Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,205,731	G→A	*61* (TAG→TAA)  pseudogene (1/412 nt)	ymfR → beeE →	e14 prophage, uncharacterized protein pseudogene, portal protein family, e14 prophage,Phage or Prophage Related

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,205,731	0	G	A	100.0%	101.7 / NA	32	*61* (TAG→TAA)  pseudogene (1/412 nt)	ymfR beeE	e14 prophage, uncharacterized protein pseudogene, portal protein family, e14 prophage,Phage or Prophage Related
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (17/15);  total (17/15)

CCTGGCTGATTTATCCCCCGGCGGGTTTTGTTGTTGCCGGGGCGCTGTGCCTGTTCTGGTCGTGGCTGGTGGCGCGATATCTCGACCGTACACAGTCGTCTGTCGGCGGAGGTAAATAGTGTTCTTTTCGGGATTATTTCAACGAAAAAGTGACGCACCGGTGACCACGCCAGCAGAGCTGGCGGATGCCATCGGGCTGTCGTATGACACCTATACCGGAAAGCAGATCAGCAGTCAG  >  NC_000913/1205613‑1205850                                                                                                                       |                                                                                                                        ccTGGCTGATTTATCCCCCGGCGGGTTTTGTTGTTGCCGGGGCGCTGTGCCTGTTCTGGTCGTGGCTGGTGGCGCGATATCTCGACCGTACACAGTCGTCTGTCGGCGGAGGTAAATAATGTTCTTTTCGGGATTAttt                                                                                                     >  1:638677/1‑139 (MQ=255)    ggCTGATTTATCCCCCGGCGGGTTTTGTTGTTGCCGGGGCGCTGTGCCTGTTCTGGTCGTGGCTGGTGGCGCGATATCTCGACCGTACACAGTCGTCTGTCGGCGGAGGTAAATAATGTTCTTTTCGGGATTATTTCaa                                                                                                  >  2:1613351/1‑139 (MQ=255)         aTTTATCCCCCGGCGGGTTTTGTTGTTGCCGGGGCGCTGTGCCTGTTCTGGTCGTGGCTGGTGGCGCGATATCTCGACCGTACACAGTCGTCTGTCGGCGGAGGTAAATAATGTTCTTTTCGGGATTATTTCAACGaaa                                                                                             <  1:1530831/139‑1 (MQ=255)                ccccGGCGGGTTTTGTTGTTGCCGGGGCGCTGTGCCTGTTCTGGTCGTGGCTGGTGGCGCGATATCTCGACCGTACACAGTCGTCTGTCGGCGGAGGTAAATAATGTTCTTTTCGGGATTATTTCAACGAAAAAGTGAc                                                                                      <  2:187646/139‑1 (MQ=255)                   cggcggGTTTTGTTGTTGCCGGGGCGCTGTGCCTGTTCTGGTCGTGGCTGGTGGCGCGATATCTCGACCGTACACAGTCGTCTGTCGGCGGAGGTAAATAATGTTCTTTTCGGGATTATTTCAACGAAAAAGTGACGCa                                                                                   >  2:1346801/1‑139 (MQ=255)                         gTTTTGTTGTTGCCGGGGCGCTGTGCCTGTTCTGGTCGTGGCTGGTGGCGCGATATCTCGACCGTACACAGTCGTCTGTCGGCGGAGGTAAATAATGTTCTTTTCGGGATTATTTCAACGAAAAAGTGACGCACCGGTg                                                                             <  2:71090/139‑1 (MQ=255)                                                tgCCTGTTCTGGTCGTGGCTGGTGGCGCGATATCTCGACCGTACACAGTCGTCTGTCGGCGGAGGTAAATAATGTTCTTTTCGGGATTATTTCAACGAAAAAGTGACGCACCGGTGACCACGCCAGCAGAGCTGGCGGa                                                      <  1:1346801/139‑1 (MQ=255)                                                  ccTGTTCTGGTCGTGGCTGGTGGCGCGATATCTCGACCGTACACAGTCGTCTGTCGGCGGAGGTAAATAatgt                                                                                                                      <  1:884712/73‑1 (MQ=255)                                                  ccTGTTCTGGTCGTGGCTGGTGGCGCGATATCTCGACCGTACACAGTCGTCTGTCGGCGGAGGTAAATAatgt                                                                                                                      >  2:884712/1‑73 (MQ=255)                                                      ttCTGGTCGTGGCTGGTGGCGCGATATCTCGACCGTACACAGTCGTCTGTCGGCGGAGGTAAATAATGTTCTTTTCGGGATTATTTCAACGAAAAAGTGACGCACCGGTGACCACGCCAGCAGAGCTGGCGGATGCCAt                                                >  1:122193/1‑139 (MQ=255)                                                      ttCTGGTCGTGGCTGGTGGCGCGATATCTCGACCGTACACAGTCGTCTGTCGGCGGAGGTAAATAATGTTCTTTTCGGGATTATTTCAACGAAAAAGTGACGCACCGGTGACCACGCCAGCAGAGCTGGCGGATGCCAt                                                >  1:1340843/1‑139 (MQ=255)                                                          ggTCGTGGCTGGTGGCGCGATATCTCGACCGTACACAGTCGTCTGTCGGCGGAGGTAAATAATGTTCTTTTCGGGATTATTTCAACGAAAAAGTGACGCACCGGTGACCACGCCAGCAGAGCTGGCGGATGCCATCggg                                            <  2:433685/139‑1 (MQ=255)                                                           gTCGTGGCTGGTGGCGCGATATCTCGACCGTACACAGTCGTCTGTCGGCGGAGGTAAATAATGTTCTTTTCGGGATTATTTCAACGAAAAAGTGACGCACCGGTGACCACGCCAGCAGAGCTGGCGGATGCCATCGGGc                                           <  1:1613351/139‑1 (MQ=255)                                                               tGGCTGGTGGCGCGATATCTCGACCGTACACAGTCGTCTGTCGGCGGAGGTAAATAATGTTCTTTTCGGGATTAttt                                                                                                     <  1:267608/77‑1 (MQ=255)                                                               tGGCTGGTGGCGCGATATCTCGACCGTACACAGTCGTCTGTCGGCGGAGGTAAATAATGTTCTTTTCGGGATTAttt                                                                                                     >  2:267608/1‑77 (MQ=255)                                                                   tggtggCGCGATATCTCGACCGTACACAGTCGTCTGTCGGCGGAGGTAAATAATGTTCTTTTCGGGATTATTTCAACGAAAAAGTGACGCACCGGTGACCACGCCAGCAGAGCTGGCGGATGCCATCGGGCTGTCGTAt                                   <  2:242676/139‑1 (MQ=255)                                                                     gtggCGCGATATCTCGACCGTACACAGTCGTCTGTCGGCGGAGGTAAATAATGTTCTTTTCGGGATTATTTCAACGAAAAAGTGACGCACCGGTGACCACGCCAGCAGAGCTGGCGGATGCCATCGGGCTGTCGTATGa                                 >  2:171141/1‑139 (MQ=255)                                                                         cgcgATATCTCGACCGTACACAGTCGTCTGTCGGCGGAGGTAAATAATGTTCTTTTCGGGATTATTTCAACGAAAAAGTGACGCACCGGTGACCACGCcagca                                                                 <  1:1375151/103‑1 (MQ=255)                                                                         cgcgATATCTCGACCGTACACAGTCGTCTGTCGGCGGAGGTAAATAATGTTCTTTTCGGGATTATTTCAACGAAAAAGTGACGCACCGGTGACCACGCcagca                                                                 >  2:1375151/1‑103 (MQ=255)                                                                                        gTACACAGTCGTCTGTCGGCGGAGGTAAATAATGTTCTTTTCGGGATTATTTCAACGAAAAAGTGACGCACCGGTGACCACGCCAGCAGAGCTGGCGGATGCCATCGGGCTGTCGTATGACACCTATACCGGAAAGCAg              >  2:1508481/1‑139 (MQ=255)                                                                                                tcgtcTGTCGGCGGAGGTAAATAATGTTCTTTTCGGGATTATTTCAACGAAAAAGTGACGCACCGGTGAc                                                                           <  2:884440/70‑1 (MQ=255)                                                                                                tcgtcTGTCGGCGGAGGTAAATAATGTTCTTTTCGGGATTATTTCAACGAAAAAGTGACGCACCGGTGAc                                                                           >  1:884440/1‑70 (MQ=255)                                                                                                tcgtcTGTCGGCGGAGGTAAATAATGTTCTTTTCGGGATTATTTCAACGAAAAAGTGACGCACCGGTGACCACg                                                                       >  2:1214624/1‑74 (MQ=255)                                                                                                tcgtcTGTCGGCGGAGGTAAATAATGTTCTTTTCGGGATTATTTCAACGAAAAAGTGACGCACCGGTGACCACg                                                                       <  1:1214624/74‑1 (MQ=255)                                                                                                tcgtcTGTCGGCGGAGGTAAATAATGTTCTTTTCGGGATTATTTCAACGAAAAAGTGACGCACCGGTGACCACGCCAGCAGAGCTGGCGGATGCCATCGGGCTGTCGTATGACACCta                           <  1:713887/118‑1 (MQ=255)                                                                                                tcgtcTGTCGGCGGAGGTAAATAATGTTCTTTTCGGGATTATTTCAACGAAAAAGTGACGCACCGGTGACCACGCCAGCAGAGCTGGCGGATGCCATCGGGCTGTCGTATGACACCta                           >  2:713887/1‑118 (MQ=255)                                                                                                 cgtcTGTCGGCGGAGGTAAATAATGTTCTTTTCGGGATTATTTCAACGAAAAAGTGACGCACCGGTGACCACGCCAGCAGAGCTGGCGGATGCCATCGGGCTGTCGTATGACACCTATACCGGAAAGCAGATCAGCAGt     >  1:1288743/1‑139 (MQ=255)                                                                                                   tcTGTCGGCGGAGGTAAATAATGTTCTTTTCGGGATTATTTCAACGAAAAAGTGACGCACCGGTGACCACGCCAGCAGAGCTGGCGGATGCCATCggg                                            >  1:647006/1‑98 (MQ=255)                                                                                                   tcTGTCGGCGGAGGTAAATAATGTTCTTTTCGGGATTATTTCAACGAAAAAGTGACGCACCGGTGACCACGCCAGCAGAGCTGGCGGATGCCATCggg                                            <  2:647006/98‑1 (MQ=255)                                                                                                   tcTGTCGGCGGAGGTAAATAATGTTCTTTTCGGGATTATTTCAACGAAAAAGTGACGCACCGGTGACCACGCCAGCAGAGCTGGCGGATGCCATCGGGCTGTCGTATGACACCTATACCGGAAAGCAGATCAGCAGTCa   >  2:1272692/1‑139 (MQ=255)                                                                                                   tcTGTCGGCGGAGGTAAATAATGTTCTTTTCGGGATTATTTCAACGAAAAAGTGACGCACCGGTGACCACGCCAGCAGAGCTGGCGGATGCCATCGGGCTGTCGTATGACACCTATACCGGAAAGCAGATCAGCAGTCa   >  2:502410/1‑139 (MQ=255)                                                                                                    cTGTCGGCGGAGGTAAATAATGTTCTTTTCGGGATTATTTCAACGAAAAAGTGACGCACCGGTGACCACGCCAGCAGAGCTGGCGGATGCCATCGGGCTGTCGTATGACACCTATACCGGAAAGCAGATCAGCAGTCAg  <  1:1272692/139‑1 (MQ=255)                                                                                                                gTAAATAATGTTCTTTTCGGGATTATTTCAACGAAAAAGTGACGCACCGGTGACCACGCCAGCAGAGCTGGCGGATGCCATCGGGCTGTCGTATGACACCTATACCGGAAAGCAGATcagc        <  1:1104276/121‑1 (MQ=255)                                                                                                                gTAAATAATGTTCTTTTCGGGATTATTTCAACGAAAAAGTGACGCACCGGTGACCACGCCAGCAGAGCTGGCGGATGCCATCGGGCTGTCGTATGACACCTATACCGGAAAGCAGATcagc        >  2:1104276/1‑121 (MQ=255)                                                                                                                       |                                                                                                                        CCTGGCTGATTTATCCCCCGGCGGGTTTTGTTGTTGCCGGGGCGCTGTGCCTGTTCTGGTCGTGGCTGGTGGCGCGATATCTCGACCGTACACAGTCGTCTGTCGGCGGAGGTAAATAGTGTTCTTTTCGGGATTATTTCAACGAAAAAGTGACGCACCGGTGACCACGCCAGCAGAGCTGGCGGATGCCATCGGGCTGTCGTATGACACCTATACCGGAAAGCAGATCAGCAGTCAG  >  NC_000913/1205613‑1205850

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑