Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,066,740	A→G	G194G (GGT→GGC)	insH‑6 ←	CP4‑44 prophage; IS5 transposase and trans‑activator

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,066,740	0	A	G	100.0%	88.3 / NA	29	G194G (GGT→GGC)	insH‑6	CP4‑44 prophage; IS5 transposase and trans‑activator
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base G (14/15);  total (14/15)

TTACCCAGCTGATTGAGGTCATGCTCGTTGGCCGCGGTGGTGACTAGGCTGTGGGTCAGGCCGCTCTTGGCATCGACACCAATGTGGGCCTTCATGCCAAAGTGCCACTGATTGCCTTTCTTGGTCTGATGCATCTCCG  >  NC_000913/2066663‑2066801                                                                              |                                                              ttACCCAGCTGATTGAGGTCATGCTCGTTGGCCGCGGTGGTGACTAGGCTGTGGGTCAGGCCGCTCTTGGCATCGACGcc                                                             >  1:376179/1‑80 (MQ=255)       aGCTGATTGAGGTCATGCACGTTGGCCGCGGTGGTGACTAGGCTGTGGGTCAGGCCGCTATTGGCATCGACGCCAATGTgg                                                      >  2:376172/1‑81 (MQ=14)        gCTGATTGAGGTCATGCTCGTTGGCCGCGGTGGTGACTAGGCTGTGGGTCAGGCCGCTCTTGGCATCGACGCCAATGTggg                                                     <  1:376125/81‑1 (MQ=255)           gATTGAGGTCATGCTCGTTGGCCGCGGTGGTGACTAGGCTGTGGGTCAGGCCGCTCTTGGCATCGACGCCAATGTGGGCCt                                                  >  2:423401/1‑81 (MQ=255)            aTTGAGGTCATGCTCGTTGGCCGCGGTGGTGACTAGGCTGTGGGTCAGGCCGCTCTTGGCATCGACGCCAATGTGGGCCt                                                  <  1:376126/80‑1 (MQ=255)             ttGAGGTCATGCTCGTTGGCCGCGGTGGTGACTAGGCTGTGGGTCAGGCCGCTCTTGGCATCGACGCCAATGTGGGCCTTc                                                <  1:376127/81‑1 (MQ=255)               gAGGTCATGCTCGTTGGCCGCGGTGGTGACTAGGCTGTGGGTCAGGCCGCTCTTGGCATCGACGCCAATGTGGGCCTTCa                                               <  1:376128/80‑1 (MQ=255)                  gTCATGCTCGTTGGCCGCGGTGGTGACTAGGCTGTGGGTCAGGCCGCTCTTGGCATCGACGCCAATGTGGGCCTTCATGcc                                           <  1:376129/81‑1 (MQ=255)                     aTGCTCGTTGGCCGCGGTGGTGACTAGGCTGTGGGTCAGGCCGCTCTTGGCATCGACGCCAATGTGGGCCTTCATGCCa                                          >  1:376171/1‑79 (MQ=255)                           gTTGGCCGCGGTGGTGACTAGGCTGTGGGTCAGGCCGCTCTTGGCATCGACGCCAATGTGGGCCTTCATGCCAAAGTGCCa                                  <  1:376131/81‑1 (MQ=255)                           gTTGGCCGCGGTGGTGACTAGGCTGTGGGTCAGGCCGCTCTTGGCATCGACGCCAATGTGGGCCTTCATGCCAAAGTGCCa                                  >  2:376177/1‑81 (MQ=255)                           gTTGGCCGCGGTGGTGACTAGGCTGTGGGTCAGGCCGCTCTTGGCATCGACGCCAATGTGGGCCTTCATGCCAAAGTGCCa                                  <  1:376130/81‑1 (MQ=255)                               gCCGCGGTGGTGACTAGGCTGTGGGTCAGGCCGCTCTTGGCATCGACGCCAATGTGGGCCTTCATGCCAAAGTGCCACTg                               <  2:376132/80‑1 (MQ=255)                                  gcgGTGGTGACTAGGCTGTGGGTCAGGCCGCTCTTGGCATCGACGCCAATGTGGGCCTTCATGCCAAAGTGCCACTGATTg                           >  1:376180/1‑81 (MQ=255)                                  gcgGTGGTGACTAGGCTGTGGGTCAGGCCGCTCTTGGCATCGACGCCAATGTGGGCCTTCATGCCAAAGTGCCACTGATTg                           <  2:376133/81‑1 (MQ=255)                                     gtggtgACTAGGCTGTGGGTCAGGCCGCTCTTGGCATCGACGCCAATGTGGGCCTTCATGCCAAAGTGCCACTGATTGCCt                        <  2:376134/81‑1 (MQ=255)                                        gtgACTAGGCTGTGGGTCAGGCCGCTCTTGGCATCGACGCCAATGTGGGCCTTCATGCCAAAGTGCCACTGATTGCCttt                      <  2:376135/80‑1 (MQ=255)                                             tAGGCTGTGGGTCAGGCCGCTCTTGGCATCGACGCCAATGTGAGCCTTCATGCCAAAGTGCCACTGATTGCCTTTCTTGGt                >  2:376174/1‑81 (MQ=255)                                              aGGCTGTGGGTCAGGCCGCTCTTGGCATCGACGCCAATGTGGGCCTTCATGCCAAAGTGCCACTGATTGCCTTTCTTGGTc               >  1:376175/1‑81 (MQ=18)                                                gCTGTGGGTCAGGCCGCTCTTGGCATCGACGCCAATGTGGGCCTTCATGCCAAAGTGCCACTGATTGCCTTTCTTGGTCTg             <  1:376136/81‑1 (MQ=18)                                                    tgGGTCAGGCCGCTCTTGGCATCGACGCCAATGTGGGCCTTCATGCCAAAGTGCCACTGATTGCCTTTCTTGGTCTGAt           <  2:376137/79‑1 (MQ=21)                                                       gTCAGGCCGCTCTTGGCATCGACGCCAATGTGGGCCTTCATGCCAAAGTGCCACTGATTGCCTTTCTTGGTCTGATGCAtc      >  1:376170/1‑81 (MQ=18)                                                       gTCAGGCCGCTCTTGGCATCGACGCCAATGTGGGCCTTCATGCCAAAGTGCCACTGATTGCCTTTCTTGGTCTGATGCAtc      <  1:376138/81‑1 (MQ=18)                                                       gTCAGGCCGCTCTTGGCATCGACGCCAATGTGGGCCTTCATGCCAAAGTGCCACTGATTGCCTTTCTTGGTCTGATGCAtc      >  2:376187/1‑81 (MQ=18)                                                         cAGGCCGCTCTTGGCATCGACGCCAATGTGGGCCTTCATGCCAAAGTGCCACTGATTGCCTTTCTTGGTCTGATGCAtctc    >  1:376182/1‑81 (MQ=18)                                                         cAGGCCGCTCTTGGCATCGACGCCAATGTGGGCCTTCATGCCAAAGTGCCACTGATTGCCTTTCTTGGTCTGATGCAtctc    >  2:376181/1‑81 (MQ=18)                                                          aGGCCGCTCTTGGCATCGACGCCAATGTGGGCCTTCATGCCAAAGTGCCACTGATTGCCTTTCTTGGTCTGATGCATCTcc   <  2:376139/81‑1 (MQ=18)                                                          aGGCCGCTCTTGGCATCGACGCCAATGTGGGCCTTCATGCCAAAGTGCCACTGATTGCCTTTCTTGGTCTGATGCATCTcc   >  1:376178/1‑81 (MQ=18)                                                           ggCCGCTCTTGGCATCGACGCCAATGTGGGCCTTCATGCCAAAGTGCCACTGATTGCCTTTCTTGGTCTGATGCATCTCCg  >  1:376184/1‑81 (MQ=18)                                                                              |                                                              TTACCCAGCTGATTGAGGTCATGCTCGTTGGCCGCGGTGGTGACTAGGCTGTGGGTCAGGCCGCTCTTGGCATCGACACCAATGTGGGCCTTCATGCCAAAGTGCCACTGATTGCCTTTCTTGGTCTGATGCATCTCCG  >  NC_000913/2066663‑2066801

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑