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%	186.4 / NA	58	*475* (TAG→TAA)	otsA	trehalose‑6‑phosphate synthase
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base T (30/28);  total (30/28)

ATTTGGTGATTTGCGGTAATCACAATCACAGTTTCTTTTCGCGAGCATCCTGCTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCCTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGCCAGTGGTTAATATCGTTTTTCACGATAACGTC  >  NC_000913/1980063‑1980316                                                                                                                              |                                                                                                                                 aTTTGGTGATTTGCGGTAATCACAATCACAGTTTCTTTTCGCGAGCATCCTGCTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGc                                                                                                                             <  1:748327/131‑1 (MQ=255) aTTTGGTGATTTGCGGTAATCACAATCACAGTTTCTTTTCGCGAGCATCCTGCTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGc                                                                                                                             >  2:748327/1‑131 (MQ=255) aTTTGGTGATTTGCGGTAATCACAATCACAGTTTCTTTTCGCGAGCATCCTGCTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCtt                                                                                                                       >  2:186757/1‑137 (MQ=255) aTTTGGTGATTTGCGGTAATCACAATCACAGTTTCTTTTCGCGAGCATCCTGCTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCtt                                                                                                                       <  1:186757/137‑1 (MQ=255) aTTTGGTGATTTGCGGTAATCACAATCACAGTTTCTTTTCGCGAGCATCCTGCTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTg                                                                                                                     >  2:1095745/1‑139 (MQ=255) aTTTGGTGATTTGCGGTAATCACAATCACAGTTTCTTTTCGCGAGCATCCTGCTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTg                                                                                                                     >  1:12379/1‑139 (MQ=255)    tGGTGATTTGCGGTAATCACAATCACAGTTTCTTTTCGCGAGCATCCTGCTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGaa                                                                                                                  >  2:215569/1‑139 (MQ=255)                              aGTTTCTTTTCGCGAGCATCCTGCTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACg                                                                                                                              >  2:372413/1‑101 (MQ=255)                              aGTTTCTTTTCGCGAGCATCCTGCTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACg                                                                                                                              <  1:372413/101‑1 (MQ=255)                              aGTTTCTTTTCGCGAGCATCCTGCTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTgg                                                                                        >  1:217482/1‑139 (MQ=255)                               gTTTCTTTTCGCGAGCATCCTGCTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGc                                                                                       >  1:1162160/1‑139 (MQ=255)                                  tCTTTTCGCGAGCATCCTGCTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGc                                                                                                           >  2:471684/1‑116 (MQ=255)                                  tCTTTTCGCGAGCATCCTGCTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGc                                                                                                           <  1:471684/116‑1 (MQ=255)                                       tCGCGAGCATCCTGGTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCcgcg                                                                               <  1:474451/139‑1 (MQ=255)                                       tCGCGAGCATCCTGCTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCcgcg                                                                               <  1:272592/139‑1 (MQ=255)                                              cATCCTGCTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTcgcg                                                                        >  1:1133345/1‑139 (MQ=255)                                                   tGCTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCttt                                                                                                                      >  2:927120/1‑88 (MQ=255)                                                   tGCTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCttt                                                                                                                      <  1:927120/88‑1 (MQ=255)                                                     cTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACg                                                                                                                              <  2:325085/78‑1 (MQ=255)                                                     cTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACg                                                                                                                              >  1:325085/1‑78 (MQ=255)                                                        ggCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCgcgc                                                                                              >  1:1361279/1‑107 (MQ=255)                                                        ggCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCgcgc                                                                                              <  2:1361279/107‑1 (MQ=255)                                                         gCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTa                                                                  >  2:169841/1‑134 (MQ=255)                                                         gCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTa                                                                  <  1:169841/134‑1 (MQ=255)                                                                 agTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTc                                                     <  1:1095745/139‑1 (MQ=255)                                                                           tCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAg                                           <  1:210216/139‑1 (MQ=255)                                                                           tCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAg                                           >  2:210216/1‑139 (MQ=255)                                                                           tCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAg                                           <  1:329589/139‑1 (MQ=255)                                                                            cAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTAt                                                                 <  1:1390507/116‑1 (MQ=255)                                                                            cAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTAt                                                                 >  2:1390507/1‑116 (MQ=255)                                                                             caGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCa                                         <  2:217482/138‑1 (MQ=255)                                                                                  aGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGc                                                   <  2:878825/124‑1 (MQ=255)                                                                                  aGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGc                                                   >  1:878825/1‑124 (MQ=255)                                                                                    gTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGc                                                                                                                             >  1:870417/1‑48 (MQ=255)                                                                                    gTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGc                                                                                                                             <  2:870417/48‑1 (MQ=255)                                                                                    gTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAg                                                        >  1:60367/1‑117 (MQ=255)                                                                                    gTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAg                                                        <  2:60367/117‑1 (MQ=255)                                                                                    gTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGc                                  >  1:585802/1‑139 (MQ=255)                                                                                    gTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGc                                  >  2:1181009/1‑139 (MQ=255)                                                                                      cGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGCCa                                <  2:1162160/139‑1 (MQ=255)                                                                                      cGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGCCa                                <  1:1181009/139‑1 (MQ=255)                                                                                                  aGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGt                                                      >  1:584150/1‑105 (MQ=255)                                                                                                  aGTTCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGt                                                      <  2:584150/105‑1 (MQ=255)                                                                                                     tCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGCCAGTGGTTAATATCGtt                 >  1:1060992/1‑139 (MQ=255)                                                                                                     tCCACTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGCCAGTGGTTAATATCGtt                 >  2:800265/1‑139 (MQ=255)                                                                                                        aCTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGCCa                                >  1:565501/1‑121 (MQ=255)                                                                                                        aCTTACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGCCa                                <  2:565501/121‑1 (MQ=255)                                                                                                          ttACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTAt                                                                 <  2:305791/86‑1 (MQ=255)                                                                                                          ttACGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTAt                                                                 >  1:305791/1‑86 (MQ=255)                                                                                                            aCGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGaa                                                                     >  2:1097899/1‑80 (MQ=255)                                                                                                            aCGGGAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGaa                                                                     <  1:1097899/80‑1 (MQ=255)                                                                                                              gggAGATTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGCCAGTGGTTAATATCGTTTTTCACGAt        <  2:1060992/139‑1 (MQ=255)                                                                                                                   aTTAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGCCAGTGGTTAATATCGTTTTTCACGATAACGt   >  2:498327/1‑139 (MQ=255)                                                                                                                    ttAACCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGCCAGTGGTTAATATCGTTTTTCACGATAACGTc  <  1:800265/139‑1 (MQ=255)                                                                                                                       aCCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGCCAg                               >  1:1227407/1‑107 (MQ=255)                                                                                                                       aCCGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGCCAg                               <  2:1227407/107‑1 (MQ=255)                                                                                                                        ccGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTAt                                                                 >  2:311932/1‑72 (MQ=255)                                                                                                                        ccGCTCTTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTAt                                                                 <  1:311932/72‑1 (MQ=255)                                                                                                                              |                                                                                                                                 ATTTGGTGATTTGCGGTAATCACAATCACAGTTTCTTTTCGCGAGCATCCTGCTCGGCGAAAAGAGTTATTGCCTCAAGTGAGGTCGATGTGCTGTTAGTTCCACTTACGGGAGATTAACCGCTCCTACGCAAGCTTTGGAAAGGTAGCAACTTTATCGCGCTGCTGGCTTTCCGCGCTTCGCGGAACTATCTGCTTTAGGTCGCTAATGAAGCACTCCTGCCAGTGGTTAATATCGTTTTTCACGATAACGTC  >  NC_000913/1980063‑1980316

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑