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
A2 F28 I1 R1	129	74.0	2524844	99.2%	2504645	138.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,903,984	T→C	G30G (GGT→GGC)	manZ →	mannose‑specific PTS enzyme IID component

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,903,984	0	T	C	100.0%	194.2 / NA	55	G30G (GGT→GGC)	manZ	mannose‑specific PTS enzyme IID component
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (22/33); total (22/33)

CTGGTAACAACGATCTCGATAACGAACTGGACTAACAGGTGAGCGAAATGGTTGATACAACTCAAACTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGTTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCTGAGAACAACGAAGCTCGTAAACAAGCTATTCGCCGTCACCTGGAGTTCTTTAACACCCAG  >  NC_000913/1903848‑1904119

cTGGTAACAACGATCTCGATAACGAACTGGACTAACAGGTGAGCGAAATGGTTGATACAACTCAAACTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCa                                                                                                                                      >  2:927314/1‑140 (MQ=255)

   gTAACAACGATCTCGATAACGAACTGGACTAACAGGTGAGCGAAATGGTTGATACAACTCAAACTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATgg                                                                                                                                   >  1:974259/1‑140 (MQ=255)

          cGATCTCGATAACGAACTGGACTAACAGGTGAGCGAAATGGTTGATACAACTCAAACTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCg                                                                                                                            >  2:33139/1‑140 (MQ=255)

             tctcGATAACGAACTGGACTAACAGGTGAGCGAAATGGTTGATACAACTCAAACTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAAc                                                                                                                         >  1:433776/1‑140 (MQ=255)

             tctcGATAACGAACTGGACTAACAGGTGAGCGAAATGGTTGATACAACTCAAACTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAAc                                                                                                                         >  1:1165879/1‑140 (MQ=255)

              ctcGATAACGAACTGGACTAACAGGTGAGCGAAATGGTTGATACAACTCAAACTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACg                                                                                                                        <  1:950460/140‑1 (MQ=255)

                cGATAACGAACTGGACTAACAGGTGAGCGAAATGGTTGATACAACTCAAACTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAAC‑‑CGAACGTATg                                                                                                                    <  1:1126966/140‑1 (MQ=255)

                      cGAACTGGACTAACAGGTGAGCGAAATGGTTGATACAACTCAAACTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAgg                                                                                                                <  1:927314/140‑1 (MQ=255)

                      cGAACTGGACTAACAGGTGAGCGAAATGGTTGATACAACTCAAACTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAgg                                                                                                                >  1:594819/1‑140 (MQ=255)

                           tGGACTAACAGGTGAGCGAAATGGTTGATACAACTCAAACTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCAc                                                                                                             <  1:514892/138‑1 (MQ=255)

                           tGGACTAACAGGTGAGCGAAATGGTTGATACAACTCAAACTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCAc                                                                                                             >  2:514892/1‑138 (MQ=255)

                           tGGACTAACAGGTGAGCGAAATGGTTGATACAACTCAAACTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTg                                                                                                           >  2:1202713/1‑140 (MQ=255)

                                   cAGGTGAGCGAAATGGTTGATACAACTCAAACTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTg                                                                                                   <  2:834818/140‑1 (MQ=255)

                                   cAGGTGAGCGAAATGGTTGATACAACTCAAACTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTg                                                                                                   <  1:33139/140‑1 (MQ=255)

                                   cAGGTGAGCGAAATGGTTGATACAACTCAAACTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTg                                                                                                   <  1:176533/140‑1 (MQ=255)

                                   cAGGTGAGCGAAATGGTTGATACAACTCAAACTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTg                                                                                                   <  1:139572/140‑1 (MQ=255)

                                       tGAGCGAAATGGTTGATACAACTCAAACTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTtc                                                                                               >  1:219730/1‑140 (MQ=255)

                                        gAGCGAAATGGTTGATACAACTCAAACTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTtct                                                                                              >  1:1238126/1‑140 (MQ=255)

                                         aGCGAAATGGTTGATACAACTCAAACTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTtctc                                                                                             >  2:1048729/1‑140 (MQ=255)

                                              aaTGGTTGATACAACTCAAACTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATgg                                                                                        >  1:923978/1‑140 (MQ=255)

                                                    tGATACAACTCAAACTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCgg                                                                                  >  1:992384/1‑140 (MQ=255)

                                                        aCAACTCAAACTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAAt                                                                              >  2:780226/1‑140 (MQ=255)

                                                        aCAACTCAAACTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAAt                                                                              >  1:830969/1‑140 (MQ=255)

                                                            cTCAAACTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATtcgt                                                                          <  2:996749/140‑1 (MQ=255)

                                                            cTCAAACTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATtcgt                                                                          <  2:345211/140‑1 (MQ=255)

                                                            cTCAAACTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATtcgt                                                                          <  2:594819/140‑1 (MQ=255)

                                                            cTCAAACTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATtcgt                                                                          <  2:321724/140‑1 (MQ=255)

                                                            cTCAAACTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATtcgt                                                                          <  2:923978/140‑1 (MQ=255)

                                                            cTCAAACTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATtcgt                                                                          <  1:969083/140‑1 (MQ=255)

                                                            cTCAAACTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATtcgt                                                                          >  1:996749/1‑140 (MQ=255)

                                                                 aCTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCct                                                                     >  2:94187/1‑140 (MQ=255)

                                                                   tACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCctct                                                                   <  1:87629/140‑1 (MQ=255)

                                                                    accaccGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATtcgt                                                                          >  1:255900/1‑132 (MQ=255)

                                                                    accaccGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATtcgt                                                                          <  2:255900/132‑1 (MQ=255)

                                                                      caccGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTAcc                                                                >  2:455696/1‑140 (MQ=255)

                                                                      caccGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTAcc                                                                <  1:94187/140‑1 (MQ=255)

                                                                        ccGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCt                                                              <  2:433776/140‑1 (MQ=255)

                                                                        ccGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCt                                                              <  2:219730/140‑1 (MQ=255)

                                                                           agaAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCct                                                                     >  2:252650/1‑130 (MQ=255)

                                                                           agaAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCct                                                                     <  1:252650/130‑1 (MQ=255)

                                                                                   ctcactcaAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCTGAGAACAACGa                                                   <  1:501097/140‑1 (MQ=255)

                                                                                   ctcactcaAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCTGAGAACAACGa                                                   <  1:1094912/140‑1 (MQ=255)

                                                                                   ctcactcaAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCTGAGAACAACGa                                                   <  2:1165879/140‑1 (MQ=255)

                                                                                       ctcaAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCTGAGAACAACGAAGCt                                               <  1:1048729/140‑1 (MQ=255)

                                                                                       ctcaAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCTGAGAACAACGAAGCt                                               <  2:992384/140‑1 (MQ=255)

                                                                                        tcaAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCTGAGAACAACGAAGCTc                                              <  1:780226/140‑1 (MQ=255)

                                                                                            aGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCTGAGAACAACGAAGCTCGTaa                                          <  1:317016/140‑1 (MQ=255)

                                                                                                          cGTCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCTGAGAACAACGAAGCTCGTAAACAAGCTATTCGcc                            <  2:974259/140‑1 (MQ=255)

                                                                                                            tCTTCCTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCTGAGAACAACGAAGCTCGTAAACAAGCTATTCGCCGt                          <  2:1238126/140‑1 (MQ=255)

                                                                                                                ccTGCGTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCTGAGAACAACGAAGCTCGTAAACAAGCTATTCGCCGTCAcc                      >  2:665222/1‑140 (MQ=255)

                                                                                                                     gTTCTAACCTCTTCCAGGGCTCATGGAACTTCTAACGTATTCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCTGAGAACAACGAAGCTCGTAAACAAGCTATTCGCCGTCACCTGGAg                 <  2:1111950/140‑1 (MQ=255)

                                                                                                                     gTTCTAACCTCTTCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCTGAGAACAACGAAGCTCGTAAACAAGCTATTCGCCGTCACCTGGAg                 <  2:592457/140‑1 (MQ=255)

                                                                                                                                 tCCAGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCTGAGAACAACGAAGCTCGTAAACAAGCTATTCGCCGTCACCTGGAGTTCTTTAACAcc     >  1:1228711/1‑140 (MQ=255)

                                                                                                                                    aGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCTGAGAACAACGAAGCTCGTAAACAAGCTATTCGCCGTCACCTGGAGTTCTTTAACACCCAg  <  1:1202713/140‑1 (MQ=255)

                                                                                                                                    aGGGCTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCTGAGAACAACGAAGCTCGTAAACAAGCTATTCGCCGTCACCTGGAGTTCTTTAACACCCAg  <  2:1197033/140‑1 (MQ=255)

CTGGTAACAACGATCTCGATAACGAACTGGACTAACAGGTGAGCGAAATGGTTGATACAACTCAAACTACCACCGAGAAAAAACTCACTCAAAGTGATATTCGTGGCGTCTTCCTGCGTTCTAACCTCTTCCAGGGTTCATGGAACTTCGAACGTATGCAGGCACTGGGTTTCTGCTTCTCTATGGTACCGGCAATTCGTCGCCTCTACCCTGAGAACAACGAAGCTCGTAAACAAGCTATTCGCCGTCACCTGGAGTTCTTTAACACCCAG  >  NC_000913/1903848‑1904119

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A