Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,756,503	G→A	W115* (TGG→TGA)	intA →	integrase IntA

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,756,503	0	G	A	100.0%	25.4 / NA	12	W115* (TGG→TGA)	intA	integrase IntA
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base A (7/5);  total (7/5)

GCAGCGAACCAAACAGAGCTTCGGTGCCTATCCTGCCGTCTCGCTTTCTGATGCACGTAAACTCAGAGCCGAATCTAAAGTTTTATTGGCGAAAGACATTGATCCTCAGGAACATCAGAAAGAACAGGTGAGGAATTCTCAAGAGGCCAAAACCAATACCTTCTTGTTAGTTGCCGAGCGTTGGTGGAATGTGAAGAAAACCAGCGTAACAGAGGACTATGCCGACGATATCTGGCGCTCGCTTGAGAGAGATATTTTCCCGGCAATCGGTGATATCAGTATCACTGAGATTAAGGCTCATACTCTGGTTAAAGCAGTTCAGCCGGTTCAGGCCAGAGGTGCATTAGAGACTGTTCGCCGCCTTTGTCAGCGTATTAACGAAGTCATGATTTATGCGCAGAACACAGGCCTGATTGAT  >  NC_000913/2756317‑2756734                                                                                                                                                                                           |                                                                                                                                                                                                                                        gcaacGAACCAAACAGAGCTTCGGTGCCTATCCTGCCGTCTCGCTTTCTGATGCACGTAAACTCAGAGCCGAATCTAAAGTTTTATTGGCGAAAGACATTGATCCTCAGTAACATCAGAAAGAACAGGGGAGGAATTCGCAAGAGGCCAAAACCAATACCGTCTTGGTATTTGCCGTTCGTGTGTTAAAGGTGGAGAAAACCAGCGTAACAGAGGACTATGCCGACGATATCTGGCGCTCGCTTgagagag                                                                                                                                                                         <  1:126772/247‑1 (MQ=255)                           ccTAGCCTGCCGTCTCGCTTTCTGATGCACGTAAACTCAGAGCCGAATCTAAAGTTTTATTGGCGAAAGACATTGATCCTCAGGAACATCAGAAAGAACAGGTGAGGAATTCTCAAGAGGCCAAAACCAATACCTTCTTGTTAGTTGCCGAGCGTTGGTGAAATGTGAAGAAAACCAGCGTAACAGAGGACTATGCCGACGATATCTGGCGCTCGCTTgagag                                                                                                                                                                           <  1:238781/223‑1 (MQ=255)                                      gTCTCGCTTTCTGATGCACGTAAACTCAGAGCCGAATCTAAAGTTTTATTGGCGAAAGACATTGATCCTCAGGAACATCAGAAAGAACAGGTGAGGAATTCTCAAGATGCCAAAACCAATACCTTCTTGTTAGTTGCCGAGCGTTGGTGAAATGTGAAGAAAACCAGCGTAACAGAGGACTATGCCGACGATATCTGGCGCTCGCGTGAGAGAGATAtt                                                                                                                                                                    <  1:86075/219‑1 (MQ=255)                                                                                           gAAAGACATTGATCCTCAGGAACATCAGAAAGAACAGGTGCGGAATTCTCACGAGGCCAAAACCACTACCTTCTTGTTAGTTGCCGAGCGTTGGTGAAATGTGAAGAAAACCAGCGTAACAGAGGACTATGCCGACGATATCTGGCGCTCGCTTGAGAGAGATATTTTCCCGGCAATCGGTGATATCAGTATCACTGAGATTAAGGCTCATACTCTGGTTAAAGCa                                                                                                        >  1:208372/1‑226 (MQ=255)                                                                                                 cATTGATCCTCAGGAACATCAGAAAGAACAGGTGAGGAATTGTCAAGAGGCCAAAACGACTACCTTCTTGTTAGTTGACGAACGTTGGCGAAATGCGAAGAAAACGAGCGTAACAGAGGACTAtcc                                                                                                                                                                                                      >  1:147039/1‑124 (MQ=255)                                                                                                                            aCAGGTGAGGAATTCTCAAGAGGCCAAAACCAATACCTTCTTGTTAGTTGCCGAGCGTTGGTGAAATGTGAAGAAAACCAGCGTAACAGAGGACTATGCCGACGATATCTGGCGCTCGCTTgagag                                                                                                                                                                           >  1:21372/1‑126 (MQ=255)                                                                                                                                            cAAGAGGCCAAAACCAATACCTTCTTGTTAGTTGCCGAGCGTTGGTGAAATGTGAAGAAAACCAGCGTCACAGAGGACTATGCCGACGATATCTGGCGCTCGCTTGAGAGAGATATTTTCCCGGCAATCGGTGATATCAGTATCACTGAGATTAAg                                                                                                                             >  1:193990/1‑156 (MQ=255)                                                                                                                                                  gCCAAAACCAATGCCTTCTTGTTAGTTGCCGAGCGATGGTGAAATGTGAAGAAAACCAGCTTAACAGAGGACTATGCCGACTATATCTGGCGCTCGCTTGAGAGAGATATTTTCCCGGCAATCGGTGATATCAGTATCACTGAGATTAAGGCTCATACTCTGGTTAAAGCAGTTCAGCCGGTTCAggn                                                                                       <  1:47096/188‑2 (MQ=255)                                                                                                                                                  gCCAAAACCAATACCTTCTTGTTAGTTGCAGAGCGTTGGTGAAATGTGAAGAAAACCAGAGTAACAGAGGACTATGCCGACGATATCTGGCGCTCGCTTGCGAGAGATATTTTCCCGGCAATCGGTGATATCAGTATCACTGAGCTTAAGGCTCATACTCTGGTTAAAGCAGTTCAGcc                                                                                                >  1:206618/1‑179 (MQ=255)                                                                                                                                                                        tAGTTGCCGAGCGTTGGTGAAATGTGAAGAAAACTAGCGTAACAGAGGAGAATGCCGACGATCTCTGGCGGTCGCTTGAGAGAGATATTTTCCCGGCAATCGGTGCTATCAGTCTCACTGAGATTAAGGCTGATACTCTGGTTAAAGCAGTTCAGCCGGTTCAGGCCAGCGGTGCATTAGAGACTGTTCgccgcc                                                          >  1:106544/1‑195 (MQ=255)                                                                                                                                                                         aGTTGCCGAGCGTTGGTGAAATGGGAAGAAAACCAGCGTAACAGAGGACTATGGCGACGATATCTGGCGCTCGCTTGAGAGAGAAATTTTCCCGGCCATCGGGGATATCAGTAATACTGAGATTAAGGCTCATTCTCCGGTTAAAGCAGTTCAGCCGGTTCAGGCCAGAGGTGCGTTAGAGACTGGTCGCCGCCTTTGTCAGCGTATTAACGAAGTCATGATTTATGCGCATATCACATGCCtgattgat  <  1:91146/250‑1 (MQ=255)                                                                                                                                                                            tGCCGAGCGTTGGTGAAATGTGAAGAAAACCAGCGTAACAGAGGACTATGCCGACGATATCTGGCGCTCGCTTGAGAGAGATATTTTCCCGGCAATCGGTGATATCAGTATCACTGAGATTAAGGCTCATACTCTGGTTAAAGCAGTTCAGCCGGTTCAGGCCAGAGGTGCATTagag                                                                       >  1:4687/1‑178 (MQ=255)                                                                                                                                                                                           |                                                                                                                                                                                                                                        GCAGCGAACCAAACAGAGCTTCGGTGCCTATCCTGCCGTCTCGCTTTCTGATGCACGTAAACTCAGAGCCGAATCTAAAGTTTTATTGGCGAAAGACATTGATCCTCAGGAACATCAGAAAGAACAGGTGAGGAATTCTCAAGAGGCCAAAACCAATACCTTCTTGTTAGTTGCCGAGCGTTGGTGGAATGTGAAGAAAACCAGCGTAACAGAGGACTATGCCGACGATATCTGGCGCTCGCTTGAGAGAGATATTTTCCCGGCAATCGGTGATATCAGTATCACTGAGATTAAGGCTCATACTCTGGTTAAAGCAGTTCAGCCGGTTCAGGCCAGAGGTGCATTAGAGACTGTTCGCCGCCTTTGTCAGCGTATTAACGAAGTCATGATTTATGCGCAGAACACAGGCCTGATTGAT  >  NC_000913/2756317‑2756734

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 30 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑