Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_007790	931	Δ1 bp	coding (652/717 nt)	SAUSA300_RS14705 →	replication protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_007790	931	0	G	.	100.0%	154.8 / NA	40	coding (652/717 nt)	SAUSA300_RS14705	replication protein
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base . (39/1);  total (39/1)

CTTAAACAAAAACATAAAATTTTAAACTTAGACGATGTCGAAGATGGTAATTTGATTAATGCAAGTGATGAAGATAAAACAACAGACGAAGAAGAAAAAGCACATTCAATTACCGCAATTTGGAATTTCGAAAAGCAAAATTATTATTTAAGACATTAGTGTTGACTAATGT  >  NC_007790/838‑1009                                                                                              |                                                                               tatAAACAAAAGCATAAAATTTTAAACTTAGACGATGCCGAAGATGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGc                                                                         >  1:4213034/3‑100 (MQ=255)    aaaCAAAAGCATAAAATTTTAAACTTAGACGATGCCGAAGATGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGcaca                                                                      >  1:5726049/1‑100 (MQ=255)        aaaagCATAAAATTTTAAACTTAGACGATGCCGAAGATGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCa                                                                  >  1:4128301/1‑100 (MQ=255)         aaagCATAAAATTTTAAACTTAGACGATGCCGAAGATGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCaa                                                                 >  1:5459209/1‑100 (MQ=255)         aaagCATAAAATTTTAAACTTAGACGATGCCGAAGATGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCaa                                                                 >  1:2335006/1‑100 (MQ=255)              ttAAAATTTTAAACTTAGACGATGCCGAAGATGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTAcc                                                            >  1:4439534/2‑100 (MQ=255)              ctAAAATTTTAAACTTAGACGATGCCGAAGATGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTAcc                                                            >  1:6019930/2‑100 (MQ=255)                aaaaTTTTAAACTTAGACGATGCCGAAGATGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTACCGc                                                          >  1:2752328/1‑100 (MQ=255)                     tttAAACTTAGACGATGCCGAAGATGGTAATTTGATTAATACAAGGGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTACCGCAAtct                                                     >  1:618475/1‑98 (MQ=255)                           actAGACGATGCCGAAGATGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTACCGCAATTTGGaaag                                               >  1:2738058/3‑98 (MQ=255)                            ctAGACGATGCCGAAGATGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTACCGCAATTTGGAAtag                                              >  1:676444/2‑98 (MQ=255)                              ggACGATGCCGAAGATGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTACCGCAATTTGGAAtagat                                            >  1:2874848/2‑96 (MQ=255)                              aGACGATGCCGAAGATGGTAATTTGATTAATACAAGTGATGAAGGTAAAACGACAGACGAAGAA‑AAGAAGCACATTCAATTACCGCAATATGGaagatcg                                            >  1:1979329/1‑95 (MQ=255)                              aGACGATGCCGAAGATGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTACCGCAAttggaagatcgg                                            >  1:2147245/1‑90 (MQ=255)                              aGACGATGCCGAAGATGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTACCGCAAttggaagatcgg                                            >  1:30534/1‑90 (MQ=255)                              aGACGATGCCGAAGATGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTACCGCAATTTgagatcgga                                            >  1:3168009/1‑92 (MQ=255)                              aGACGATGCCGAAGATGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTACCGCAATTTGGagatcgg                                            >  1:3447717/1‑94 (MQ=255)                              aGACGATGCCGAAGATGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTACCGCAATTTGGaagatcg                                            >  1:3472042/1‑95 (MQ=255)                              aGACGATGCCGAAGATGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTACCGCAATTTGGaaagatc                                            >  1:1959232/1‑95 (MQ=255)                              aGACGATGCCGAAGATGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTACCGCAATTAGGaagatcg                                            >  1:1922289/1‑95 (MQ=255)                              aGACGATGCCGAAGATGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTACCGCAATTAGGaagatcg                                            >  1:5968018/1‑95 (MQ=255)                              aGACGATGCCGAAGATGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTACCGCAATATGGaagatcg                                            >  1:1678343/1‑95 (MQ=255)                              aGACGATGCCGAAGATGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTACCGCAACTTGGaagatcg                                            >  1:5286488/1‑95 (MQ=255)                                atgATGCCGAAGATGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTACCGCAATTTGaaagatcgga                                          >  1:4799340/3‑93 (MQ=255)                                aCGATGCCGAAGATGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTACCGCAAGTTGGaagatcgga                                          >  1:867743/1‑93 (MQ=255)                                 cGATGCCGAAGATGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTACCGCAATTTGGaagatcggaa                                         >  1:3780766/1‑92 (MQ=255)                                 ataTGCCGAAGATGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTACCGCAATATGGaagatcggaa                                         >  1:1015489/3‑92 (MQ=255)                                  taTGCCGAAGATGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTACCGCAATTTGGaagatcggaag                                        >  1:4238912/2‑91 (MQ=255)                                  gATGCCGAAGATGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTACCGCAATTTGGaagatcggaag                                        >  1:204461/1‑91 (MQ=255)                                  gATGCCGAAGATGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTACCGCAATTTGGAATTTCGaaaa                                        >  1:2952361/1‑100 (MQ=255)                                  gATGCCGAAGATGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTACCGCAAGTCGGaagatcggaag                                        >  1:2995163/1‑91 (MQ=255)                                   ctgccGAAGATGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTACCGCAATTTGGAATTTCGAAAAg                                       >  1:1017223/5‑100 (MQ=255)                                   aTGCCGAAGATGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTACCGCAATTTGGaagatcggaaga                                       >  1:4616911/1‑90 (MQ=255)                                   aTGCCGAAGATGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTACCGCAAGTTGGaagatcggaaga                                       >  1:3266017/1‑90 (MQ=255)                                         aaGATTGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTACCGCAATTTGGAAGATCGaaagcacacgt                                 >  1:1476096/1‑92 (MQ=255)                                           tgtGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGA‑‑AAAAAGCACATTCAATTACCGCAATTTGGAATTTCGAAAAGCaaagatcg                              >  1:3091190/3‑95 (MQ=255)                                            ttGGTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTACCGCAATTTGGAATTTCGAAAAGCaaagatcg                              >  1:708553/2‑95 (MQ=255)                                              ggTAATTTGATTAATACAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTACCGCAATTTGGAATTTCGAAAAGCaaaagatcgg                            >  1:4268797/1‑94 (MQ=255)                                                              cAAGTGATGAAGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTACCGCAATTTGGAATTTCGAAAAGCAAAATTATTATTTAAGACATTAgatc            >  1:1840331/1‑97 (MQ=255)                                                                        aGATAAAACGACAGACGAAGAA‑AAAAAGCACATTCAATTACCGCAATTTGGAATTTCGAAAAGCAAAATTATTATTTAAGACATTAGTGATAACtgggcc  <  1:1888458/100‑6 (MQ=255)                                                                                              |                                                                               CTTAAACAAAAACATAAAATTTTAAACTTAGACGATGTCGAAGATGGTAATTTGATTAATGCAAGTGATGAAGATAAAACAACAGACGAAGAAGAAAAAGCACATTCAATTACCGCAATTTGGAATTTCGAAAAGCAAAATTATTATTTAAGACATTAGTGTTGACTAATGT  >  NC_007790/838‑1009

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 24 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑