Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	281,830	C→A	A52S (GCT→TCT)	yagA ←	CP4‑6 prophage; integrase core domain‑containing protein YagA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	281,830	0	C	A	100.0%	63.9 / NA	20	A52S (GCT→TCT)	yagA	CP4‑6 prophage; integrase core domain‑containing protein YagA
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base A (10/10);  total (10/10)

CTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGAATGGTGCGGAATGCGCGGGCGGTCCTGAAGACCGGCGGCACCTTCCTGAGCCCAGCGCTGGAGCCACTTGTAGCCGGTGGCAGGTGAAATGCCGAAGCGACGGCAGAGGGAACGGATGTTCGCCCCGTCCTGCGAGGCGAACAAAACAAACTCAGTACGTAATGACATGGTATCTCTCGCATCCC  >  NC_000913/281693‑281964                                                                                                                                          |                                                                                                                                       cTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGAATGGTGCGGAATGCGCGGGCGGTCCTGAAGACCGGCGGCACCTTCCTGAGacc                                                                                                                                      >  1:74885/1‑140 (MQ=255)    aaTCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGAATGGTGCGGAATGCGCGGGCGGTCCTGAAGACCGGCGGCACCTTCCTGAGACCAgc                                                                                                                                   >  1:246680/1‑140 (MQ=255)           cGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGAATGGTGCGGAATGCGCGGGCGGTCCTGAAGACCGGCGGCACCTTCCTGAGACCAGCGCTGGAg                                                                                                                            <  1:344296/140‑1 (MQ=255)           cGGACTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGAATGGTGCGGAATGCGCGGGCGGTCCTGAAGACCGGCGGCACCTTCCTGAGACCAGCGCTGGAg                                                                                                                            <  1:161250/140‑1 (MQ=255)                         ttCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGAATGGTGCGGAATGCGCGGGCGGTCCTGAAGACCGGCGGCACCTTCCTGAGACCAGCGCTGGAGCCACTTGTAGCCgg                                                                                                              >  2:123977/1‑140 (MQ=255)                              gACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGAATGGTGCGGAATGCGCGGGCGGTCCTGAAGACCGGCGGCACCTTCCTGAGACCAGCGCTGGAGCCACTTGTAGCCGGTGGCa                                                                                                         >  1:328349/1‑140 (MQ=255)                                   tCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGAATGGTGCGGAATGCGCGGGCGGTCCTGAAGACCGGCGGCACCTTCCTGAGACCAGCGCTGGAGCCACTTGTAGCCGGTGGCAGGTGa                                                                                                    >  1:95565/1‑140 (MQ=255)                                                          cGTGATGTCGTCAGATGAGCGGTTCGGGGAATGGTGCGGAATGCGCGGGCGGTCCTGAAGACCGGCGGCACCTTCCTGAGACCAGCGCTGGAGCCACTTGTAGCCGGTGGCAGGTGAAATGCCGAAGCGACGGCAGAggg                                                                             >  2:327519/1‑140 (MQ=255)                                                               tGTCGTCAGATGAGCGGTTCGGGGAATGGTGCGGAATGCGCGGGCGGTCCTGAAGGCCGGCGGCACCTTCCTGAGACCAGCGCTGGAGCCACTTGTAGCCGGTGGCAGGTGAAATGCCGAAGCGACGGCAGAGGGAACgg                                                                        <  1:52560/140‑1 (MQ=255)                                                                                          ggTGCGGAATGCGCGGGCGGTCCTGAAGACCGGCGGCACCTTCCTGAGACCAGCGCTGGAGCCACTTGTAGCCGGTGGCAGGTGAAATGCCGAAGCGACGGCAGAGGGAACGGATGTTCGCCCCGTCCTGCGAGGCGaac                                             >  1:19261/1‑140 (MQ=255)                                                                                            tGCGGAATGCGCGGGCGGTCCTGAAGACCGGCGGCACCTTCCTGAGACCAGCGCTGGAGCCACTTGTAGCCGGTGGCAGGTGAAATGCCGAAGCGACGGCAGAGGGAACGGATGTTCGCCCCGTCCTGCTAGGCGaacaa                                           >  1:27679/1‑140 (MQ=255)                                                                                                  aTGCGCGGGCGGTCCTGAAGACCGGCGGCACCTTCCTGAGACCAGCGCTGGAGCCACTTGTAGCCGGTGGCAGGTGAAATGCCGAAGCGACGGCAGAGGGAACGGATGTACGCCCCGTCCTGCGAGGCGAacaaaacaaa                                     <  1:327519/140‑1 (MQ=255)                                                                                                     cgcgGGCGGTCCTGAAGACCGGCGGCACCTTCCTGAGACCAGCGCTGGAGCCACTTGTAGCCGGTGGCAGGTGAAATGCCGAAGCGACGGCAGAGGGAACGGATGTTCGCCCCGTCCTGCGAGGCGAACAAAACAAACTc                                  <  1:223113/140‑1 (MQ=255)                                                                                                       cgggcggTCCTGAAGACCGGCGGCACCTTCCTGAGACCAGCGCTGGAGCCACTTGTAGCCGGTGGCAGGTGAAATGCCGAAGCGACGGCAGAGGGAACGGATGTTCGCCCCGTCCTGCGAGGCGAACAAAACAAACTCAg                                <  1:313681/140‑1 (MQ=255)                                                                                                             gTCCTGAAGACCGGCGGCACCTTCCTGAGACCAGCGCTGGAGCCACTTGTAGCCGGTGGCAGGTGAAATGCCGAAGCGACGGCAGAGGGAACGGATGTTCGCCCCGTCCTGCGAGGCGAACAAAACAAACTCAGTACGTa                          >  1:210516/1‑140 (MQ=255)                                                                                                                 tGAAGACCGGCGGCACCTTCCTGAGACCAGCGCTGGAGCCACTTGTAGCCGGTGGCAGGTGAAATGCCGAAGCGACGGCAGAGGGAACGGATGTTCGCCCCGTCCTGCGAGGCGAACAAAACAAACTCAGTACGTAATGa                      <  1:11730/140‑1 (MQ=255)                                                                                                                  gAAGACCGGCGGCACCTTCCTGAGACCAGCGCTGGAGCCACTTGTAGCCGGTGGCAGGTGAAATGCCGAAGCGACGGCAGAGGGAACGGATGTTCGCCCCGTCCTGCGAGGCGAACAAAACAAACTCAGTACGTAATGAc                     <  2:135545/140‑1 (MQ=255)                                                                                                                        cggcggCACCTTCCTGAGACCAGCGCTGGAGCCACTTGTAGCCGGTGGCAGGTGAAATGCCGAAGCGACGGCAGAGGGAACGGATGTTCGCCCCGTCCTGCGAGGCGAACAAAACAAACTCAGTACGTAATGACATGGTa               >  1:79336/1‑140 (MQ=255)                                                                                                                        cggcggCACCTTCCTGAGACCAGCGCTGGAGCCACTTGTAGCCGGTGGCAGGTGAAATGCCGAAGCGACGGCAGAGGGAACGGATGTTCGCCCCGTCCTGCGAGGCGAACAAAACAAACTCAGTACGTAATGACATGGTa               >  1:109547/1‑140 (MQ=255)                                                                                                                               aCCTTCCTGAGACCAGCGCTGGAGCCACTTGTAGCCGGTGGCAGGTGAAATGCCGAAGCGACGGCAGAGGGAACGGATGTTCGCCCCGTCCTGCGAGGCGAACAAAACAAACTCAGTACGTAATGACATGGTATCTCTCg        <  2:62473/140‑1 (MQ=255)                                                                                                                                     cTGAGACCAGCGCTGGAGCCACTTGTAGCCGGTGGCAGGTGAAATGCCGAAGCGACGGCAGAGGGAACGGATGTTCGCCCCGTCCTGCGAGGCGAACAAAACAAACTCAGTACGTAATGACATGGTATCTCTCGCATccc  <  2:19261/140‑1 (MQ=255)                                                                                                                                          |                                                                                                                                       CTTAATCTTGCGGGCTCCCCAGCGTTCATGACGGTCATGGGCCATACGCAGCAGGGCCGTGATGTCGTCAGATGAGCGGTTCGGGGAATGGTGCGGAATGCGCGGGCGGTCCTGAAGACCGGCGGCACCTTCCTGAGCCCAGCGCTGGAGCCACTTGTAGCCGGTGGCAGGTGAAATGCCGAAGCGACGGCAGAGGGAACGGATGTTCGCCCCGTCCTGCGAGGCGAACAAAACAAACTCAGTACGTAATGACATGGTATCTCTCGCATCCC  >  NC_000913/281693‑281964

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑