Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,639,030	C→T	*166* (TAG→TAA)	rzpQ ←	Rz‑like protein, Qin prophage

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,639,030	0	C	T	100.0%	113.4 / NA	36	*166* (TAG→TAA)	rzpQ	Rz‑like protein, Qin prophage
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (17/19);  total (17/19)

TGATTAAGACCTTTTATCTTACCCTTAAGATTTCAGGAATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCCTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCACTCCTGCGATGTAGCGTTCGTCAGCAATTTCAGCATAAAGCTGAGCTTCTGCTGCAATATCTCCGA  >  NC_000913/1638917‑1639148                                                                                                                  |                                                                                                                       tGATTAAGACCTTTTATCTTACCCTTAAGATTTCAGGAATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTa                                                                                               <  2:1162132/139‑1 (MQ=255)   aTTAAGACCTTTTATCTTACCCTTAATATTTCATGAATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTa                                                                                               <  1:316589/137‑1 (MQ=255)   aTTAAGACCTTTTATCTTACCCTTAAGATTTCAGGAATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTa                                                                                               >  2:316589/1‑137 (MQ=255)        gACCTTTTATCTTACCCTTAAGATTTCAGGAATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTc                                                                                        >  2:222942/1‑139 (MQ=255)        gACCTTTTATCTTACCCTTAAGATTTCAGGAATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTc                                                                                        >  2:1105926/1‑139 (MQ=255)             tttATCTTACCCTTAAGATTTCAGGAATTTTGGCTCATGGACGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGa                                                                                                               <  1:1057287/111‑1 (MQ=255)             tttATCTTACCCTTAAGATTTCAGGAATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGa                                                                                                               >  2:1057287/1‑111 (MQ=255)             tttATCTTACCCTTAAGATTTCAGGAATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATg                                                                                                             <  2:563600/113‑1 (MQ=255)             tttATCTTACCCTTAAGATTTCAGGAATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATg                                                                                                             >  1:563600/1‑113 (MQ=255)                aTCTTACCCTTAAGATTTCAGGAATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCt                                                                                <  1:1105926/139‑1 (MQ=255)                aTCTTACCCTTAAGATTTCAGGAATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCt                                                                                <  2:350743/139‑1 (MQ=255)                     aCCCTTAAGATTTCAGGAATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTTTTGa                                                                           >  2:537104/1‑139 (MQ=255)                          tAAGATTTCAGGAATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGt                                                                      <  1:537104/139‑1 (MQ=255)                          tAAGATTTCAGGAATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGt                                                                      <  1:573249/139‑1 (MQ=255)                             gATTTCAGGAATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCAc                                                                   <  2:326130/139‑1 (MQ=255)                                ttCAGGAATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTaa                                                                                              >  1:405406/1‑109 (MQ=255)                                ttCAGGAATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTaa                                                                                              <  2:405406/109‑1 (MQ=255)                                            ggCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCACTCCTGCGATGTAGCg                                                    <  1:222942/139‑1 (MQ=255)                                                   ggAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGa                                                                                                               <  2:535695/73‑1 (MQ=255)                                                   ggAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGa                                                                                                               >  1:535695/1‑73 (MQ=255)                                                          tCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCACTCCTGCGATGTAGCGTTCGTCAGCAAttt                                      <  2:1075775/139‑1 (MQ=255)                                                           ccTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCACTCCTGCGATGTAGCGTTCGTCAg                                            <  1:15541/132‑1 (MQ=255)                                                           ccTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCACTCCTGCGATGTAGCGTTCGTCAg                                            >  2:15541/1‑132 (MQ=255)                                                               tttatttaAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCAc                                                                   <  2:996653/105‑1 (MQ=255)                                                               tttatttaAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCAc                                                                   >  1:996653/1‑105 (MQ=255)                                                                                 tCCGCGATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCACTCCTGCGATGTAGCGTTCGTCAGCAATTTCAGCATAAAGCTGAGCTTctgct               >  1:748364/1‑139 (MQ=255)                                                                                   cgcgATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCACTCCTGCGATGTAGCGTTCGTCAGCAATTTCAGCATAAAGCTGAGCTTCtgctgc             >  2:205968/1‑139 (MQ=255)                                                                                   cgcgATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCACTCCTGCGATGTAGCGTTCGTCAGCAATTTCAGCATAAAGCTGAGCTTCtgctgc             >  2:1048360/1‑139 (MQ=255)                                                                                   cgcgATGTAAATGTTCCGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCACTCCTGCGATGTAGCGTTCGTCAGCAATTTCAGCATAAAGCTGAGCTTCtgctgc             >  2:75847/1‑139 (MQ=255)                                                                                            aaTGTTCCGATTTAATATTACCTTAAATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCACTCCTGCGATGTAGCGTTCGTCAGCAATTTCAGCATAAAGCTGAGCTTCTGCTGCAATATCTcc    <  1:107669/139‑1 (MQ=255)                                                                                                  ccGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTaa                                                                                              >  1:898943/1‑43 (MQ=255)                                                                                                  ccGATTTAATATTACCTTACATTTGATGCTTTTTATCTCTTaa                                                                                              <  2:898943/43‑1 (MQ=255)                                                                                                     aTTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCACTc                                                                 >  2:129216/1‑69 (MQ=255)                                                                                                     aTTTAATATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCACTc                                                                 <  1:129216/69‑1 (MQ=255)                                                                                                         aaTATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCACTCCTGCGATGTAGCGTTCGTCAGCAATTTCAGCATAAAGCTGAGCTTCTGCTGCAATATCTCCGa  <  1:937865/128‑1 (MQ=255)                                                                                                         aaTATTACCTTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCACTCCTGCGATGTAGCGTTCGTCAGCAATTTCAGCATAAAGCTGAGCTTCTGCTGCAATATCTCCGa  >  2:937865/1‑128 (MQ=255)                                                                                                                  |                                                                                                                       TGATTAAGACCTTTTATCTTACCCTTAAGATTTCAGGAATTTTGGCTCATGGAAGAGTCCTTTTTATTTAAATTTTACATTCCGCGATGTAAATGTTCCGATTTAATATTACCCTACATTTGATGCTTTTTATCTCTTAAAGATTCATAGATCTGTTGACAAGTCACTCCTGCGATGTAGCGTTCGTCAGCAATTTCAGCATAAAGCTGAGCTTCTGCTGCAATATCTCCGA  >  NC_000913/1638917‑1639148

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑