Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,464,379	C→T	A111T (GCC→ACC)	treC ←	trehalose‑6‑phosphate hydrolase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,464,379	0	C	T	100.0%	60.3 / NA	20	A111T (GCC→ACC)	treC	trehalose‑6‑phosphate hydrolase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (12/8);  total (12/8)

CCAGCGCCACGCACTACCGCCAAATTTTGAACGCCAGTTGTTCGGTGGCGTTTCTGGTTCTCCATCGCGCCAGATATAAAACTGGCGGTAAGGGCTTTCTTTGTTCAGCGCCTCGCGAAACCAGGCATGTTGGGTAGAGGTATGGTTAAACACCATATCGAGAATGATACGAATCCCGCGCGATTTTGCCTGCGTCACCAGTTCGTCAAAATCGTCCAGCGTGCCGTAGGTGGGATCAATCGCCGTATAGTTCGCTA  >  NC_000913/4464254‑4464510                                                                                                                              |                                                                                                                                    ccAGCGCCACGCACTACCGCCAAATTTTGAACGCCAGTTGTTCGGTGGCGTTTCTGGTTCTCCATCGCGCCAGATATAAAACTGGCGGTAAGGGCTTTCTTTGTTCAGCGCCTCGCGAAACCAGGTATGTTGGGTAGAgg                                                                                                                       >  1:178038/1‑140 (MQ=255) ccAGCGCCACGCACTACCGCCAAATTTTGAACGCCAGTTGTTCGGTGGCGTTTCTGGTTCTCCATCGCGCCAGATATAAAACTGGCGGTAAGGGCTTTCTTTGTTCAGCGCCTCGCGAAACCAGGTATGTTGGGTAGAgg                                                                                                                       <  2:210842/140‑1 (MQ=255)                          tttGAACGCCAGTTGTTCGGTGGCGTTTCTGGTTCTCCATCGCGCCAGATATAAAACTGGCGGTAAGGGCTTTCTTTGTTCAGCGCCTCGCGAAACCAGGTATGTTGGGTAGAGGTATGGTTAAACACCATATCGAGAAt                                                                                              <  1:390443/140‑1 (MQ=255)                          tttGAACGCCAGTTGTTCGGTGGCGTTTCTGGTTCTCAATCGCGCCAGATATAAAACTGGCGGTAAGGGCTTTCTTTGTTCAGCGCCTCGCGAAACCAGGTATGTTGGGTAGAGGTATGGTTAAACACCATATCGAGAAt                                                                                              <  1:166972/140‑1 (MQ=255)                                                         gTTCTCCATCGCGCCAGATATAAAACTGGCGGTAAGGGCTTTCTTTGTTCAGCGCCTCGCGAAACCAGGTATGTTGGGTAGAGGTATGGTTAAACACCATATCGAGAATGATACGAATCCCGCGCGATTTTGCCTGCGTc                                                               >  1:336826/1‑140 (MQ=255)                                                                                  cTGGCGGTAAGGGCTTTCTTTGTTCAGCGCCTCGCGAAACCAGGTATGTTGGGTAGAGGTATGGTTAAACACCATATCGAGAATGATACGAATCCCGCGCGATTTTGCCTGCGTCACCAGTTCGTCAAAATCGTCCAGCg                                      <  2:266433/140‑1 (MQ=255)                                                                                     gCGGTAAGGGCTTTCTTTGTTCAGCGCCTCGCGAAACCAGGTATGTTGGGTAGAGGTATGGTTAAACACCATATCGAGAATGATACGAATCCCGCGCGATTTTGCCTGCGTCACCAGTTCGTCAAAATCGTCCAGCGTGc                                   >  2:371625/1‑140 (MQ=255)                                                                                     gCGGTAAGGGCTTTCTTTGTTCAGCGCCTCGCGAAACCAGGTATGTTGGGTAGAGGTATGGTTAAACACCATATCGAGAATGATACGAATCCCGCGCGATTTTGCCTGCGTCACCAGTTCGTCAAAATCGTCCAGCGTGc                                   >  2:200723/1‑140 (MQ=255)                                                                                     gCGGTAAGGGCTTTCTTTGTTCAGCCCCTCGCGAAACCAGGTATGTTGGGTAGAGGTATGGTTAAACACCATATCGAGAATGATACGAATCCCGCGCGATTTTGCCTGCGTCACCAGTTCGTCAAAATCGTCCAGCGTGc                                   >  2:221561/1‑140 (MQ=255)                                                                                               ctttctttGTTCAGCGCCTCGCGAAACCAGGTATGTTGGGTAGAGGTATGGTTAAACACCATATCGAGAATGATACGAATCCCGCGCGATTTTGCCTGCGTCACCAGTTCGTCAAAATCGTCCAGCGTGCCGTAGGTggg                         >  1:321368/1‑140 (MQ=255)                                                                                               ctttctttGTTCAGCGCCTCGCGAAACCAGGTATGTTGGGTAGAGGTATGGTTAAACACCATATCGAGAATGATACGAATCCCGCGCGATTTTGCCTGCGTCACCAGTTCGTCAAAATCGTCCAGCGTGCCGTAGGTggg                         >  2:122316/1‑140 (MQ=255)                                                                                                  tctttGTTCAGCGCCTCGCGAAACCAGGTATGTTGGGTAGAGGTATGGTTAAACACCATATCGAGAATGATACGAATCCCGCGCGATTTTGCCTGCGTCACCAGTTCGTCAAAATCGCCCAGCGTGCCGTAGGTGGGATc                      >  2:204892/1‑140 (MQ=255)                                                                                                    tttGTTCAGCGCCTCGCGAAACCAGGTATGTTGGGTAGAGGTATGGTTAAACACCATATCGAGAATGATACGAATCCCGCGCGATTTTGCCTGCGTCACCAGTTCGTCAAAATCGTCCAGCGTGCCGTAGGTGGGATCaa                    <  2:351327/140‑1 (MQ=255)                                                                                                       gTTCAGCGCCTCGCGAAACCAGGTATGTTGGGTAGAGGTATGGTTAAACACCATATCGAGAATGATACGAATCCCGCGCGATTTTGCCTGCGTCACCAGTTCGTCAAAATCGTCCAGCGTGCCGTAGGTGGGATCAATCg                 >  1:162529/1‑140 (MQ=255)                                                                                                           aGCGCCTCGCGAAACCAGGTATGTTGGGTAGAGGTATGGTTAAACACCATATCGAGAATGATACGAATCCCGCGCGATTTTGCCTGCGTCACCAGTTCGTCAAAATCGTCCAGCGTGCCGTAGGTGGGATCAATCGCCGt             <  2:162529/140‑1 (MQ=255)                                                                                                            gcgcCTCGCGAAACCAGGTATGTTGGGTAGAGGTATGGTTAAACACCATATCGAGAATGATACGAATCCCGCGCGATTTTGCCTGCGTCACCAGTTCGTCAAAATCGTCCAGCGTGCCGTAGGTGGGATCAATCGCCGta            >  1:315122/1‑140 (MQ=255)                                                                                                             cgcCTCGCGAAACCAGGTATGTTGGGTAGAGGTATGGTTAAACACCATATCGAGAATGATACGAATCCCGCGCGATTTTGCCTGCGTCACCAGTTCGTCAAAATCGTCCAGCGTGCCGTAGGTGGGATCAATCGCCGtat           >  1:274268/1‑140 (MQ=255)                                                                                                                 tCGCGAAACCAGGTATGTTGGGTAGAGGTATGGTTAAACACCATATCGAGAATGATACGAATCCCGCGCGATTTTGCCTGCGTCACCAGTTCGTCAAAATCGTCCAGCGTGCCGTAGGTGGGATCAATCGCCGTATAGtt       >  1:316746/1‑140 (MQ=255)                                                                                                                     gAAACCAGGTATGTTGGGTAGAGGTATGGTTAAACACCATATCGAGAATGATACGAATCCCGCGCGATTTTGCCTGCGTCACCAGTTCGTCAAAATCGTCCAGCGTGCCGTAGGTGGGATCAATCGCCGTATAGTTCGCt   <  1:60009/140‑1 (MQ=255)                                                                                                                      aaaCCAGGTATGTTGGGTAGAGGTATGGTTAAACACCATATCGAGAATGATACGAATCCCGCGCGATTTTGCCTGCGTCACCAGTTCGTCAAAATCGTCCAGCGTGCCGTAGGTGGGATCAATCGCCGTATAGTTCGCTa  <  1:221561/140‑1 (MQ=255)                                                                                                                              |                                                                                                                                    CCAGCGCCACGCACTACCGCCAAATTTTGAACGCCAGTTGTTCGGTGGCGTTTCTGGTTCTCCATCGCGCCAGATATAAAACTGGCGGTAAGGGCTTTCTTTGTTCAGCGCCTCGCGAAACCAGGCATGTTGGGTAGAGGTATGGTTAAACACCATATCGAGAATGATACGAATCCCGCGCGATTTTGCCTGCGTCACCAGTTCGTCAAAATCGTCCAGCGTGCCGTAGGTGGGATCAATCGCCGTATAGTTCGCTA  >  NC_000913/4464254‑4464510

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑