Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	689,053	A→G	intergenic (‑40/+290)	insH‑3 ← / ← lnt	IS5 transposase and trans‑activator/apolipoprotein N‑acyltransferase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	689,053	0	A	G	100.0%	161.1 / NA	48	intergenic (‑40/+290)	insH‑3/lnt	IS5 transposase and trans‑activator/apolipoprotein N‑acyltransferase
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (26/22);  total (26/22)

ACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAGGTAACATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCGAGATGCGCCGCACCATTCCGAAGCAAAATTCTTAAAATGCACTCTTTTAGTGCTACCGCTGGATTACTGTGGTGCAACTAGG  >  NC_000913/688927‑689188                                                                                                                               |                                                                                                                                        aCGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGCCTTGTTCTCACTTTTCTTAGGTAGCATTTAGTTTGGc                                                                                                                            >  1:258033/1‑140 (MQ=14) aCGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGc                                                                                                                            >  1:616816/1‑140 (MQ=255)  cGGTGCTGACTGCTGAAGTCGCTGTCGGCTAAGGTAAGTTGATGACTCATGATGAGCCCTGTTCTATGTCTCCAAATGACAAACATGATCTCATATCGGGTTGTTGTTCGCTTCTTCCTTAGTTAGCATTTAGTTTGGCt                                                                                                                           <  2:542760/140‑1 (MQ=14)  cGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCt                                                                                                                           <  2:654852/140‑1 (MQ=255)  cGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCt                                                                                                                           <  1:579054/140‑1 (MQ=255)  cGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCt                                                                                                                           <  1:4255/140‑1 (MQ=255)    gcgcTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCTaa                                                                                                                         <  1:596123/140‑1 (MQ=255)      gcTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGATCGCACCTTCCATACGTAGCAGTTAGTTTGGCTAAAt                                                                                                                       >  1:313922/1‑140 (MQ=14)        ttACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCTAAATGt                                                                                                                     <  1:38518/140‑1 (MQ=255)                gAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCTAAATGTAAAGatat                                                                                                             >  1:114622/1‑140 (MQ=255)                        tGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACGTTCCTTAGCTAGCATTAAGTTTGGCTAAATGTAAAGATATTGCTGttt                                                                                                     >  2:243758/1‑140 (MQ=255)                        tGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAGGAAGCATTTAGTTTAGCAAAATGTAAAGATATTGCTGttt                                                                                                     >  1:273004/1‑140 (MQ=255)                                  ggTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTAttgtttgt                                                                                           >  2:430031/1‑140 (MQ=255)                                           atgaCTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCgag                                                                                  <  1:544297/140‑1 (MQ=255)                                             gaCTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCGAGAt                                                                                >  1:400003/1‑140 (MQ=255)                                                tCATGATGAACCCTGGTCTATGCCTTCAGATGACAAAGATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCGAGATgcg                                                                             <  1:320827/140‑1 (MQ=25)                                                  atgatgAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCGAGATGcgcc                                                                           >  1:511571/1‑140 (MQ=255)                                                  atgatgAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCGAAATGTAATGATGTTGCTGTTTTATGGTTTGTTTTTGCGAGATGcgcc                                                                           >  2:186710/1‑140 (MQ=21)                                                   tgatgaACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCGAGATGcgccg                                                                          <  1:395345/140‑1 (MQ=255)                                                          cccTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCGAGATGCGCCGCACCAtt                                                                   >  2:642051/1‑140 (MQ=255)                                                          cccTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCGAGATGCGCCGCACCAtt                                                                   >  1:75210/1‑140 (MQ=255)                                                             tGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTGTATTGTTAGTTTTTGCGAGATGCGCCGCACCATTCCg                                                                >  1:189256/1‑140 (MQ=255)                                                                    tGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCGAGATGCGCCGCACCATTCCGAAGCaaa                                                         >  1:620097/1‑140 (MQ=255)                                                                         ccAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCGAGATGCGCCGCACCATTCCGAAGCAAAATTCt                                                    >  2:132459/1‑140 (MQ=255)                                                                         ccAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTATTGCGAGATGCACCCCACCATTCCGAAGCAAAATTCt                                                    >  1:200984/1‑140 (MQ=255)                                                                             aTGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCGAGATGCGCCGCACCATTCCGAAGCAAAATTCTTaaa                                                <  2:400003/140‑1 (MQ=255)                                                                                aCAAACATGATCTCATATCAGGTACTTGTTCGCACCTTCTTTAGGTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCGAGATGCGCCGCACCATTCCGAAGCAAAATTCTTAAAATg                                             <  2:209293/140‑1 (MQ=255)                                                                                aCAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCGAGATGCGCCGCACCATTCCGAAGCAAAATTCTTAAAATg                                             <  2:616816/140‑1 (MQ=255)                                                                                  aaaCATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTCTGTTTTTGCGAGATGCGCCGCACCATTCCGAAGCAAAATTCTTAAAATGCa                                           <  1:433666/140‑1 (MQ=255)                                                                                   aaCATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCGAGATGCGCCGCACCATTCCGAAGCAAAATTCTTAAAATGCAc                                          <  2:558284/140‑1 (MQ=255)                                                                                    aCATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCGAGATGCGCCGCACCATTCCGAAGCAAAATTCTTAAAATGCAct                                         <  1:132459/140‑1 (MQ=255)                                                                                       tGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCGAGATGCGCCGCACCACTCCGAAGGAAAAACCTTAAAAAGCACTCtt                                      >  2:318721/1‑140 (MQ=38)                                                                                              atatCAGGGACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCGAGATGCGCCGCACCATTCCGAAGCAAAATTCTTAAAATGCACTCTTTTAGTGc                               >  1:483053/1‑140 (MQ=255)                                                                                                atCAGGGACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCGAGATGCGCCGCACCATTCCGAAGCAAAATTCTTAAAATGCACTCTTTTAGTGCTa                             >  1:526705/1‑140 (MQ=255)                                                                                                 tCAGGGACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCGAGATGCGCCGCACCATTCCGAAGCAAAATTCTTAAAATGCACTCTTTTAGTGCTAc                            <  2:618129/140‑1 (MQ=255)                                                                                                  cAGGGACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCGAGATGCGCCGCACCATTCCGAAGCAAAATTCTTAAAATGCACTCTTTTAGTGCTAcc                           >  1:506301/1‑140 (MQ=255)                                                                                                   aGGGACTTGTTCGCAACTTCCTTAGCTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCGAGATGCGCCGCACCATTCCGAAGCAAAATTCTTAAAATGCACTCTTTTAGTGCTACCg                          <  1:318721/140‑1 (MQ=255)                                                                                                     ggACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCGAGATGCGCCGCACCATTCCGAAGCAAAATTCTTAAAATGCACTCTTTTAGTGCTAc                            >  1:131624/1‑136 (MQ=255)                                                                                                     ggACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCGAGATGCGCCGCACCATTCCGAAGCAAAATTCTTAAAATGCACTCTTTTAGTGCTAc                            <  2:131624/136‑1 (MQ=255)                                                                                                     ggACTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCGAGATGCGCCGCACCATTCCGAAGCAAAATTCTTAAAATGCACTCTTTTAGTGCTACCGCt                        >  1:665770/1‑140 (MQ=255)                                                                                                     ggACTTGTTCGCACCTTCCTTAGGTAGCATTTAGCTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCGAGATGCGCCGCACCATTCCGAAGCAAAATTCTTAAAATGCACTCTTTTAGTGCTACCGCt                        >  1:151280/1‑140 (MQ=255)                                                                                                        cTTGTTCGCACCTTCCTTAGGTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCGAGATGCGCCGCACCATTCCGAAGCAAAATTCTTAAAATGCACTCTTTTAGTGCTACCGCTGGa                     <  2:114622/140‑1 (MQ=255)                                                                                                           gTTCGCACCTTCCTTAGATAGCTTTTAGTTTTGCTGAATTTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCGAGATGCGCCGCACCATTCCGAAGCAAAATTCTTAAAATGCACTCTTTTAGTGCTACCGCTGGATTa                  <  2:189256/140‑1 (MQ=255)                                                                                                            ttCGCACCTTCCTTAGGTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCGAGATGCGCCGCACCATTCGGAAGCAAAATTCTTAACATGCACTCATTTAGTGCTACCGCTGGATTAc                 >  2:279072/1‑140 (MQ=255)                                                                                                               gCACCTTCCTTAGGTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCGAGATGCGCCGCACCATTCCGAAGCAAAATTCTTAAAATGCACTCTTTTAGTGCTACCGCTGGATTACtgt              >  1:595423/1‑140 (MQ=255)                                                                                                                cACCTTCCTTAGGTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCGAGATGCGCCGCACCATTCCGAAGCAAAATTCTTAAAATGCACTCTTTTAGTGCTACCGCTGGATTACtgtg             >  2:73629/1‑140 (MQ=255)                                                                                                                   cttccttAGGTAGCAGTTAGTTCGGATAATTGTAAAGCTATTGCTGTTTTATTGTTTGTTTTTGCGAGATGCGCCGCACCATTCCGAAGCAAAATTCTTAAAATGCACTCTTTTAGTGCTACCGCTGGATTACTgtggtg          <  1:279072/140‑1 (MQ=255)                                                                                                                    ttccttAGGTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCGAGATGCGCCGCACCATTCCGAAGCAAAATTCTTAAAATGCACTCTTTTAGTGCTACCGCTGGATTACTGTGGTGc         >  1:661386/1‑140 (MQ=255)                                                                                                                      ccttAGGTAGCATTTAGCTTGGCTAAATGTAGAGACATTACTGTTTTATTGTTTGTTTTTGCGAGATGCGCCGCACCATTCCGAAGCAAAATTCTTAAAATGCACTCTTTTAGTGCTACCGCTGGATTACTGTGGTGCaa       <  2:187952/140‑1 (MQ=255)                                                                                                                           ggTAGCATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCGAGATGCGCCGCACCATTCCGAAGCAAAATTCTTAAAATGCACTCTTTTAGTGCTACCGCTGGATTACTGTGGTGCAACTAgg  <  2:511571/140‑1 (MQ=255)                                                                                                                               |                                                                                                                                        ACGGCGCTTACTGCTGAATTCACTGTCGGCGAAGGTAAGTTGATGACTCATGATGAACCCTGTTCTATGGCTCCAGATGACAAACATGATCTCATATCAGGGACTTGTTCGCACCTTCCTTAGGTAACATTTAGTTTGGCTAAATGTAAAGATATTGCTGTTTTATTGTTTGTTTTTGCGAGATGCGCCGCACCATTCCGAAGCAAAATTCTTAAAATGCACTCTTTTAGTGCTACCGCTGGATTACTGTGGTGCAACTAGG  >  NC_000913/688927‑689188

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑