Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_017635	1,642,100	C→T	pseudogene (1017/1137 nt)	ydcC →	ISAs1 family transposase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_017635	1,642,100	0	C	T	100.0%	41.0 / NA	14	pseudogene (1017/1137 nt)	ydcC	ISAs1 family transposase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (7/7);  total (7/7)

TAAGAAAAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATCGCTATTAAT  >  NC_017635/1642054‑1642109                                               |          tAAGAAAAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGc         >  1:648694/1‑49 (MQ=255) tAAGAAAAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGc         >  2:1105096/1‑49 (MQ=255)  aaGAAAAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTa       >  1:1222887/1‑50 (MQ=255)  aaGAAAAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTa       >  1:1953843/1‑50 (MQ=255)   aGAAAAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTa       <  2:2018487/49‑1 (MQ=255)   aGAAAAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTAt      <  1:813644/50‑1 (MQ=255)    gAAAAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTAtt     <  1:493518/50‑1 (MQ=255)    gAAAAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTAt      >  1:1226032/1‑49 (MQ=255)     aaaaGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTAtt     >  1:1180496/1‑49 (MQ=255)     aaaaGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTATTa    <  2:262660/50‑1 (MQ=255)      aaaGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTATTaa   >  2:111475/1‑50 (MQ=255)      aaaGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTATTaa   <  2:249836/50‑1 (MQ=255)       aaGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTATTAat  <  1:543451/50‑1 (MQ=12)       aaGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATTGCTATTAat  <  2:146473/50‑1 (MQ=12)                                               |          TAAGAAAAGGAAATGCAGCAGAATTATTTTCAGGGATACGGCACATCGCTATTAAT  >  NC_017635/1642054‑1642109

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑