGCACTAACGACTGACGGCTGCGcc     <  2:9032/140‑1 (MQ=255)                                                                                                                                 catTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGATCGTTTAACCCTGATGTTCGGAATGCACAAAAGGTCCTGCCAACATTAGCGGACTGCACTAACGACTGACGGCTGCGCCTTc  <  1:591095/140‑1 (MQ=255)                                                                                                                                 catTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGATCGTTTAACCCTGATGTTCGGAATGCACAAAAGGTCCTGCCAACATTAGCGGACTGCACTAACGACTGACGGCTGCGCCTTc  <  1:743666/140‑1 (MQ=255)                                                                                                                                 catTGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGATCGTTTAACCCTGATGTTCGGAATGCACAAAAGGTCCTGCCAACATTAGCGGACTGCACTAACGACTGACGGCTGCGCCTTc  <  2:284475/140‑1 (MQ=255)                                                                                                                                    |                                                                                                                                         GCCGGGGATAAAACGGTCAGCTCGCATGATGACAGTACCGGCATCACAGTGGTGATGGACCATAAGCAATATGCCATTCCCTCAACCCTTGGCTGGCGTAACGGAGATAATGCCTGGTTCAGCTTCATCATGGATATCCGTAAGGCCCGGCAGTTCGACGTCTACGTCAATGACCAGAAAGTTGGATCGTTTAACCCTGATGTTCGGAATGCACAAAAGGTCCTGCCAACATTAGCGGACTGCACTAACGACTGACGGCTGCGCCTTC  >  NC_000913/2771361‑2771628

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑