Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,903,497	T→C	I139T (ATC→ACC)	manY →	mannose‑specific enzyme IIC component of PTS

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,903,497	0	T	C	100.0%	191.2 / NA	51	I139T (ATC→ACC)	manY	mannose‑specific enzyme IIC component of PTS
Reads supporting (aligned to +/- strand):  ref base T (0/0);  new base C (20/31);  total (20/31)

AGAGCATTGGTGCAGGTATCGCACTGGCAATCCCTCTGGCCGCTGCGGGCCAGGTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGATCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTGAATGCGATTCCGGAAGTGGTGACCAATGGTCTGAATATCGCCGGTGGCAT  >  NC_000913/1903350‑1903644                                                                                                                                                    |                                                                                                                                                    agagCATTGGTGCAGGTATCGCACTGGCAATCCCTCTGGCCGCTGCGGGCCAGGTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCa                                                                                                                                                  <  2:390603/151‑1 (MQ=255)   agCATTGGTGCAGGTATCGCACTGGCAATCCCTCTGGCCGCTGCGGGCCAGGTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACg                                                                                                                                                >  2:437329/1‑151 (MQ=255)      aTTGGTGCAGGTATCGCACTGGCAATCCCTCTGGCCGCTGCGGGCCAGGTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGttt                                                                                                                                             <  2:355769/151‑1 (MQ=255)                gTATCGCACTGGCAATCCCTCTGGCCGCTGCGGGCCAGGTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGtt                                                                                                                                   <  2:3053/151‑1 (MQ=255)                gTATCGCACTGGCAATCCCTCTGGCCGCTGCGGGCCAGGTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGtt                                                                                                                                   <  1:819084/151‑1 (MQ=255)                       aCTGGCAATCCCTCTGGCCGCTGCGGGCCAGGTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTgca                                                                                                                             >  2:348016/1‑150 (MQ=255)                             aaTCCCTCTGACCGCTGCGGGCCAGGTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATg                                                                                                                      >  1:754817/1‑151 (MQ=255)                               tCCCTCTCGCCGCTGCGGGCCACGTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTTCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCATGCAATGc                                                                                                                     <  2:557918/150‑1 (MQ=255)                                cccTCTGGCCGCTGCGGGCCAGGTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCgt                                                                                                                   >  2:387208/1‑151 (MQ=255)                                cccTCTGGCCGCTGCGGGCCAGGTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCgt                                                                                                                   >  1:860314/1‑151 (MQ=255)                                        ccGCTGCGGGCCAGGTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTAt                                                                                                           <  2:835790/151‑1 (MQ=255)                                          gCTGCGGGCCAGGTACTGACCATCATCGTTCGTACTATTGCCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTGCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTc                                                                                                         <  1:5696/151‑1 (MQ=255)                                                  ccAGGTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTc                                                                                                 >  1:532902/1‑151 (MQ=255)                                                    aGGTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCAt                                                                                               <  1:492832/151‑1 (MQ=255)                                                     ggTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATc                                                                                              <  1:122033/151‑1 (MQ=255)                                                      gTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATc                                                                                              >  2:391615/1‑150 (MQ=255)                                                        aCTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGt                                                                                            <  2:483772/150‑1 (MQ=255)                                                           gACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTg                                                                                          <  2:712549/149‑1 (MQ=255)                                                                tcatcGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGctgtc                                                                                   >  2:835026/1‑151 (MQ=255)                                                                tcatcGTTCGTACTATTACCGTTGCTGTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGctgt                                                                                    <  2:622292/150‑1 (MQ=255)                                                                   tcgtgcgtACTATTGCCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGCCAGCGATTTCCTGGACCCACGTTTCTGCTCTGTTCCTGCAAGCATTGCGTGGGGCTATTCCGGCCGTCATCGTTGCGctgtc                                                                                   <  2:644781/148‑1 (MQ=255)                                                                     gttcgtACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTg                                                                              >  1:625522/1‑151 (MQ=255)                                                                              aTTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAg                                                                       <  2:820302/149‑1 (MQ=255)                                                                                 aCCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAg                                                                  <  1:278220/151‑1 (MQ=255)                                                                                  ccGTTGCTTTCCAGCACGCTGCGGGTAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAg                                                                  >  2:305437/1‑150 (MQ=255)                                                                                  ccGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGt                                                                 >  2:497252/1‑151 (MQ=255)                                                                                   cGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTa                                                                <  1:152113/151‑1 (MQ=255)                                                                                   cGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACCGCAACCTGACAGCGCTTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCAGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCg                                                                     >  2:213554/1‑146 (MQ=255)                                                                                    gTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTAc                                                               <  2:753057/151‑1 (MQ=255)                                                                                       gCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTAc                                                               >  1:861845/1‑148 (MQ=255)                                                                                       gCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCACTGTCTGTTGGTACCAGCGAAGTACAGa                                                            <  1:755826/151‑1 (MQ=255)                                                                                         tttCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGGTGGTACCAGCGAAGTACAGAAc                                                          >  1:44878/1‑151 (MQ=255)                                                                                           tCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACAt                                                        >  1:422649/1‑151 (MQ=255)                                                                                             cAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGc                                                      >  1:171628/1‑151 (MQ=255)                                                                                                 aCGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTGaa                                                  <  1:473493/151‑1 (MQ=255)                                                                                                   gCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTGAATg                                                <  2:130937/151‑1 (MQ=255)                                                                                                   gCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTGAATg                                                <  1:560383/151‑1 (MQ=255)                                                                                                       cGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTGAATGCGAt                                            <  1:474105/151‑1 (MQ=255)                                                                                                            aaGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTGAATGCGATTCCgg                                       <  1:437435/151‑1 (MQ=255)                                                                                                                ctgctgAGAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTGAATGCGATTCCGGaa                                     <  2:575911/149‑1 (MQ=255)                                                                                                                     gATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTGAATGCGATTCCGGAAgtggtg                               <  1:631499/150‑1 (MQ=255)                                                                                                                     gATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTGAATGCGATTCCGGAAgtggtg                               <  1:618230/150‑1 (MQ=255)                                                                                                                     gATAACGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTGAATGCGATTCCGGAAGTGGTGa                              <  1:635726/151‑1 (MQ=255)                                                                                                                         aCGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTGAATGCGATTCCGGAAGTGGTGACCa                           >  1:563365/1‑150 (MQ=255)                                                                                                                          cGGCAACCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTGAATGCCATTCCGGAAGTGGTGACCAAt                         <  1:489527/151‑1 (MQ=255)                                                                                                                               aCCTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTGAATGCGATTCCGGAAGTGGTGACCAATGGTCt                    <  1:445283/151‑1 (MQ=255)                                                                                                                                 cTGACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTGAATGCGATTCCGGAAGTGGTGACCAATGGTCTg                   >  2:451856/1‑150 (MQ=255)                                                                                                                                   gACAGCGATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTGAATGCGATTCCGGAAGTGGTGACCAATGGTCTGa                  <  1:369986/149‑1 (MQ=255)                                                                                                                                         gATTTCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTGAATGCGATTCCGGAAGTGGTGACCAATGGTCTGAATATCGcc          >  2:608248/1‑151 (MQ=255)                                                                                                                                            ttCCTGGACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTGAATGCGATTCCGGAAGTGGTGACCAATGGTCTGAATATCGCCgg        >  1:391397/1‑150 (MQ=255)                                                                                                                                                 ggACCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTGAATGCGATTCCGGAAGTGGTGACCAATGGTCTGAATATCGCCGGTGGCAt  <  1:226792/151‑1 (MQ=255)                                                                                                                                                    |                                                                                                                                                    AGAGCATTGGTGCAGGTATCGCACTGGCAATCCCTCTGGCCGCTGCGGGCCAGGTACTGACCATCATCGTTCGTACTATTACCGTTGCTTTCCAGCACGCTGCGGATAAGGCTGCTGATAACGGCAACCTGACAGCGATTTCCTGGATCCACGTTTCTTCTCTGTTCCTGCAAGCAATGCGTGTGGCTATTCCGGCCGTCATCGTTGCGCTGTCTGTTGGTACCAGCGAAGTACAGAACATGCTGAATGCGATTCCGGAAGTGGTGACCAATGGTCTGAATATCGCCGGTGGCAT  >  NC_000913/1903350‑1903644

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑