Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,173,363	Δ2 bp	pseudogene (915‑916/1358 nt)	gatC ←	galactitol‑specific PTS enzyme IIC component

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,173,361	0	C	.	100.0%	205.3 / NA	48	pseudogene (918/1358 nt)	gatC	galactitol‑specific PTS enzyme IIC component
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base . (22/26);  total (22/26)
*	NC_000913	2,173,362	0	C	.	100.0%	205.3 / NA	48	pseudogene (917/1358 nt)	gatC	galactitol‑specific PTS enzyme IIC component
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base . (22/26);  total (22/26)

TTCCACGATGCACGGCGACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCACCCCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCC  >  NC_000913/2173223‑2173494                                                                                                                                            ||                                                                                                                                     ttCCACGATGCACGGCGACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATacctcc                                                                                                                                      >  1:335924/1‑140 (MQ=255)  tCCACGATGCACGGCGACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATaccaccg                                                                                                                                     <  1:325352/140‑2 (MQ=255)    cACGATGCACGGCGACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATaccaccgcc                                                                                                                                   >  1:663926/1‑137 (MQ=255)              ggCGACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCca                                                                                                                       >  1:1050880/1‑140 (MQ=255)              ggCGACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCca                                                                                                                       >  1:566698/1‑140 (MQ=255)                   ccGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCagcagc                                                                                                                  >  1:763337/1‑140 (MQ=255)                   ccGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCagcagc                                                                                                                  >  2:644956/1‑140 (MQ=255)                    cGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAgcagca                                                                                                                 <  1:546117/140‑1 (MQ=255)                        aTCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGc                                                                                                             <  1:649488/140‑1 (MQ=255)                             cACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGAt                                                                                                        <  2:320695/140‑1 (MQ=255)                                  agaagCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAgg                                                                                                   <  1:153527/140‑1 (MQ=255)                                   gaagCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGc                                                                                                  <  2:127560/140‑1 (MQ=255)                                     agCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCa                                                                                                >  1:336842/1‑140 (MQ=255)                                     agCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCa                                                                                                <  2:651284/140‑1 (MQ=255)                                      gCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTCCCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCaa                                                                                               <  2:836120/140‑1 (MQ=255)                                      gCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCaa                                                                                               <  2:709534/140‑1 (MQ=255)                                              tggCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAAc                                                                                       >  2:147100/1‑140 (MQ=255)                                                     aTCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGAc                                                                                >  1:78724/1‑140 (MQ=255)                                                       cGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGAccg                                                                              >  2:684253/1‑140 (MQ=255)                                                                 cagcaCCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCg                                                                    >  1:293283/1‑140 (MQ=255)                                                                 cagcaCCTGATTACCCGGCACACAAACAGCAATTAAAAGGGTGAGTGGGATAAAAAT‑CAGGCTTGCCAATAC‑‑CGCCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCg                                                                    <  2:205728/140‑1 (MQ=255)                                                                  agcaCCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATCCCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGc                                                                   <  2:668814/140‑1 (MQ=255)                                                                  agcaCCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGc                                                                   <  2:651881/140‑1 (MQ=255)                                                                  agcaCCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGc                                                                   <  1:302192/140‑1 (MQ=255)                                                                    caCCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCt                                                                 <  2:336842/140‑1 (MQ=255)                                                                      ccTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGt                                                               <  2:763337/140‑1 (MQ=255)                                                                          aTTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAAc                                                           <  2:1050880/140‑1 (MQ=255)                                                                          aTTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAAc                                                           <  1:613256/140‑1 (MQ=255)                                                                               ccGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTa                                                      <  1:820688/140‑1 (MQ=255)                                                                                 ggCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACg                                                    >  1:685628/1‑140 (MQ=255)                                                                                  gCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGa                                                   <  1:684253/140‑1 (MQ=255)                                                                                   cacacaAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGac                                                  >  1:1059071/1‑139 (MQ=255)                                                                                    ccacaAACAGAAATTAAAAGGGTGAG‑GGGAAAAAAATCCAGGCTTGCCGAT‑CC‑CCCCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGc                                                 <  2:1073475/139‑1 (MQ=255)                                                                                    acacaAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATCCCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGc                                                 <  1:854493/140‑1 (MQ=255)                                                                                    acacaAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATCCCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGc                                                 <  1:736524/140‑1 (MQ=255)                                                                                    acacaAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGc                                                 <  1:305458/140‑1 (MQ=255)                                                                                    acacaAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGc                                                 >  2:305458/1‑140 (MQ=255)                                                                                                     aaTGGTGAGGGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCg                                <  1:615093/140‑1 (MQ=255)                                                                                                        ggTGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTa                             >  2:30626/1‑140 (MQ=255)                                                                                                         gTGAGTGGAATAAAAAT‑CAGGCTTGCCGATCCCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTaa                            <  2:202092/140‑1 (MQ=255)                                                                                                          tGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTaaa                           <  1:181626/140‑1 (MQ=255)                                                                                                            aGTGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAAcc                         >  1:1090271/1‑140 (MQ=255)                                                                                                              tGGGATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAAccat                       >  1:215223/1‑140 (MQ=255)                                                                                                                ggATAAAAAT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAAccatcc                     >  1:125807/1‑140 (MQ=255)                                                                                                                    aaaaaT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCatga                 <  2:663926/140‑1 (MQ=255)                                                                                                                     aaaaT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCatgat                >  2:270550/1‑140 (MQ=255)                                                                                                                      aaaT‑CAGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCatgatg               >  1:922418/1‑140 (MQ=255)                                                                                                                       aaT‑CAGGCTTGCCGAT‑CC‑CCCCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATgg              <  1:579973/140‑1 (MQ=255)                                                                                                                            aGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGttt          >  1:45820/1‑140 (MQ=255)                                                                                                                            aGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGttt          >  2:658771/1‑140 (MQ=255)                                                                                                                            aGGCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGttt          >  1:736501/1‑140 (MQ=255)                                                                                                                             ggCTTGCCGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTa         <  1:759320/140‑1 (MQ=255)                                                                                                                                    cGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCAccc  >  1:226100/1‑140 (MQ=255)                                                                                                                                    cGATACCA‑‑CCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCAccc  <  1:644956/140‑1 (MQ=255)                                                                                                                                      cgacacccccGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCAccc  <  2:490083/134‑1 (MQ=255)                                                                                                                                            ||                                                                                                                                     TTCCACGATGCACGGCGACCGCCATCGCCACGAAGAAGCCGATGGTGGCAAGATCGCCAAACGGCAGCACCTGATTACCCGGCACACAAACAGCAATTAAAATGGTGAGTGGGATAAAAAT‑CAGGCTTGCCGATACCACCCCGCCGTATGTCCCAGCAGCAACGCCGGATCAAGGCCAATCAGGAACTCCTGACCGCCGAACTTCGCCTGTAAACGACTACGAGCCTGCTTAGCGATGGGCGTTAAACCATCCATGATGGGTTTAATCACCC  >  NC_000913/2173223‑2173494

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 15 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑