Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,504,006	G→A	intergenic (‑575/‑52)	insG ← / → yjhB	IS4 transposase/putative MFS transporter, membrane protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,504,006	0	G	A	100.0%	159.2 / NA	51	intergenic (‑575/‑52)	insG/yjhB	IS4 transposase/putative MFS transporter, membrane protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (26/25);  total (26/25)

TATCAGTTTTATCTTTCATAGAGTGAAATATGTTAAGAAGAAATGGAGGAAAAGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGGCTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGAAAGCTCTTTTTTCCGCATGGCTTGGATATGTA  >  NC_000913/4503871‑4504132                                                                                                                                        |                                                                                                                               tATCAGTTTTATCTTTCATAGAGTGAAATATGTTAAGAAGAAATGGAGGAAAAGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTc                                                                                                                             >  2:15090/1‑139 (MQ=255)  aTCAGTTTTATCTTTCATAGAGTGAAATATGTTAAGAAGAAATGGAGGAAAAGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTcc                                                                                                                            <  1:478939/139‑1 (MQ=255)      gTTTTATCTTTCATAGAGTGAAATATGTTAAGAAGAAATGGAGGAAAAGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTaa                                                                                                                        <  2:1250980/139‑1 (MQ=255)                 cATAGAGTGAAATATGTTAAGAAGAAATGGAGGAAAAGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTcc                                                                                                                            <  2:1288164/124‑1 (MQ=255)                 cATAGAGTGAAATATGTTAAGAAGAAATGGAGGAAAAGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTa                                                                                                             <  2:1079785/139‑1 (MQ=255)                 cATAGAGTGAAATATGTTAAGAAGAAATGGAGGAAAAGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTCGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTcc                                                                                                                            >  1:1288164/1‑124 (MQ=255)                      agTGAAATATGTTAAGAAGAAATGGAGGAAAAGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTa                                                                                                             >  2:1610504/1‑134 (MQ=255)                      agTGAAATATGTTAAGAAGAAATGGAGGAAAAGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTa                                                                                                             <  1:1610504/134‑1 (MQ=255)                        tGAAATATGTTAAGAAGAAATGGAGGAAAAGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCta                                                                                                      >  2:463059/1‑139 (MQ=255)                          aaaTATGTTAAGAAGAAATGGAGGAAAGGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGc                                                                                                        >  1:528003/1‑135 (MQ=255)                          aaaTATGTTAAGAAGAAATGGAGGAAAGGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGc                                                                                                        <  2:528003/135‑1 (MQ=255)                           aaTATGTTAAGAAGAAATGGAGGAAAAGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTatat                                                                                                   <  2:724628/139‑1 (MQ=255)                                    agaagaAATGGAGGAAAAGATTGTACTGATTAGGTATTGTTAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCt                                                                                                                          <  2:1472335/107‑1 (MQ=255)                                    agaagaAATGGAGGAAAAGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTccc                                                                                                                           >  1:1418355/1‑106 (MQ=255)                                    agaagaAATGGAGGAAAAGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTccc                                                                                                                           <  2:1418355/106‑1 (MQ=255)                                    agaagaAATGGAGGAAAAGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCt                                                                                                                          >  1:1472335/1‑107 (MQ=255)                                    agaagaAATGGAGGAAAAGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAg                                                                                                           >  2:1786072/1‑122 (MQ=255)                                    agaagaAATGGAGGAAAAGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAg                                                                                                           <  1:1786072/122‑1 (MQ=255)                                      aagaaATGGAGGAAAAGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAacac                                                                                        <  1:15090/139‑1 (MQ=255)                                               aggaAAAGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAggg                                                                                                         <  1:239396/113‑1 (MQ=255)                                               aggaAAAGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAggg                                                                                                         >  2:239396/1‑113 (MQ=255)                                                 gaAAAGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAat                                                                             <  2:1712652/139‑1 (MQ=255)                                                            aCTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGc                                                                  <  1:463059/139‑1 (MQ=255)                                                                aTTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATgg                                                              >  1:349822/1‑139 (MQ=255)                                                                aTTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATgg                                                              >  1:693593/1‑139 (MQ=255)                                                                     gTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATaa                                                         <  2:693593/139‑1 (MQ=255)                                                                          gATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAggg                                                                                                         >  2:1457085/1‑86 (MQ=255)                                                                          gATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAggg                                                                                                         <  1:1457085/86‑1 (MQ=255)                                                                          gATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAg                                                                                      >  1:685604/1‑105 (MQ=255)                                                                          gATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAg                                                                                      <  2:685604/105‑1 (MQ=255)                                                                          gATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAg                                                    >  2:1017687/1‑139 (MQ=255)                                                                          gATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAg                                                    >  2:462664/1‑139 (MQ=255)                                                                          gATAACAATCAATAGTACT‑GCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGt                                                   >  1:137352/1‑139 (MQ=255)                                                                                              gCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACa                                                                                <  2:424553/91‑1 (MQ=255)                                                                                              gCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACa                                                                                >  1:424553/1‑91 (MQ=255)                                                                                              gCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGaaa                                >  1:950002/1‑139 (MQ=255)                                                                                                   tttGAAGACAATATAATTATTTCTGGATATTGTTGAGACTcc                                                                                                                            <  1:1117690/42‑1 (MQ=255)                                                                                                   tttGAAGACAATATAATTATTTCTGGATATTGTTGAGACTcc                                                                                                                            >  2:1117690/1‑42 (MQ=255)                                                                                                   tttGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGAAAGctct                           >  2:383107/1‑139 (MQ=255)                                                                                                   tttGAAGACAATATAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGAAAGctct                           >  1:1242941/1‑139 (MQ=255)                                                                                                             atatAATTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGAAAGCTCTTTTTTCCGCa                 <  1:383107/139‑1 (MQ=255)                                                                                                                 aaTTATTTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGAAAGCTCTTTTTTCCGCATGGc             <  2:1242941/139‑1 (MQ=255)                                                                                                                  attattTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGAAAGCTCTTTTTTCCGCATGGCt            <  1:462664/139‑1 (MQ=255)                                                                                                                  attattTCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGAAAGCTCTTTTTTCCGCATGGCt            <  2:950002/139‑1 (MQ=255)                                                                                                                        tCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCa                                                                 >  2:386239/1‑80 (MQ=255)                                                                                                                        tCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCa                                                                 <  1:386239/80‑1 (MQ=255)                                                                                                                        tCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGAAAGCTCTTTTTTCCGCATGGCTTGGata      >  1:1390760/1‑139 (MQ=255)                                                                                                                        tCTGGATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGAAAGCTCTTTTTTCCGCATGGCTTGGata      >  1:124771/1‑139 (MQ=255)                                                                                                                            gATATTGTTGAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGAAAGCTCTTTTTTCCGCATGGCTTGGATATGTa  >  2:1781910/1‑139 (MQ=255)                                                                                                                                   ttgAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCa                                                                 <  2:1291350/69‑1 (MQ=255)                                                                                                                                   ttgAGACTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCa                                                                 >  1:1291350/1‑69 (MQ=255)                                                                                                                                        |                                                                                                                               TATCAGTTTTATCTTTCATAGAGTGAAATATGTTAAGAAGAAATGGAGGAAAAGATTGTACTGATTAGGTATTGATAACAATCAATAGTACTGGCGTATTTGAAGACAATATAATTATTTCTGGATATTGTTGAGGCTCCCTAATATTTACTTTAAGGGCTATATTAGAATAACACAGGAAACAAATATGGCAACAGCATGGTATAAACAAGTTAATCCACCACAACGGAAAGCTCTTTTTTCCGCATGGCTTGGATATGTA  >  NC_000913/4503871‑4504132

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: ‑