Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	391,739	C→T	*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	391,739	0	C	T	100.0%	203.3 / NA	64	*289* (TAG→TAA)	insF1	IS3 transposase B
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (33/31);  total (33/31)

AACATTGGTGAAGATGGCTACGTTGATACCGATCATCTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCCTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGATATAATTAAACACCGTTGCCC  >  NC_000913/391613‑391845                                                                                                                               |                                                                                                           aaCATTGGTGAAGATGGCTACGTTGATACCGATCATCTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTc                                                                                                >  2:293401/1‑139 (MQ=255) aaCATTGGTGAAGATGGCTACGTTGATACCGATCATCTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTc                                                                                                >  2:175232/1‑139 (MQ=255)      tGGTGAAGATGGCTACGTTGATACCGATCATCTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGtt                                                                                           >  2:860346/1‑139 (MQ=255)            aGATGGCTACGTTGATACCGATCATCTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCaaa                                                                                     <  1:860346/139‑1 (MQ=255)             gATGGCTACGTTGATACCGATCATCTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAAt                                                                                    >  1:763862/1‑139 (MQ=255)                  cTACGTTGATACCGATCATCTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATAGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTc                                                                               >  2:1002492/1‑139 (MQ=255)                        tGATACCGATCATCTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCaaa                                                                                     >  1:684023/1‑127 (MQ=255)                        tGATACCGATCATCTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCaaa                                                                                     <  2:684023/127‑1 (MQ=255)                           tACCGATCATCTGACTATTAACTCCTACCGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAg                                                                      <  2:1132256/139‑1 (MQ=255)                           tACCGATCATCTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAg                                                                      >  2:77031/1‑139 (MQ=255)                           tACCGATCATCTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAg                                                                      >  1:743139/1‑139 (MQ=255)                                atcatcTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGgccgc                                                                 >  2:1640818/1‑139 (MQ=255)                                atcatcTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGgccgc                                                                 >  2:920494/1‑139 (MQ=255)                                atcatcTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGgccgc                                                                 <  1:1002492/139‑1 (MQ=255)                                atcatcTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGgccgc                                                                 <  1:1640818/139‑1 (MQ=255)                                atcatcTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGgccgc                                                                 <  1:733834/139‑1 (MQ=255)                                  catcTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTG‑GGCCGCcac                                                              >  1:1408446/1‑139 (MQ=255)                                        aCTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCaa                                                         >  1:317331/1‑139 (MQ=255)                                              aaCTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTgc                                                   <  1:638398/139‑1 (MQ=255)                                                  ccTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTgccgcc                                               <  1:1429635/139‑1 (MQ=255)                                                    tACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTgccgccgc                                             >  2:1146342/1‑139 (MQ=255)                                                          aCTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGa                                       <  2:1205173/139‑1 (MQ=255)                                                          aCTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGa                                       <  2:890153/139‑1 (MQ=255)                                                           cTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGAt                                      >  1:410143/1‑139 (MQ=255)                                                           cTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGAt                                      >  1:1098402/1‑139 (MQ=255)                                                              ttGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCa                                           >  1:120409/1‑131 (MQ=255)                                                              ttGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCa                                           <  2:120409/131‑1 (MQ=255)                                                              ttGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCa                                           <  2:1160003/131‑1 (MQ=255)                                                              ttGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCa                                           >  1:1160003/1‑131 (MQ=255)                                                              ttGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGt                                   >  2:352721/1‑139 (MQ=255)                                                              ttGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGt                                   >  2:798872/1‑139 (MQ=255)                                                                gCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGgccgc                                                                 >  1:1229651/1‑107 (MQ=255)                                                                gCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGgccgc                                                                 <  2:1229651/107‑1 (MQ=255)                                                                   ttGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCg                                                                                                      <  2:154994/67‑1 (MQ=255)                                                                   ttGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCg                                                                                                      >  1:154994/1‑67 (MQ=255)                                                                   ttGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATca                              >  1:958681/1‑139 (MQ=255)                                                                   ttGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATca                              >  1:770582/1‑139 (MQ=255)                                                                     gACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATcaca                            <  2:410143/139‑1 (MQ=255)                                                                     gACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATcaca                            >  2:681804/1‑139 (MQ=255)                                                                     gACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATcaca                            <  2:770582/139‑1 (MQ=255)                                                                      aCCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACAt                           >  1:824091/1‑139 (MQ=255)                                                                      aCCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTG‑GGCCGCCACACCAACTGTGCCACCGCCACCGATTGTAATCACAtt                          <  2:1408446/139‑1 (MQ=255)                                                                       ccGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCGGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACAtt                          <  2:958681/139‑1 (MQ=255)                                                                       ccGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACAtt                          <  1:175232/139‑1 (MQ=255)                                                                       ccGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACAtt                          <  2:1098402/139‑1 (MQ=255)                                                                        cGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGa                                       <  2:954789/125‑1 (MQ=255)                                                                        cGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGa                                       >  1:954789/1‑125 (MQ=255)                                                                          aaTCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGa                       <  2:824091/139‑1 (MQ=255)                                                                          aaTCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGa                       <  1:352721/139‑1 (MQ=255)                                                                                  gggtgggGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTgccg                                                 >  1:637202/1‑105 (MQ=255)                                                                                  gggtgggGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTgccg                                                 <  2:637202/105‑1 (MQ=255)                                                                                  gggtgggGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGa                       >  2:1592464/1‑131 (MQ=255)                                                                                  gggtgggGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGa                       <  1:1592464/131‑1 (MQ=255)                                                                                     tgggGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGAt                                      >  2:1515012/1‑113 (MQ=255)                                                                                     tgggGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGAt                                      <  1:1515012/113‑1 (MQ=255)                                                                                     tgggGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGATATAATTAAac            >  2:1411875/1‑139 (MQ=37)                                                                                        ggggCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGgccgc                                                                 >  1:1606271/1‑83 (MQ=255)                                                                                        ggggCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGgccgc                                                                 <  2:1606271/83‑1 (MQ=255)                                                                                          ggCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGc                                                                                                       <  1:1517220/43‑1 (MQ=255)                                                                                          ggCTGATTGATCCTACCCACGTAATATGGACACAGGCTTAAGc                                                                                                       >  2:1517220/1‑43 (MQ=255)                                                                                               attgatCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGATATAATTAAACACCGTTGccc  <  1:681804/139‑1 (MQ=11)                                                                                               attgatCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGATATAATTAAACACCGTTGccc  <  1:1146342/139‑1 (MQ=11)                                                                                               attgatCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGATATAATTAAACACCGTTGcc   >  2:327610/1‑138 (MQ=11)                                                                                               attgatCCTACCCACGTAATATGGACACAGGCTTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGATATAATTAAACACCGTTGcc   <  1:327610/138‑1 (MQ=11)                                                                                                                               |                                                                                                           AACATTGGTGAAGATGGCTACGTTGATACCGATCATCTGACTATTAACTCCTACAGTACTGTTGCGTTGACCGAATCTACTGGGTGGGGGGCTGATTGATCCTACCCACGTAATATGGACACAGGCCTAAGCGAGGTTCTTGTTTTCAAATTGTTCCGGACTGAGGCCGCCACACCAACTGTGCCGCCGCCACCGATTGTAATCACATTCGATATAATTAAACACCGTTGCCC  >  NC_000913/391613‑391845

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑