Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,980,188	C→T	*475* (TAG→TAA)	otsA ←	trehalose‑6‑phosphate synthase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,980,188	0	C	T	100.0%	122.2 / NA	38	*475* (TAG→TAA)	otsA	trehalose‑6‑phosphate synthase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (14/24);  total (14/24)

GCATCATTTCGATTTGGTGATTTGCGGTAATCACAATCACAGTTTCTTTTCGCGAGCATCCTGCTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCCTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGCCAGTGGTTAATATCGTTTTTCACGATAACGT  >  NC_000913/1980052‑1980315                                                                                                                                         |                                                                                                                                gCATCATTTCGATTTGGTGATTTGCGGTAATCACAATCACAGTTTCTTTTCGCGAGCATCCTGCTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTa                                                                                                                               >  1:522712/1‑139 (MQ=255)     catTTCGATTTGGTGATTTGCGGTAATCACAATCACAGTTTCTTTTCGCGAGCATCCTGCTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCa                                                                                                                           <  1:372339/139‑1 (MQ=255)      atTTCGATTTGGTGATTTGCGGTAATCACAATCACAGTTTCTTTTCGCGAGCATCCTGCTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCaa                                                                                                                          <  2:223838/139‑1 (MQ=255)       tttCGATTTGGTGATTTGCGGTAATCACAATCACAGTTTCTTTTCGCGAGCATCCTGCTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAg                                                                                                                         <  2:656930/139‑1 (MQ=255)                       tGCGGTAATCACAATCACAGTTTCTTTTCGCGAGCATCCTGCTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCa                                                                                                         >  1:188760/1‑139 (MQ=255)                                             tCTTTTCGCGAGCATCCTGCTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCttt                                                                                   >  1:318110/1‑139 (MQ=255)                                                 ttCGCGAGCATCCTGCTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCcgc                                                                               <  1:136523/139‑1 (MQ=255)                                                 ttCGCGAGCATCCTGCTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCcgc                                                                               >  2:136523/1‑139 (MQ=255)                                                  tCGCGAGCATCCTGCTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCcgcg                                                                              <  1:57312/139‑1 (MQ=255)                                                    gcgAGCATCCTGCTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCt                                                                            <  1:481234/139‑1 (MQ=255)                                                            ccTGCTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGaa                                                                    <  2:24953/139‑1 (MQ=255)                                                                           gagTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGt                                                     <  2:210205/139‑1 (MQ=255)                                                                                    ccTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGa                                            <  2:192037/139‑1 (MQ=255)                                                                                      tCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAg                                          >  2:67817/1‑139 (MQ=255)                                                                                          gTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACt                                      <  1:67817/139‑1 (MQ=255)                                                                                             aGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCt                                   >  2:472845/1‑139 (MQ=255)                                                                                               gTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGc                                 <  1:768270/139‑1 (MQ=255)                                                                                               gTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGc                                 <  2:522712/139‑1 (MQ=255)                                                                                               gTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGc                                 <  1:454590/139‑1 (MQ=255)                                                                                                 cGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGCCa                               <  1:717031/139‑1 (MQ=255)                                                                                                 cGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGCCa                               <  2:676802/139‑1 (MQ=255)                                                                                                 cGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGCCa                               <  2:672907/139‑1 (MQ=255)                                                                                                   aTGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGCCAGt                             >  2:293868/1‑139 (MQ=255)                                                                                                    tgtgCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGCCAGTg                            >  2:290932/1‑139 (MQ=255)                                                                                                         tGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGCCAGTGGTTaa                       >  1:224685/1‑139 (MQ=255)                                                                                                          gTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAg                                                                                                                         <  1:730149/40‑1 (MQ=255)                                                                                                          gTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAg                                                                                                                         >  2:730149/1‑40 (MQ=255)                                                                                                          gTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCcgcg                                                                              <  2:549012/83‑1 (MQ=255)                                                                                                          gTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCcgcg                                                                              >  1:549012/1‑83 (MQ=255)                                                                                                             aGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGt                                                     >  1:68316/1‑105 (MQ=255)                                                                                                             aGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGt                                                     <  2:68316/105‑1 (MQ=255)                                                                                                                tCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGCCAGTGGTTAATATCGtt                <  2:375151/139‑1 (MQ=255)                                                                                                                    cTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGCCAGTGGTTAATATCGTTTTTc            >  1:797653/1‑139 (MQ=255)                                                                                                                     ttACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGCCAGTGGTTAATATCGTTTTTCa           <  2:643846/139‑1 (MQ=255)                                                                                                                             gaTTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGCCAGTGGTTAATATCGTTTTTCACGATAACg   <  1:451269/139‑1 (MQ=255)                                                                                                                             gaTTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGCCAGTGGTTAATATCGTTTTTCACGATAACg   <  2:318110/139‑1 (MQ=255)                                                                                                                             gaTTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGCCAGTGGTTAATATCGTTTTTCACGATAACg   <  2:224685/139‑1 (MQ=255)                                                                                                                              aTTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGCCAGTGGTTAATATCGTTTTTCACGATAACGt  >  2:212658/1‑139 (MQ=255)                                                                                                                                         |                                                                                                                                GCATCATTTCGATTTGGTGATTTGCGGTAATCACAATCACAGTTTCTTTTCGCGAGCATCCTGCTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCCTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGCCAGTGGTTAATATCGTTTTTCACGATAACGT  >  NC_000913/1980052‑1980315

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 31 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑