Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_007790	361	C→T	L28L (CTT→TTA)	SAUSA300_RS14705 →	replication protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_007790	361	0	C	T	100.0%	87.1 / NA	30	L28F (CTT→TTT)	SAUSA300_RS14705	replication protein
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (29/1);  total (29/1)

TGGAGACGTGCTATGAAAAATAGTTATCAAGCTCAAAAAGTGATTGAAAAAGTAATTAAGGAAAAGCCAAAAGCACGTTGGTTGTTTTTAACACTTTCAACAAAAAATGCGATAGATGGAGATACTTTAGAAC  >  NC_007790/268‑400                                                                                              |                                        tGGAGACGTTCTATGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATcag                                   >  1:4141711/1‑99 (MQ=255) tGGAGACGTTCTATGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATcaa                                   >  1:910245/1‑100 (MQ=255)           cTATGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGc                         >  1:273290/1‑100 (MQ=255)             aTGAAATATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:5580078/1‑98 (MQ=255)             aTGAAACATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGGATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcag                       >  1:1980457/1‑98 (MQ=255)             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGCAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:3703264/1‑98 (MQ=255)             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGGATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:1211021/1‑98 (MQ=255)             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATggca                       >  1:2979799/1‑97 (MQ=255)             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:1863920/1‑98 (MQ=255)             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:90541/1‑98 (MQ=255)             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:708058/1‑98 (MQ=255)             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:5674075/1‑98 (MQ=255)             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:5621481/1‑98 (MQ=255)             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:5598425/1‑98 (MQ=255)             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:5262388/1‑98 (MQ=255)             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:4785851/1‑98 (MQ=255)             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:4752449/1‑98 (MQ=255)             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:4702177/1‑98 (MQ=255)             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:4434220/1‑98 (MQ=255)             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:1434987/1‑98 (MQ=255)             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:4030799/1‑98 (MQ=255)             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:3776960/1‑98 (MQ=255)             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:2800209/1‑98 (MQ=255)             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:2474026/1‑98 (MQ=255)             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:224123/1‑98 (MQ=255)             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:2055898/1‑98 (MQ=255)             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:1473751/1‑98 (MQ=255)             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGCTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:85801/1‑98 (MQ=255)              tGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGCAAt                      <  1:2872536/100‑1 (MQ=255)                                  cAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGCAATAGGTGGAGATACGTTAGAAc  >  1:4319854/1‑100 (MQ=255)                                                                                              |                                        TGGAGACGTGCTATGAAAAATAGTTATCAAGCTCAAAAAGTGATTGAAAAAGTAATTAAGGAAAAGCCAAAAGCACGTTGGTTGTTTTTAACACTTTCAACAAAAAATGCGATAGATGGAGATACTTTAGAAC  >  NC_007790/268‑400

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑