Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	3,187,415	G→A	*302* (TAG→TAA)	insD1 →	IS2 transposase TnpB

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	3,187,415	0	G	A	100.0%	131.2 / NA	42	*302* (TAG→TAA)	insD1	IS2 transposase TnpB
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (26/16);  total (26/16)

CATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTACCCGTCGGCA  >  NC_000913/3187305‑3187550                                                                                                               |                                                                                                                                         cATTATAACGAATTGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTatc                                                                                                                         <  1:600609/128‑1 (MQ=19) cATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTatc                                                                                                                         >  2:600609/1‑128 (MQ=21)              ggCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTa                                                                                                  >  1:352262/1‑138 (MQ=255)              ggCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTa                                                                                                  <  2:352262/138‑1 (MQ=255)              ggCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTAt                                                                                                 >  1:471508/1‑139 (MQ=255)                 aTCCGCATAGTGCGCTGGGTTATCGCTCGCCACGAGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑cc                                                                                             >  1:210562/1‑139 (MQ=255)                  tCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCg                                                                                            >  1:34171/1‑139 (MQ=255)                   ccGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAACATCTGCGGCAGCGGGCTTGTAATGGGATAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGt                                                                                           >  1:683826/1‑139 (MQ=255)                    cGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGtt                                                                                          <  2:454231/139‑1 (MQ=255)                             cgcTGGGTTATCGCTGGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTcaac                                                                                 >  2:716602/1‑139 (MQ=255)                             cgcTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTc                                                                                                        >  2:519344/1‑117 (MQ=255)                             cgcTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTc                                                                                                        <  1:519344/117‑1 (MQ=255)                                          ctcgcCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCg                                                                    <  2:471508/139‑1 (MQ=255)                                            cgcCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGaa                                                                  >  2:872779/1‑139 (MQ=255)                                                          cTGCGGCAGCGGGCTTGTAATGGGTTGAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGa                                                    <  2:683826/139‑1 (MQ=255)                                                          cTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGa                                                    <  1:716602/139‑1 (MQ=255)                                                            gCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCg                                                                    <  1:199763/121‑1 (MQ=255)                                                            gCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCg                                                                    >  2:199763/1‑121 (MQ=255)                                                            gCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGaaa                                                  >  1:656874/1‑139 (MQ=255)                                                                   cGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGtt                                                                                                                            >  1:594264/1‑59 (MQ=16)                                                                   cGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGtt                                                                                                                            <  2:594264/59‑1 (MQ=16)                                                                                ggTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAAttt                              >  1:314956/1‑139 (MQ=255)                                                                                ggTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAAttt                              >  1:474345/1‑139 (MQ=255)                                                                                ggTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAAtt                               >  1:1035813/1‑138 (MQ=255)                                                                                ggTTAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAAtt                               <  2:1035813/138‑1 (MQ=255)                                                                                  ttAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTa                                                                                                                           <  1:435800/45‑1 (MQ=255)                                                                                  ttAAGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTa                                                                                                                           >  2:435800/1‑45 (MQ=255)                                                                                    aaGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGaa                                                                                       <  2:292596/78‑1 (MQ=255)                                                                                    aaGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGaa                                                                                       >  1:292596/1‑78 (MQ=255)                                                                                     aGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTatc                                                                                                                         >  2:1029553/1‑44 (MQ=255)                                                                                     aGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTatc                                                                                                                         <  1:1029553/44‑1 (MQ=255)                                                                                     aGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTa                                                                                                                           >  2:592397/1‑42 (MQ=255)                                                                                     aGTGATAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTa                                                                                                                           <  1:592397/42‑1 (MQ=255)                                                                                          tAACAGATGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATg                    >  2:389812/1‑139 (MQ=255)                                                                                                aTGTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATGCCCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCaa               >  2:473/1‑139 (MQ=255)                                                                                                  gTCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTAATGGCCAATTa            >  1:695891/1‑139 (MQ=255)                                                                                                   tCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTg                                                     <  2:223053/97‑1 (MQ=255)                                                                                                   tCTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTg                                                     >  1:223053/1‑97 (MQ=255)                                                                                                    cTGGAAATATAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTAcc          >  1:1041459/1‑139 (MQ=255)                                                                                                          atatAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTACCCg        <  2:914027/135‑1 (MQ=255)                                                                                                          atatAAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTACCCg        >  1:914027/1‑135 (MQ=255)                                                                                                            ataAGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTACCCGTCGGCa  >  2:1048509/1‑139 (MQ=255)                                                                                                               |                                                                                                                                         CATTATAACGAATGGCATCCGCATAGTGCGCTGGGTTATCGCTCGCCACGGGAATATCTGCGGCAGCGGGCTTGTAATGGGTTAAGTGATAACAGATGTCTGGAAATATAGGGGCAAATCCAGTTATCATCATTGGTTGTGCGTCAGCTTATG‑CCGTTGAATTCAACAAAGATTTAATCGAAGCCGAAGATCGTGAAAACGTTAACCTTTCCCAATTTGAAACTGATGGCCAATTACCCGTCGGCA  >  NC_000913/3187305‑3187550

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: ‑