Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_007790	339	2 bp→TT	coding (60‑61/717 nt)	SAUSA300_RS14705 →	replication protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_007790	339	0	A	T	100.0%	133.8 / NA	45	K20N (AAA→AAT)	SAUSA300_RS14705	replication protein
Reads supporting (aligned to +/- strand):  ref base A (0/0);  new base T (44/1);  total (44/1)
*	NC_007790	340	0	G	T	100.0%	133.4 / NA	45	A21S (GCA→TCA)	SAUSA300_RS14705	replication protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base T (44/1);  total (44/1)

ATGTCCGGTTTGTAATTGGAGACGTGCTATGAAAAATAGTTATCAAGCTCAAAAAGTGATTGAAAAAGTAATTAAGGAAAAGCCAAAAGCACGTTGGTTGTTTTTAACACTTTCAACAAAAAATGCGATAGATGGAGATACTTTAGAAC  >  NC_007790/252‑400                                                                                        ||                                                             aTGTCCAGTTTGTAATTGGAGACGTTCTATGAAAAATAGTTATCAATCCCAAAACGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCgttggttg                                                   >  1:4800303/1‑100 (MQ=255)  gtgccagTTTGTAATTGGAGACGTTCTATGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGgttgt                                                  >  1:2818388/7‑100 (MQ=255)   gTCCAGTTTGTAATTGGAGACGTTCTATGAAAAATAGTTATCAATCCCAAAAAGTGATTGCAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGgttgtt                                                 >  1:26516/1‑100 (MQ=255)   gTCCAGTTTGTAATTGGAGACGTTCTATGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGgttgtt                                                 >  1:4088399/1‑100 (MQ=255)   gTCCAGTTTGTAATTGGAGACGTTCTATGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGgttgtt                                                 >  1:4209494/1‑100 (MQ=255)   gTCCAGTTTGTAATTGGAGACGTTCTATGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGgttgtt                                                 >  1:4435171/1‑100 (MQ=255)   gTCCAGTTTGTAATTGGAGACGTTCTATGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGgttgtt                                                 >  1:2111821/1‑100 (MQ=255)   gTCCAGTTTGTAATTGGAGACGTTCTATGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGgttgtt                                                 >  1:4454546/1‑100 (MQ=255)    tCCAGTTTGTAATTGGAGACGTTCTATGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGTATTCTCGTTGGTTGttt                                                >  1:2924566/1‑100 (MQ=255)     ccagTTTGTAATTGGAGACGTTCTATGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGtttc                                               >  1:6040936/4‑99 (MQ=255)     ccagTTTGTAATTGGAGACGTTCTATGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGtttc                                               >  1:1310397/4‑99 (MQ=255)          ttGTAATTGGAGACGTTCTATGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTaca                                          >  1:1903985/1‑100 (MQ=255)          ttGTAATTGGAGACGTTCTATGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTaca                                          >  1:1031837/1‑100 (MQ=255)           tGTAATTGGAGACGTTCTATGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTacat                                         >  1:581826/1‑99 (MQ=255)            gTAATTGGAGACGTTCTATGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTacatt                                        >  1:4934173/1‑98 (MQ=255)                 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                       >  1:2474026/1‑98 (MQ=255)                             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:90541/1‑98 (MQ=255)                             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:708058/1‑98 (MQ=255)                             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:1434987/1‑98 (MQ=255)                             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:1473751/1‑98 (MQ=255)                             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:5674075/1‑98 (MQ=255)                             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:5621481/1‑98 (MQ=255)                             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:5598425/1‑98 (MQ=255)                             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:3776960/1‑98 (MQ=255)                             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:5262388/1‑98 (MQ=255)                             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:1863920/1‑98 (MQ=255)                             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:4030799/1‑98 (MQ=255)                             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:4785851/1‑98 (MQ=255)                             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:4752449/1‑98 (MQ=255)                             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:4702177/1‑98 (MQ=255)                             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:2055898/1‑98 (MQ=255)                             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:224123/1‑98 (MQ=255)                             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:4434220/1‑98 (MQ=255)                             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:2800209/1‑98 (MQ=255)                             aTGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGCTGTTTCTTACATTATCAATACGAAATGcaa                       >  1:85801/1‑98 (MQ=255)                              tGAAAAATAGTTATCAATCCCAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGCAAt                      <  1:2872536/100‑1 (MQ=255)                                                  cAAAAAGTGATTGAAGAAGTGTTTAAAGAAAAGCCGAATTCTCGTTGGTTGTTTCTTACATTATCAATACGAAATGCAATAGGTGGAGATACGTTAGAAc  >  1:4319854/1‑100 (MQ=255)                                                                                        ||                                                             ATGTCCGGTTTGTAATTGGAGACGTGCTATGAAAAATAGTTATCAAGCTCAAAAAGTGATTGAAAAAGTAATTAAGGAAAAGCCAAAAGCACGTTGGTTGTTTTTAACACTTTCAACAAAAAATGCGATAGATGGAGATACTTTAGAAC  >  NC_007790/252‑400

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 18 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑