Predicted mutation
evidence seq id position mutation annotation gene description
RA NC_000913 2,770,404 G→A *234* (TAG→TAA)  yfjR → CP4‑57 prophage, putative DNA‑binding transcriptional regulator

Read alignment evidence...
  seq id position ref new freq score (cons/poly) reads annotation genes product
*NC_0009132,770,4040GA100.0% 135.8 / NA 43*234* (TAG→TAA) yfjRCP4‑57 prophage, putative DNA‑binding transcriptional regulator
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (18/25);  total (18/25)

TGCAGGAGACTTTTCGCCGCAATGACAGTCTGTGTCGCCTGGTTGAAGACCCGGTCTTCATTCAGGCCTTACCCCATTTTCGCTTTATCCAGCATTCACTGCTTACGTTTGTTCCGGCCGACAGCCCACCGGAATAGCGCAGGCGTTGTTATCAACCCGGCAACATGGAGGAGCCCAGTGCCCGTTATTGCCATTATCGCCATTGTTATCATCGTCATCATTCTGAACAAAACCGGAGTGTCCGACAGCCTCACGGCCCTGACACTTGC  >  NC_000913/2770268‑2770536
                                                                                                                                        |                                                                                                                                    
tGCAGGAGACTTTTCGCCGCAATGACAGTCTGTGTCGCCTGGTTGAAGACCCGGTCTTCATTCAGGCCTTACCCCATTTTCGCTTTATCCAGCATTCACTGCTTACGTTTGTTCCGGCCGACAGCCCACCGGAATAacg                                                                                                                                    >  2:545130/1‑139 (MQ=255)
   aGGAGACTTTTCGCCGCAATGACAGTCTGTGTCGCCTGGTTGAAGACCCGGTCTTCATTCAGGCCTTACCCCATTTTCGCTTTATCCAGCATTCACTGCTTACGTTTGTTCCGGCCGACAGCCCACCGGAATAACGCAg                                                                                                                                 <  2:1204889/139‑1 (MQ=255)
   aGGAGACTTTTCGCCGCAATGACAGTCTGTGTCGCCTGGTTGAAGACCCGGTCTTCATTCAGGCCTTACCCCATTTTCGCTTTATCCAGCATTCACTGCTTACGTTTGTTCCGGCCGACAGCCCACCGGAATAACGCAg                                                                                                                                 <  2:1167777/139‑1 (MQ=255)
                ccgcAATGACAGTCTGTGTCGCCTGGTTGAAGACCCGGTCTTCAATCAGGCCTTACCCCATTTTCGCTTTATCCAGCATTCACTGCTTACGTTTGTTCCGGCTGACCGCCCACCGCAATAACGCAGGCTTTGTGATCaa                                                                                                                    <  2:380594/139‑1 (MQ=255)
                            tCTGTGTCGCCTGGTTGAAGACCCGGTCTTCATTCAGGCCTTACCCCATTTTCGCTTTATCCAGCATTCACTGCTTACGTTTGTTCCGGCCGACAGCCCACCGGAATAACGCAGGCGTTGTTATCaa                                                                                                                    <  1:1252876/127‑1 (MQ=255)
                            tCTGTGTCGCCTGGTTGAAGACCCGGTCTTCATTCAGGCCTTACCCCATTTTCGCTTTATCCAGCATTCACTGCTTACGTTTGTTCCGGCCGACAGCCCACCGGAATAACGCAGGCGTTGTTATCaa                                                                                                                    >  2:1252876/1‑127 (MQ=255)
                               gtgtCGCCTGGTTGAAGACCCGGTCTTCATTCAGGCCTTACCCCATTTTCGCTTTATCCAGCATTCACTGCTTACGTTTGTTCCGGCCGACAGCCCACCGGAATAACGCAGGCGTTGTTATCAACCCGGCAACATggag                                                                                                     <  2:111049/139‑1 (MQ=255)
                                    gCCTGGTTGAAGACCCGGTCTTCATTCAGGCCTTACCCCATTTTCGCTTTATCCAGCATTCACTGCTTACGTTTGTTCCGGCCGACAGCCCACCGGAATAACGCAGGCGTTGTTATCAACCCGGCAACATGGAGGAGcc                                                                                                <  1:184812/139‑1 (MQ=255)
                                     ccTGGTTGAAGACCCGGTCTTCATTCAGGCCTTACCCCATTTTCGCTTTATCCAGCATTCACTGCTTACGTTTGTTCCGGCCGACAGCCCACCGGAATAACGCAGGCGTTGTTATCAACCCGGCAACATGGAGGAGccc                                                                                               >  2:705173/1‑139 (MQ=255)
                                     ccTGGTTGAAGACCCGGTCTTCATTCAGGCCTTACCACATTTTCGCTATATCCAGCATTCACTACTTACGTTTGTTCCGGCCGACAGTCCACCGGAATAACGCAGGCGTTGTTATCAACCCGGCAACATGGAGGAGccc                                                                                               >  1:975731/1‑139 (MQ=255)
                                        ggTTGAAGACCCGGTCTTCATTCAGGCCTTACCCCATTTTCGCTTTATCCAGCATTCACTGCTTACGTTTGTTCCGGCCGACAGCCCACCGGAATAACGCAGGCGTTGTTATCAACCCGGCAACATGGAGGAGCCCAGt                                                                                            <  2:327371/139‑1 (MQ=255)
                                         gTTGAAGACCCGGTCTTCATTCAGGCCTTACCCCATTTTCGCTTTATCCAGCATTCACTGCTTACGTTTGTTCCGGCCGACAGCCCACCGGAATAACGCAGGCGTTGTTATCAACCCGGCAACATGGAGGAGCCCAGTg                                                                                           >  2:366196/1‑139 (MQ=255)
                                                     gTCTTCATTCAGGCCTTACCCCATTTTCGCTTTATCCAGCATTCACTGCTTACGTTTGTTCCGGCCGACAGCCCACCGGAATAACGCAGGCGTTGTTATCAACCCGGCAACATGGAGGAGCCCAGTGCCCGTTAt                                                                                   <  2:914917/135‑1 (MQ=255)
                                                     gTCTTCATTCAGGCCTTACCCCATTTTCGCTTTATCCAGCATTCACTGCTTACGTTTGTTCCGGCCGACAGCCCACCGGAATAACGCAGGCGTTGTTATCAACCCGGCAACATGGAGGAGCCCAGTGCCCGTTAt                                                                                   >  1:914917/1‑135 (MQ=255)
                                                     gTCTTCATTCAGGCCTTACCCCATTTTCGCTTTATCCAGCATTCACTGCTTACGTTTGTTCCGGCCGACAGCCCACCGGAATAACGCAGGCGTTGTTATCAACCCGGCAACATGGAGGAGCCCAGTGCCCGTTATTGcc                                                                               <  1:983452/139‑1 (MQ=255)
                                                         tcattcaGGCCTTACCCCATTTTCGCTTTATCCAGCATTCACTGCTTACGTTTGTTCCGGCCGACAGCCCACCGGAATAACGCAGGCGTTGTTAt                                                                                                                       <  2:1402715/95‑1 (MQ=255)
                                                         tcattcaGGCCTTACCCCATTTTCGCTTTATCCAGCATTCACTGCTTACGTTTGTTCCGGCCGACAGCCCACCGGAATAACGCAGGCGTTGTTAt                                                                                                                       >  1:1402715/1‑95 (MQ=255)
                                                              caGGCCTTACCCCATTTTCGCTTTATCCAGCATTCACTGCTTACGTTTGTTCCGGCCGACAGCCCACCGGAATAACGCAGGCGTTGTTATCAACCCGGCAACATGGAGGAGCCCAGTGCCCGTTATTGCCATTATCGcc                                                                      <  1:366196/139‑1 (MQ=255)
                                                              caGGCCTTACCCCATTTTCGCTTTATCCAGCATTCACTGCTTACGTTTGTTCCGGCCGACACCCCACCGGAATAACGCAGGCGTTGTTATCAACCCGGCAACATGGAGGAGCCCAGTGCCCGTTATTGCCATTATCGcc                                                                      <  2:975731/139‑1 (MQ=255)
                                                                ggCCTTACCCCATTTTCGCTTTATCCAGCATTCACTGCTTACGTTTGTTCCGGCCGACAGCCCACCGGAATAACGCAGGCGTTGTTATCAACCCGGCAACATGGAGGAGCCCAGTGCCCGTTATTGCCATTATCGCCAt                                                                    >  2:325687/1‑139 (MQ=255)
                                                                           aTTTTCGCTTTATCCAGCATTCACTGCTTACGTTTGTTCCGGCCGACAGCCCACCGGAATAACGCAg                                                                                                                                 >  2:478845/1‑67 (MQ=255)
                                                                           aTTTTCGCTTTATCCAGCATTCACTGCTTACGTTTGTTCCGGCCGACAGCCCACCGGAATAACGCAg                                                                                                                                 <  1:478845/67‑1 (MQ=255)
                                                                              ttCGCTTTATCCAGCATTCACTGCTTACGTTTGTTCCGGCCGACAGCCCACCGGAATAACGCAGGCGTTGTTATCAACCCGGCAACATGGAGGAGCCCAGTGCCCGTTATTGCCATTATCGCCATTGTTATCATCGtca                                                      <  1:545130/139‑1 (MQ=255)
                                                                                                 aCTGCTTACGTTTGTTCCGGCCGACAGCCCACCGGAATAACGCAGGCGTTGTTATCAACCCGGCa                                                                                                             >  1:128597/1‑65 (MQ=255)
                                                                                                 aCTGCTTACGTTTGTTCCGGCCGACAGCCCACCGGAATAACGCAGGCGTTGTTATCAACCCGGCa                                                                                                             <  2:128597/65‑1 (MQ=255)
                                                                                                 aCTGCTTACGTTTGTTCCGGCCGACAGCCCACCGGAATAACGCAGGCGTTGTTATCAACCCGGCAACATGGAGGAGCCCAGTGCCCGTTATTGCCATTATCGCCATTGTTATCATCGTTATCAtt                                                 >  2:700430/1‑125 (MQ=255)
                                                                                                 aCTGCTTACGTTTGTTCCGGCCGACAGCCCACCGGAATAACGCAGGCGTTGTTATCAACCCGGCAACATGGAGGAGCCCAGTGCCCGTTATTGCCATTATCGCCATTGTTATCATCGTTATCAtt                                                 <  1:700430/125‑1 (MQ=255)
                                                                                                          gTTTGTTCCGGCCGACAGCCCACCGGAATAACGCAGGCGTTGTTAt                                                                                                                       >  2:1055560/1‑46 (MQ=255)
                                                                                                          gTTTGTTCCGGCCGACAGCCCACCGGAATAACGCAGGCGTTGTTAt                                                                                                                       <  1:1055560/46‑1 (MQ=255)
                                                                                                           tttGTTCCGGCCGACAGCCCACCGGAATAACGCAGGCGTTGTTATCAACCCgg                                                                                                               <  1:98104/53‑1 (MQ=255)
                                                                                                           tttGTTCCGGCCGACAGCCCACCGGAATAACGCAGGCGTTGTTATCAACCCgg                                                                                                               >  2:98104/1‑53 (MQ=255)
                                                                                                           tttGTTCCGGCCGACAGCCCACCGGAATAACGCAGGCGTTGTTATCAACCCGGCAACATGGAGGAGCCCAGTGCCCGTTATTGCCATTATCGCCATTGTTATCATCGTCATCATTCTGAACAAAACCGGAGTGTCCGAc                         <  1:705173/139‑1 (MQ=255)
                                                                                                               ttCCGGCCGACAGCCCACCGGAATAACGCAGGCGTTGTTATCAACCCGGCAACATGGAGGAGCCCAGTGCCCGTTGTTGCCATTATCGCCATTATTatcat                                                           >  2:986690/1‑101 (MQ=255)
                                                                                                               ttCCGGCCGACAGCCCACCGGAATAACGCAGGCGTTGTTATCAACCCGGCAACATGGAGGAGCCCAGTGCCCGTTATTGCCATTATCGcc                                                                      <  2:575773/90‑1 (MQ=255)
                                                                                                               ttCCGGCCGACAGCCCACCGGAATAACGCAGGCGTTGTTATCAACCCGGCAACATGGAGGAGCCCAGTGCCCGTTATTGCCATTATCGcc                                                                      >  1:575773/1‑90 (MQ=255)
                                                                                                               ttCCGGCCGACAGCCCACCGGAATAACGCAGGCGTTGTTATCAACCCGGCAACATGGAGGAGCCCAGTGCCCGTTATTGCCATTATCGCCATTGTTatcat                                                           <  1:986690/101‑1 (MQ=255)
                                                                                                               ttCCGGCCGACAGCCCACCGGAATAACGCAGGCGTTGTTATCAACCCGGCAACATGGAGGAGCCCAGTGCCCGTTATTGCCATTATCGCCATTGTTATCATCGTCATCATTCTGaa                                            <  2:561947/116‑1 (MQ=255)
                                                                                                               ttCCGGCCGACAGCCCACCGGAATAACGCAGGCGTTGTTATCAACCCGGCAACATGGAGGAGCCCAGTGCCCGTTATTGCCATTATCGCCATTGTTATCATCGTCATCATTCTGaa                                            >  1:561947/1‑116 (MQ=255)
                                                                                                                        aCAGCCCACCGGAATAACGCAGGCGTTGTTATCAAcc                                                                                                                  >  2:30537/1‑37 (MQ=255)
                                                                                                                        aCAGCCCACCGGAATAACGCAGGCGTTGTTATCAAcc                                                                                                                  >  2:1262195/1‑37 (MQ=255)
                                                                                                                        aCAGCCCACCGGAATAACGCAGGCGTTGTTATCAAcc                                                                                                                  <  1:30537/37‑1 (MQ=255)
                                                                                                                        aCAGCCCACCGGAATAACGCAGGCGTTGTTATCAAcc                                                                                                                  <  1:1262195/37‑1 (MQ=38)
                                                                                                                         cAGCCCACCGGAATAACGCAGGCGTTGTTATCAACCCGGCAACATGGAGGAGCCCAGTGCCCGTTATTGCCATTATCGCCATTGTTATCATCGTCATCATTCTGAACAAAACCGGAGTGTCCGACAGCCTCACGGCCCt           >  2:791590/1‑139 (MQ=255)
                                                                                                                                  ggAATAACGCAGGCGTTGTTATCAACCCGGCAACATGGAGGAGCCCAGTGCCCGTTATTGCCATTATCGCCATTGTTATCATCGTCATCATTCTGAACAAAACCGGAGTGTCCGACAGCCTCACGGCCCTGACACTTGc  <  1:1192649/139‑1 (MQ=255)
                                                                                                                                        |                                                                                                                                    
TGCAGGAGACTTTTCGCCGCAATGACAGTCTGTGTCGCCTGGTTGAAGACCCGGTCTTCATTCAGGCCTTACCCCATTTTCGCTTTATCCAGCATTCACTGCTTACGTTTGTTCCGGCCGACAGCCCACCGGAATAGCGCAGGCGTTGTTATCAACCCGGCAACATGGAGGAGCCCAGTGCCCGTTATTGCCATTATCGCCATTGTTATCATCGTCATCATTCTGAACAAAACCGGAGTGTCCGACAGCCTCACGGCCCTGACACTTGC  >  NC_000913/2770268‑2770536

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑