Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,011,593	(A)7→8	coding (1630/1908 nt)	uup →	ATP‑binding protein with possible role in replication

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,011,586	1	.	A	100.0%	134.9 / NA	40	V541V (GTG→GTA)	uup	ATP‑binding protein with possible role in replication
Reads supporting (aligned to +/- strand):  ref base . (0/0);  new base A (22/18);  total (22/18)

ATCGTCAGTTTGTCGATAACACCGTTACAGAATGTTGGATCTTCGAAGGCGGCGGTAAAATTGGTCGTTATGTCGGCGGTTATCATGATGCCCGTGG‑TCAGCAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑G‑AAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGCAGAAACTGTAAAACGCAGCAGTAGCAAACTAAGCTATAAATTGCAGCGCGAACTGGAGCAGCTACCGCAATTGCTCGAAGATCTGGAGGCGAAGCTGGAAG  >  NC_000913/1011450‑1011719                                                                                                                                             |                                                                                                                                       aTCGTCAGTTTGTCGATAACACCGTTACAGAATGTTGGATCTTCGAAGGCGGCGGTAAAATTGGTCGTTATGTCGGCGGTTATTATGATGCCCGTGG‑GCAGCAAGAGGAGTATGTGGGGCTCAAACAGCCTGC‑GGG‑G‑aaa                                                                                                                                     >  2:484142/1‑140 (MQ=255)      cAGTTTGTCGATAACACCGTTACAGAATGTTGGATCTTCGAAGGCGGCGGTAAAATTGGTCGTTATGTCGGCGGTTATCATGATGCCCGTGG‑TCAGCAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑G‑aaaaaaaa                                                                                                                                <  2:12473/140‑2 (MQ=255)            gTCGATAACACCGTTACAGAATGTTGGATCTTCGAAGGCGGCGGTAAAATTGGTCGTTATGTCGGCGGTTTTCATGATGCCCGTGG‑TCAGCAAGAGCAGGATGTGGCGCTCAAACAGCCTGC‑GGG‑GAAAAAAAACCgaaa                                                                                                                           >  2:858716/1‑139 (MQ=255)                          tACAGAATGTTGGATCTTCGAAGGCGGCGGTAAAATTGGTCGTTATGTCGGCGGTTATCATGATGCCCGTGG‑TCAGCAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCa                                                                                                            <  2:692720/140‑1 (MQ=255)                           aCAGAATGTTGGATCTTCGAAGGCGGCGGTAAAATTGGTCGTTATGTCGGCGGTTATCATGATGCCCGTGG‑TCAGCAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCaa                                                                                                           >  1:996980/1‑140 (MQ=255)                           aCAGAATGTTGGATCTTCGAAGGCGGCGGTAAAATTGGTCGTTATGTCGGCGGTTATCATGATGCCCGTGG‑TCAGCAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCaa                                                                                                           >  2:840848/1‑140 (MQ=255)                            cAGAATGTTGGATCTTCGAAGGCGGCGGTAAAATTGGTCGTTATGTCGGCGGTTATCATGATGCCCGTGG‑TCAGCAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCaaa                                                                                                          <  1:1076068/140‑1 (MQ=255)                               aaTGTTGGATCTTCGAAGGCGGCGGTAAAATTGGTCGTTATGTCGGCGGTTATCATGATGCCCGTGG‑TCAGCAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGc                                                                                                       <  1:840848/140‑1 (MQ=255)                               aaTGTTGGATCTTCGAAGGCGGCGGTAAAATTGGTCGTTATGTCGGCGGTTATCATGATGCCCGTGG‑TCAGCAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑GAAAAAAAAACGAAGAAGCCGCCGC‑GGCAAAAGc                                                                                                       >  2:727518/1‑140 (MQ=255)                                  gTTGGATCTTCGAAGGCGGCGGTAAAATTGGTCGTTATGTCGGCGGTTATCATGATGCCCGTGG‑TCAGCAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGCAGa                                                                                                    <  2:84236/140‑1 (MQ=255)                                      gATCTTCGAAGGCGGCGGTAAAATTGGTCGTTATGTCGGCGGTTATCATGATGCCCGTGG‑TCAGCAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGCAGAAACt                                                                                                >  2:473638/1‑140 (MQ=255)                                         cTTCGAAGGCGGCGGTAAAATTGGTCGTTATGTCGGCGGTTATCATGATGCCCGTGG‑TCAGCAAGAGCAGGATGTGGGGCTCAAACAGCCTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGCAGAAACTGTa                                                                                             >  1:759119/1‑140 (MQ=255)                                           tCGAAGGCGGCGGTAAAATTGGTCGTTATGTCGGCGGTTATCATGATGCCCGTGG‑TCAGCAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGc                                                                                                       <  2:59416/128‑1 (MQ=255)                                           tCGAAGGCGGCGGTAAAATTGGTCGTTATGTCGGCGGTTATCATGATGCCCGTGG‑TCAGCAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGc                                                                                                       >  1:59416/1‑128 (MQ=255)                                           tCGAAGGCGGCGGTAAAATTGGTCGTTATGTCGGCGGTTATCATGATGCCCGTGG‑GCAGCAAGAGCAGTATGTGGGGCTCAAACAGCCTGCGGGG‑G‑AAAAAAAACGAAGAAGCCGCCGC‑GGCAAAAGCAGAAAATGTaaa                                                                                           >  2:209499/1‑140 (MQ=255)                                            cGAAGGCGGCGGTAAAATTGGTCGTTATGTCGGCGGTTATCATGATGCCCGTGG‑TCAGCAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGCAGAAACTGTaaaa                                                                                          <  1:858716/140‑1 (MQ=255)                                            cGAAGGCGGCGGTAAAATTGGTCGTTATGTCGGCGGCTCTCATGATGCCCGTGGCTCA‑CAAGAGCAGGATGTGGCGCTCAAAAAACCTGC‑GGTGG‑AAAAAAACCGAACAAGCCGCCGCGGGCAAAACCA‑AAACCGTaaaa                                                                                          >  2:853798/1‑140 (MQ=255)                                                         aaaaTTGGTCGTTATGTCGGCGGTTATCATGATGCCCGTGG‑TCAGCAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGCAGAAACTGTAAAACGCAGCAGTAGCa                                                                             <  1:583896/140‑1 (MQ=255)                                                           aaTTGGTCGTTATGTCGGCGGTTATCATGATGCCCGTGG‑TCAGCAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGCAGAAACTGTAAAACGCAGCAGTAGCaaa                                                                           <  1:280277/140‑1 (MQ=255)                                                                gTCGTTATGTCGGCGGTTATCATGATGCCCGTGG‑TCAGCAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGCAGAAACTGTAAAACGCAGCAGTAGCAAACTAAg                                                                      <  1:473638/140‑1 (MQ=255)                                                                gTCGTTATGTCGGCGGTTATCATGATGCCCGTGG‑TCAGCAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGCAGAAACTGTAAAACGCAGCAGTAGCAAACTAAg                                                                      <  1:209499/140‑1 (MQ=255)                                                                      aTGTCGGCGGTTATCATGATGCCCGTGG‑TCAGCAAGAGCAGTATGTGGCGCTCAAACAGCCCGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGCAGAAACTGTAAAACGCAGCAGTAGCAAACTAAGCTATaa                                                                >  2:1023333/1‑140 (MQ=255)                                                                            gcggTTATCATGATGCCCGTGG‑TCAGCAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGCAGAAACTGTAAAACGCAGCAGTAGCAAACTAAGCTATAAATTGCa                                                          <  1:1045735/140‑1 (MQ=255)                                                                               gTTATCATGATGCCCGTGG‑TCAGCAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGCAGAAACTGTAAAACGCAGCAGTAGCAAACTAAGCTATAAATTGCAgcg                                                       <  1:484142/140‑1 (MQ=255)                                                                               gTTATCATGATGCCCGTGG‑TCAGCAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGG‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGCAGAAACTGTAAAACGCAGCAGTAGCAAACTAAGCTATAAATTGCAgcg                                                       >  1:487884/1‑140 (MQ=255)                                                                                   tCATGATGCCCGTGG‑TCAGCAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑TGCAAAAGCAGAAACTGTAAAACGCAGCAGTAGCAAACTAAGCTATAAATTGCAGCGCGaa                                                   <  2:381577/140‑1 (MQ=255)                                                                                   tCATGATGCCCGTGG‑TCAGCAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGCAGAAACTGTAAAACGCAGCAGTAGCAAACTAAGCTATAAATTGCAGCGCGaa                                                   <  2:1053049/140‑1 (MQ=255)                                                                                          gCCCGTGG‑TCAGCAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGCAGAAACTGTAAAACGCAGCAGTAGCAAACTAAGCTATAAATTGCAGCGCGAACTGGagc                                            >  1:752169/1‑140 (MQ=255)                                                                                          gCCCGTGG‑TCAGCAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGCAGAAAATGTAAAACGCAGCAGTAGCAAACTAAGCTATAAATTGCAGCGCGAACTGGagc                                            >  2:678745/1‑140 (MQ=255)                                                                                             cGTGG‑TCAGCAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGCAGAAACTGTAAAACGCAGCAGTAGCAAACTAAGCTATAAATTGCAGCGCGAACTGGagcagc                                         >  2:826067/1‑140 (MQ=255)                                                                                             cGTGG‑TCAGCAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGCAGAAACTGTAAAACGCAGCAGTAGCAAACTAAGCTATAAATTGCAGCGCGAACTGGagcagc                                         >  2:642588/1‑140 (MQ=255)                                                                                               tGG‑TCAGCAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGCAGAAACTGTAAAACGCAGCAGTAGCAAACTAAGCTATAAATTGCAGCGCGAACTGGag                                             <  2:457954/134‑1 (MQ=255)                                                                                               tGG‑TCAGCAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGCAGAAACTGTAAAACGCAGCAGTAGCAAACTAAGCTATAAATTGCAGCGCGAACTGGag                                             >  1:457954/1‑134 (MQ=255)                                                                                               tGG‑TCAGCAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGCAGAAACTGTAAAACGCAGCAGTAGCAAACTAAGCTATAAATTGCAGCGCGAACTGGAGCAGCTa                                       >  2:472588/1‑140 (MQ=255)                                                                                                     aGCAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGG‑GGCAAAAGCAGAAACTGTAAAACGCAGCAGTAGCAAACTAAGCTATAAATTGCAGCGCGAACTGGAGCAGCTACCGCa                                  >  2:976609/1‑140 (MQ=255)                                                                                                     aGCAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGCAGAAACTGTAAAACGCAGCAGTAGCAAACTAAGCTATAAATTGCAGCGCGAACTGGAGCAGCTACCGCa                                  >  1:999193/1‑140 (MQ=255)                                                                                                       cAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGCAGAAACTGTAAAACGCAGCAGTAGCAAACTAAGCTATAAATTGCAGCGCGAACTGGAGCAGCTACCGCAAt                                >  2:717486/1‑140 (MQ=255)                                                                                                             cAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGCAGAAACTGTAAAACGCAGCAGTAGCAAACTAAGCTATAAATTGCAGCGCGAACTGGAGCAGCTACCGCAATTGCTCg                          <  1:2291/140‑1 (MQ=255)                                                                                                                         cTCAAACAGCCTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGCAGAAACTGTAAAACGCAGCAGTAGCAAACTAAGCTATAAATTGCAGCGCGAACTGGAGCAGCTACCGCAATTGCTCGAAGATCTGGAgg              >  1:246619/1‑140 (MQ=255)                                                                                                                          tCAAACAGCCTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGCAGAAACTGTAAAACGCAGCAGTAGCAAACTAAGCTATAAATTGCAGCGCGAACTGGAGCAGCTACCGCAATTGCTCGAAGATCTGGAGGc             >  1:301417/1‑140 (MQ=255)                                                                                                                                  ccTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGCAGAAACTGTAAAACGCAGCAGTAGCAAACTAAGCTATAAATTGCAGCGCGAACTGGAGCAGCTACCGCAATTGCTCGAAGATCTGGAGGCGAAGCTgg     >  2:206743/1‑140 (MQ=255)                                                                                                                                   cTGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGCAGAAACTGTAAAACGCAGCAGTAGCAAACTAAGCTATAAATTGCAGCGCGAACTGGAGCAGCTACCGCAATTGCTCGAAGATCTGGAGGCGAAGCTGGa    <  1:1059487/140‑1 (MQ=255)                                                                                                                                    tGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGCAGAAACTGTAAAACGCAGCAGTAGCAAACTAAGCTATAAATTGCAGCGCGAACTGGAGCAGCTACCGCAATTGCTCGAAGATCTGGAGGCGAAGCTGGaa   >  1:78399/1‑140 (MQ=255)                                                                                                                                    tGC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGCAGAAACTGTAAAACGCAGCAGTAGCAAACTAAGCTATAAATTGCAGCGCGAACTGGAGCAGCTACCGCAATTGCTCGAAGATCTGGAGGCGAAGCTGGaa   >  1:388214/1‑140 (MQ=255)                                                                                                                                     gC‑GGT‑GAAAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGCAGAAACTGTAAAACGCAGCAGTAGCAAACTAAGCTATAAATTGCAGCGCGAACTGGAGCAGCTACCGCAATTGCTCGAAGATCTGGAGGCGAAGCTGGAAg  <  1:826067/140‑1 (MQ=255)                                                                                                                                             |                                                                                                                                       ATCGTCAGTTTGTCGATAACACCGTTACAGAATGTTGGATCTTCGAAGGCGGCGGTAAAATTGGTCGTTATGTCGGCGGTTATCATGATGCCCGTGG‑TCAGCAAGAGCAGTATGTGGCGCTCAAACAGCCTGC‑GGT‑G‑AAAAAAACCGAAGAAGCCGCCGC‑GGCAAAAGCAGAAACTGTAAAACGCAGCAGTAGCAAACTAAGCTATAAATTGCAGCGCGAACTGGAGCAGCTACCGCAATTGCTCGAAGATCTGGAGGCGAAGCTGGAAG  >  NC_000913/1011450‑1011719

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑