Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,649,041	G→A	*73* (TAG→TAA)	ydfC →	uncharacterized protein, Qin prophage

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,649,041	0	G	A	100.0%	140.8 / NA	45	*73* (TAG→TAA)	ydfC	uncharacterized protein, Qin prophage
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (26/19);  total (26/19)

AGCGCAGGATCTGAAATGGGCTAATGAAGCCAGGGCTAAGCAGGCTGAAAATCTGTCCGCTCTGGAGCAGGATATCACCAATCTGGAAAAAGCAGCGGCATTAAGCATTGCCAGAATGATTACATACCCGCGTTAGTAGCTAATCAACAAAGCTAAGGTTAGTAATTAAGGAGTTCTCCACGGGTGAGGTGGAGTGCGTGCGCCGGACACGGGTGCGCATCCGGAACTGACAGTTTACTGAAAGGATATTTCCCTGAAAAGTCAGAC  >  NC_000913/1648906‑1649172                                                                                                                                        |                                                                                                                                    aGCGCAGGATCTGAAATGGGCTAATGAAGCCAGGGCTAAGCAGGCTGAAAATCTGTCCGCTCTGGAGCAGGATATCACCAATCTGGAAAAAGCAGCGGCATTAAGCATTGCCAGAATGATTACATACCCGCGTtaatag                                                                                                                                  <  2:827800/139‑1 (MQ=255)    gcAGGATCTGAAATGGGCTAATGAAGCCAGGGCTAAGCAGGCTGAAAATCTGTCCGCTCTGGAGCAGGATATCACCAATCTGGAAAAAGCAGCGGCATTAAGCATTGCCAGAATGATTACATACCCGCGTTAATAGCTa                                                                                                                               >  2:4122/1‑139 (MQ=255)        gATCTGAAATGGGCTAATGAAGCCAGGGCTAAGCAGGCTGAAAATCTGTCCGCTCTGGAGCAGGATATCACCAATCTGGAAAAAGCAGCGGCATTAAGCATTGCCAGAATGATTACATACCCGCGTTAATAGCTAATca                                                                                                                           >  2:750143/1‑139 (MQ=255)                aTGGGCTAATGAAGCCAGGGCTAAGCAGGCTGAAAATCTGTCCGCTCTGGAGCAGGATATCACCAATCTGGAAAAAGCAGCGGCATTAAGCATTGCCAGAATGATTACATACCCGCGTTAATAGCTAATCAACAAAGCt                                                                                                                   <  2:1055374/139‑1 (MQ=255)                 tGGGCTAATGAAGCCAGGGCTAAGCAGGCTGAAAATCTGTCCGCTCTGGAGCAGGATATCACCAATCTGGAAAAAGCAGCGGCATTAAGCATTGCCAGAATGATTACATACCCGCGTTAATAGCTAATCAACAAAGCTa                                                                                                                  <  2:869793/139‑1 (MQ=255)                        aTGAAGCCAGGGCTAAGCAGGCTGAAAATCTGTCCGCTCTGGAGCAGGATATCACCAATCTGGAAAAAGCAGCGGCATTAAGCATTGCCAGAATGATTACATACCCGCGTTAATAGCTAATCAACAAAGCTAAGGTTAg                                                                                                           <  2:684832/139‑1 (MQ=255)                             gCCAGGGCTAAGCAGGCTGAAAATCTGTCCGCTCTGGAGCAGGATATCACCAATCTGGAAAAAGCAGCGGCATTAAGCATTGCCAGAATGATTACATACCCGCGTTAATAGCTAATcaa                                                                                                                          <  2:311278/119‑1 (MQ=255)                             gCCAGGGCTAAGCAGGCTGAAAATCTGTCCGCTCTGGAGCAGGATATCACCAATCTGGAAAAAGCAGCGGCATTAAGCATTGCCAGAATGATTACATACCCGCGTTAATAGCTAATcaa                                                                                                                          >  1:311278/1‑119 (MQ=255)                                aGGGCTAAGCAGGCTGAAAATCTGTCCGCTCTGGAGCAGGATATCACCAATCTGGAAAAAGCAGCGGCATTAAGCATTGCCAGAATGATTACATACCCGCGTTAATAGCTAATCAACAAAGCTAAGGTTAGTAATTAAg                                                                                                   <  1:750143/139‑1 (MQ=255)                                aGGGCTAAGCAGGCTGAAAATCTGTCCGCTCTGGAGCAGGATATCACCAATCTGGAAAAAGCAGCGGCATTAAGCATTGCCAGAATGATTACATACCCGCGTTAATAGCTAATCAACAAAGCTAAGGTTAGTAATTAAg                                                                                                   <  1:170856/139‑1 (MQ=255)                                  ggCTAAGCAGGCTGAAAATCTGTCCGCTCTGGAGCAGGATATCACCAATCTGGAAAAAGCAGCGGCATTAAGCATTGCCAGAATGATTACATACCCGCGTTAATAGCTAATCAACAAAGCTa                                                                                                                  >  2:949605/1‑122 (MQ=255)                                  ggCTAAGCAGGCTGAAAATCTGTCCGCTCTGGAGCAGGATATCACCAATCTGGAAAAAGCAGCGGCATTAAGCATTGCCAGAATGATTACATACCCGCGTTAATAGCTAATCAACAAAGCTa                                                                                                                  <  1:949605/122‑1 (MQ=255)                                     tAAGCAGGCTGAAAATCTGTCCGCTCTGGAGCAGGATATCACCAATCTGGAAAAAGCAGCGGCATTAAGCATTGCCAGAATGATTACATACCCGCGTTAATAGCTAATCAACAAAGCTAAGGTTAGTAAtt                                                                                                      <  1:206276/131‑1 (MQ=255)                                     tAAGCAGGCTGAAAATCTGTCCGCTCTGGAGCAGGATATCACCAATCTGGAAAAAGCAGCGGCATTAAGCATTGCCAGAATGATTACATACCCGCGTTAATAGCTAATCAACAAAGCTAAGGTTAGTAAtt                                                                                                      >  2:206276/1‑131 (MQ=255)                                            tcTGAAAATCTGTCCGCTCTGGAGCAGGATATCACCAATCTTGAAAAAGCAGCGGCATTAAGCATTGCCAGAACGATTACATACCCGCGTTAATAGCTAATCAACAAAGCTAAGGTTAGTAATTAAGGAGTTCTCCACg                                                                                       >  1:648464/2‑139 (MQ=255)                                            gCTGAAAATCTGTCCGCTCTGGAGCAGGATATCACCAATCTGGAAAAAGCAGCGGCATTAAGCATTGCCAGAATGATTACATACCCGCGTTAATAGCTAATCAACAAAGCTAAGGTTAGTAATTAAGGAGTTCTCCACg                                                                                       >  2:165127/1‑139 (MQ=255)                                                          cGCTCTGGAGCAGGATATCACCAATCTGGAAAAAGCAGCGGCATTAAGCATTGCCAGAATGATTACATACCCGCGTTAATAGCTAATCAACAAAGCt                                                                                                                   <  1:240857/97‑1 (MQ=255)                                                          cGCTCTGGAGCAGGATATCACCAATCTGGAAAAAGCAGCGGCATTAAGCATTGCCAGAATGATTACATACCCGCGTTAATAGCTAATCAACAAAGCt                                                                                                                   >  2:240857/1‑97 (MQ=255)                                                                      ggATATCACCAATCTGGAAAAAGCAGCGGCATTAAGCATTGCCAGAATGATTACATACCCGCGTTAATAGCTAATCAACAAAGCTAAGGTTAGTAATTAAGGAGTTCTCCACGGGTGAGGTGGAGTGCGTGCGCCGGac                                                             >  1:831402/1‑139 (MQ=255)                                                                       gATATCACCAATCTGGAAAAAGCAGCGGCATTAAGCATTGCCAGAATGATTACATACCCGCGTTAATAGCTAATCAACAAAGCTAAGGTTAGTAATTAAGGAGTTCTCCACGGGTGAGGTGGAGTGCGTGCGCCGGaca                                                            >  2:792236/1‑139 (MQ=255)                                                                       gATATCACCAATCTGGAAAAAGCAGCGGCATTAAGCATTGCCAGAATGATTACATACCCGCGTTAATAGCTAATCAACAAAGCTAAGGTTAGTAATTAAGGAGTTCTCCACGGGTGAGGTGGAGTGCGTGCGCCGGaca                                                            >  2:722675/1‑139 (MQ=255)                                                                           tCACCAATCTGGAAAAAGCAGCGGCATTAAGCATTGCCAGAATGAATACATACCCGCGTTAATAGCTAATCAACAAAGCTAAGGTTAGTAATTAAGGAGTTCTCCACGGGTGAGGTGGAGTGCGTGCGCCGGACACggg                                                        >  2:854060/1‑139 (MQ=255)                                                                                 aTCTGGAAAAAGCAGCGGCATTAAGCATTGCCAGAATGATTACATACCCGCGTTAATAGCTAATCAACAAGGCTAAGGTTAGTAATTAAGGAGTTCTCCACGGGTGAGGTGGAGTGCGTGCGCCGGACACGGGTGCGCa                                                  >  1:999574/1‑139 (MQ=255)                                                                                 aTCTGGAAAAAGCAGCGGCATTAAGCATTGCCAGAATGATTACATACCCGCGTTAATAGCTAATCAACAAAGCTAAGGTTAGTAATTAAGGAGTTCTCCACGGGTGAGGTGGAGTGCGTGCGCCGGACACGGGTGCGCa                                                  >  2:742749/1‑139 (MQ=255)                                                                                 aTCTGGAAAAAGCAGCGGCATTAAGCATTGCCAGAATGATTACATACCCGCGTTAATAGCTAATCAACAAAGCTAAGGTTAGTAATTAAGGAGTTCTCCACGGGTGAGGTGGAGTGCGTGCGCCGGACACGGGTGCGCa                                                  >  2:281584/1‑139 (MQ=255)                                                                                  tCTGGAAAAAGCAGCGGCATTAAGCATTGCCAGAATGATTACATACCCGCGTTAATAGCTAATCAACAAAGCTAAGGTTAGTAATTAAGGAGTTCTCCAc                                                                                        <  2:1026578/100‑1 (MQ=255)                                                                                  tCTGGAAAAAGCAGCGGCATTAAGCATTGCCAGAATGATTACATACCCGCGTTAATAGCTAATCAACAAAGCTAAGGTTAGTAATTAAGGAGTTCTCCAc                                                                                        >  1:1026578/1‑100 (MQ=255)                                                                                        aaaaGCAGCGGCATTAAGCATTGCCAGAATGATTACATACCCGCGTTAATAGCTAATCAACAAAGCTAAGGTTAGTAATTAAGGAGTTCTCCACGGGTGAGGTGGAGTGCGTGCGCCGGACACGGGTGCGCATCCGGaa                                           >  2:993729/1‑139 (MQ=255)                                                                                            gcagcGGCATTAAGCATTGCCAGAATGATTACATACCCGCGTTAATAGCTAATCAACAAAGCTAAGGTTAGTAATTAAGGAGTTCTCCACGGGTGAGGTGGAGTGCGTGCGCCGGACACGGGTGCGCATCCGGAACTGa                                       <  1:792236/139‑1 (MQ=255)                                                                                              agcGGCATTAAGCATTGCCAGAATGATTACATACCCGCGTTAATAGCTAATCAACAAAGCTAAGGTTAGTAATTAAGGAGTTCTCCACGGGTGAGGTGGAGTGCGTGCGCCGGACACGGGTGCGCATCCGGAACTGACa                                     <  1:722675/139‑1 (MQ=255)                                                                                                       aaGCATTGCCAGAATGATTACATACCCGCGTTAATAGCTAATCAACAAAGCTAAGGTTAGTAATTAAGGAGTTCTCCACGGGTGAGGTGGAGTGCGTGCGCCGGACACGGGTGCGCATCCGGAACTGACAGTTTACTGa                            <  2:648464/139‑1 (MQ=255)                                                                                                                   aaTGATTACATACCCGCGTTAATAGCTAATCAACAAAGCTAAGGTTAGTAATTAAGGAGTTCTCCACGGGTGAGGTGGAGTGCGTGCGCCGGACACGGGTGCGCATCCGGAACTGACAGTTTa                                >  2:525152/1‑123 (MQ=255)                                                                                                                   aaTGATTACATACCCGCGTTAATAGCTAATCAACAAAGCTAAGGTTAGTAATTAAGGAGTTCTCCACGGGTGAGGTGGAGTGCGTGCGCCGGACACGGGTGCGCATCCGGAACTGACAGTTTa                                <  1:525152/123‑1 (MQ=255)                                                                                                                         tACATACCCGCGTTAATAGCTAATCAACAAAGCTAAGGTTAGTAATTAAGGAGTTCTCCACGGGTGAGGTGGAGTGCGTGCGCCGGACACGGGTGCGCATCCGGAACTGACAGTTTa                                >  1:291661/1‑117 (MQ=255)                                                                                                                         tACATACCCGCGTTAATAGCTAATCAACAAAGCTAAGGTTAGTAATTAAGGAGTTCTCCACGGGTGAGGTGGAGTGCGTGCGCCGGACACGGGTGCGCATCCGGAACTGACAGTTTa                                <  2:291661/117‑1 (MQ=255)                                                                                                                          aCATACCCGCGTTAATAGCTAATCAACAAAGCTAAGGTTAGTAATTAAGGAGTTCTCCACGGGTGAGGTGGAGTGCGTGCGCCGGACACGGGTGCGCATCCGGAACTGATAGTTTACTGAAAGGATATTTCCCTGaaaa         >  2:680855/1‑139 (MQ=255)                                                                                                                              aCCCGCGTTAATAGCTAATCAACAAAGCTAAGGTTAGTAATTAAGGAGTTCTCCACGGGTGAGGTGGAGTGCGTGCGCCGGACACGGGTGCGCATCCGGAACTGACAGTTTACTGAAAGGATATTTCCCTGAAAAGTCa     >  2:917105/1‑139 (MQ=255)                                                                                                                               cccGCGTTAATAGCTAATCAACAAAGCTAAGGTTAGTAATTAAGGAGTTCTCCACGGGTGAGGTGGAGTGCGTGCGCCGGACACGGGTGCGCATCCGGa                                            >  1:775247/1‑99 (MQ=255)                                                                                                                               cccGCGTTAATAGCTAATCAACAAAGCTAAGGTTAGTAATTAAGGAGTTCTCCACGGGTGAGGTGGAGTGCGTGCGCCGGACACGGGTGCGCATCCGGa                                            <  2:775247/99‑1 (MQ=255)                                                                                                                                 cgcgTTAATAGCTAATCAACAAAGCTAAGGTTAGTAATTAAGGAg                                                                                                >  2:45601/1‑45 (MQ=255)                                                                                                                                 cgcgTTAATAGCTAATCAACAAAGCTAAGGTTAGTAATTAAGGAg                                                                                                <  1:45601/45‑1 (MQ=255)                                                                                                                                 cgcgTTAATAGCTAATCAACAAAGCTAAGGTTAGTAATTAAGGAGTTCTCCACGGGTGAGGTGGAGtgcgtgcg                                                                   <  1:337285/74‑1 (MQ=255)                                                                                                                                 cgcgTTAATAGCTAATCAACAAAGCTAAGGTTAGTAATTAAGGAGTTCTCCACGGGTGAGGTGGAGtgcgtgcg                                                                   >  2:337285/1‑74 (MQ=255)                                                                                                                                 cgcgTTAATAGCTAATCAACAAAGCTAAGGTTAGTAATTAAGGAGTTCTCCACGGGTGAGGTGGAGTGCGTGCGCCGGACACGGGTGCGCATCCGGAACTGACAGTTTACTGAAAGGATATTTCCCTGAAAAGTCAGAc  >  1:115196/1‑139 (MQ=255)                                                                                                                                  gcgTTAATAGCTAATCAACAAAGCTAAGGTTAGTAATTAAGGAGTTCTCCACGGGTGa                                                                                  >  1:947299/1‑58 (MQ=255)                                                                                                                                  gcgTTAATAGCTAATCAACAAAGCTAAGGTTAGTAATTAAGGAGTTCTCCACGGGTGa                                                                                  <  2:947299/58‑1 (MQ=255)                                                                                                                                        |                                                                                                                                    AGCGCAGGATCTGAAATGGGCTAATGAAGCCAGGGCTAAGCAGGCTGAAAATCTGTCCGCTCTGGAGCAGGATATCACCAATCTGGAAAAAGCAGCGGCATTAAGCATTGCCAGAATGATTACATACCCGCGTTAGTAGCTAATCAACAAAGCTAAGGTTAGTAATTAAGGAGTTCTCCACGGGTGAGGTGGAGTGCGTGCGCCGGACACGGGTGCGCATCCGGAACTGACAGTTTACTGAAAGGATATTTCCCTGAAAAGTCAGAC  >  NC_000913/1648906‑1649172

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑