Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	316,453	G→A	*289* (TAG→TAA)	insF1 →	IS3 transposase B

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	316,453	0	G	A	100.0%	116.5 / NA	38	*289* (TAG→TAA)	insF1	IS3 transposase B
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (16/22);  total (16/22)

GGGCAACGGTGTTTAATTATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTCACATACCGTACCAGCAAAAGTTTCAACCGTGAGCAAAT  >  NC_000913/316347‑316568                                                                                                           |                                                                                                                    gggCAACGGTGTTTAATTATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATa                                                                                     >  2:11942/1‑139 (MQ=14)                    tatCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCg                                                                       <  1:1006464/134‑1 (MQ=255)                    tatCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCg                                                                       >  2:1006464/1‑134 (MQ=255)                    tatCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTc                                                                  >  2:750976/1‑139 (MQ=255)                    tatCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTc                                                                  >  2:1139705/1‑139 (MQ=255)                     atCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTcc                                                                 <  1:1139705/139‑1 (MQ=255)                      tCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGtt                                                                     >  2:511469/1‑134 (MQ=255)                      tCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGtt                                                                     <  1:511469/134‑1 (MQ=255)                      tCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCa                                                                <  2:817986/139‑1 (MQ=255)                      tCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCa                                                                <  2:536932/139‑1 (MQ=255)                      tCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCa                                                                >  2:1109163/1‑139 (MQ=255)                      tCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCa                                                                <  1:750976/139‑1 (MQ=255)                      tCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCa                                                                <  1:622159/139‑1 (MQ=255)                      tCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCa                                                                <  1:406776/139‑1 (MQ=255)                         aaTGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCa                                                                >  1:1255944/1‑136 (MQ=255)                         aaTGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCa                                                                <  2:1255944/136‑1 (MQ=255)                                  aCAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCAt                                                    <  1:552789/139‑1 (MQ=255)                                      tCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATaaa                                                                                   <  1:737427/104‑1 (MQ=18)                                      tCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATaaa                                                                                   >  2:737427/1‑104 (MQ=18)                                        ggTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGc                                              >  2:310868/1‑139 (MQ=255)                                         gTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCa                                             <  1:2819/139‑1 (MQ=255)                                         gTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCa                                             <  2:53508/139‑1 (MQ=255)                                         gTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCa                                             <  1:310868/139‑1 (MQ=255)                                           ggcggcggcACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCA‑GTCAGCatat                                          >  1:342577/1‑139 (MQ=255)                                            gcggcggcACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCatat                                          <  2:1118029/139‑1 (MQ=255)                                                cggcACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTc                                                 <  1:657157/128‑1 (MQ=255)                                                cggcACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTc                                                 >  2:657157/1‑128 (MQ=255)                                                               ggcggcCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCA‑GTCAGCATATTCACATACCGTACCAGCaaa                      <  2:342577/139‑1 (MQ=255)                                                                gcggcCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTca                                       >  2:430635/1‑122 (MQ=255)                                                                gcggcCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTca                                       <  1:430635/122‑1 (MQ=255)                                                                     cTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTCACATACCGTACCAGCAAAAGttt                 <  1:99983/139‑1 (MQ=255)                                                                          tCCGGAACAATTTGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTCACATACCGTACCAGCAAAAGTTTCAAcc            <  1:368464/139‑1 (MQ=255)                                                                                    tttGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCa                                             >  2:47866/1‑96 (MQ=255)                                                                                    tttGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCa                                             <  1:47866/96‑1 (MQ=255)                                                                                    tttGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTCACATACCGTACCAGCAAAAGTTTCAACCGTGAGCAAAt  >  2:372014/1‑139 (MQ=255)                                                                                    tttGAAAACAAGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTCACATACCGTACCAGCAAAAGTTTCAACCGTGAGCAAAt  >  2:1201789/1‑139 (MQ=255)                                                                                              aGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCa                                             >  2:1310035/1‑86 (MQ=255)                                                                                              aGAACCTCGCTTAAGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCa                                             <  1:1310035/86‑1 (MQ=255)                                                                                                           |                                                                                                                    GGGCAACGGTGTTTAATTATATCGAATGTGATTACAATCGGTGGCGGCGGCACAGTTGGTGTGGCGGCCTCAGTCCGGAACAATTTGAAAACAAGAACCTCGCTTAGGCCTGTGTCCATATTACGTGGGTAGGATCATAAAGTCCTCGGGTCGTTGTCCACTCTTTTGGCATGTCAGCATATTCACATACCGTACCAGCAAAAGTTTCAACCGTGAGCAAAT  >  NC_000913/316347‑316568

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑