Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.
ALE, Flask, Isolate Predicted Mutations Mean Coverage Total Reads Percent Mapped Mapped Reads Average Read Length
A28 F60 I1 R1 11 64.6 2186178 98.8% 2159943 139.8

Breseq alignment

BRESEQ :: Evidence
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_0009132,173,3610C.100.0% 205.3 / NA 48pseudogene (918/1358 nt)gatCgalactitol‑specific PTS enzyme IIC component
Reads supporting (aligned to +/- strand):  ref base C (0/0);  new base . (22/26);  total (22/26)
*NC_0009132,173,3620C.100.0% 205.3 / NA 48pseudogene (917/1358 nt)gatCgalactitol‑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: ‑

GATK/CNVnator alignment

N/A