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
A3 F28 I1 R1	146	75.3	2562504	98.6%	2526628	139.0

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,081,038	T→C	Q64R (CAG→CGG)	fdhE ←	formate dehydrogenase formation protein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,081,038	0	T	C	100.0%	205.3 / NA	55	Q64R (CAG→CGG)	fdhE	formate dehydrogenase formation protein
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (33/22); total (33/22)

CGCCATCAGCAGCTTTTGCCAGTGCTTATCACGCGGCAGAACGTGAATATCCAGCGGGGGCTTGCCTTGTGCGCTGGCTTCTTTAATGCGCGCAGTCAGATCCATCTCCAGCGGATGGTCGTACAGCACCACTTCCTGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGTTGTATAAATTCTTGAGCCGAGGGAACAATAACGGCGGAATCATATCC  >  NC_000913/4080902‑4081172

cgcCATCAGCAGCTTTTGCCAGTGCTTATCACGCGGCAGAACGTGAATATCCAGCGGGGGCTTGCCTTGTGCGCTGGCTTCTTTAATGCGCGCAGTCAGATCCATCTCCAGCGGATGGTCGTACAGCACCACTTCCcggg                                                                                                                                     >  1:318131/1‑140 (MQ=255)

  ccATCAGCAGCTTTTGCCAGTGCTTATCACGCGGCAGAACGTGAATATCCAGCGGGGGCTTGCCTTGTGCGCTGGCTTCTTTAATGCGCGCAGTCAGATCCATCTCCAGCGGATGGTCGTACAGCACCACTTCCcgggcg                                                                                                                                   <  2:17693/140‑1 (MQ=255)

     tCAGCAGCTTTTGCCAGTGCTTATCACGCGGCAGAACGTGAATATCCAGCGGGGGCTTGCCTTGTGCGCTGGCTTCTTTAATGCGCGCAGTCAGATCCATCTCCAGCGGATGGTCGTACAGCACCACTTCCcgggcgtgg                                                                                                                                <  1:435709/140‑1 (MQ=255)

            cTTTTGCCAGTGCTTATCACGCGGCAGAACGTGAATATCCAGCGGGGGCTTGCCTTGTGCGCTGGCTTCTTTAATGCGCGCAGTCAGATCCATCTCCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATaa                                                                                                                         >  1:16849/1‑140 (MQ=255)

                  ccAGTGCTTATCACGCGGCAGAACGTGAATATCCAGCGGGGGCTTGCCTTGTGCGCTGGCTTCTTTAATGCGCGCAGTCAGATCCATCTCCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCgcag                                                                                                                   <  1:55911/140‑1 (MQ=255)

                       gCTTATCACGCGGCAGAACGTGAATATCCAGCGGGGGCTTGCCTTGTGCGCTGGCTTCTTTAATGCGCGCAGTCAGATCCATCTCCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAACAAAg                                                                                                              <  1:288799/140‑1 (MQ=255)

                          tATCACGCGGCAGAACGTGAATATCCAGCGGGGGCTTGCCTTGTGCGCTGGCTTCTTTAATGCGCGCAGTCAGATCCATCTCCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAgcgc                                                                                                           <  1:773577/140‑1 (MQ=255)

                           aTCACGCGGCAGAACGTGAATATCCAGCGGGGGCTTGCCTTGTGCGCTGGCTTCTTTAATGCGCGCAGTCAGATCCATCTCCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCa                                                                                                          <  2:396474/140‑1 (MQ=255)

                                gcgGCAGAACGTGAATATCCAGCGGGGGCTTGCCTTGTGCGCTGGCTTCTTTAATGCGCGCAGTCAGATCCATCTCCAGCGGATGGTCGTACAGTACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTaa                                                                                                     >  1:398913/1‑140 (MQ=255)

                                  ggCAGAACGTGAATATCCAGCGGGGGCTTGCCTTGTGCGCTGGCTTCTTTAATGCGCGCAGTCAGATCCATCTCCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATc                                                                                                   >  2:288413/1‑140 (MQ=255)

                                  ggCAGAACGTGAATATCCAGCGGGGGCTTGCCTTGTGCGCTGGCTTCTTTAATGCGCGCAGTCAGATCCATCTCCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATc                                                                                                   >  2:1250091/1‑140 (MQ=255)

                                             aaTATCCAGCGGGGGCTTGCCTTGTGCGCTGGCTTCTTTAATGCGCGCAGTCAGATCCATCTCCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGat                                                                                        <  2:1047049/140‑1 (MQ=255)

                                                    aGCGGGGGCTTGCCTTGTGCGCTGGCTTCTTTAATGCGCGCAGTCAGATCCATCTCCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTc                                                                                 >  1:1182898/1‑140 (MQ=255)

                                                      cGGGGGCTTGCCTTGTGCGCTGGCTTCTTTAATGCGCGCAGTCAGATCCATCTCCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTg                                                                               >  1:693665/1‑140 (MQ=255)

                                                         gggCTTGCCTTGTGCGCTGGCTTCTTTAATGCGCGCAGTCAGATCCATCTCCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCa                                                                            <  2:612657/140‑1 (MQ=255)

                                                           gCTTGCCTTGTGCGCTGGCTTCTTTAATGCGCACAGTCAGATCCATCTCCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGc                                                                          >  2:1168554/1‑140 (MQ=255)

                                                              tGCCTTGTGCGCTGGCTTCTTTAATGCGCGCAGTCAGATCCATCTCCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTcg                                                                       <  1:288413/140‑1 (MQ=255)

                                                                     tgCGCTGGCTTCTTTAATGCGCGCAGTCAGATCCATCTCCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGAc                                                                >  1:1280647/1‑140 (MQ=255)

                                                                     tgCGCTGGCTTCTTTAATGCGCGCAGTCAGATCCATCTCCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGAc                                                                >  2:842938/1‑140 (MQ=255)

                                                                        gcTGGCTTCTTTAATGCGCGCAGTCAGATCCATCTCCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCt                                                             <  2:693665/140‑1 (MQ=255)

                                                                         cTGGCTTCTTTAATGCGCGCAGTCAGATCCATCTCCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTc                                                            >  1:1167668/1‑140 (MQ=255)

                                                                          tGGCTTCTTTAATGCGCGCAGTCAGATCCATCTCCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTcg                                                           >  1:898249/1‑140 (MQ=255)

                                                                                   tAATGCGCGCAGTCAGATCCATCTCCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGcggcgg                                                  <  1:387441/140‑1 (MQ=255)

                                                                                   tAATGCGCGCAGTCAGATCCATCTCCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGcggcgg                                                  <  1:1250091/140‑1 (MQ=255)

                                                                                        cgcgcAGTCAGATCCATCTCCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGTTGta                                             >  1:102504/1‑140 (MQ=255)

                                                                                          cgcAGTCAGATCCATCTCCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGTTGtata                                           >  1:185103/1‑140 (MQ=255)

                                                                                          cgcAGTCAGATCCATCTCCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGCTggtta                                           >  2:483819/1‑136 (MQ=255)

                                                                                          cgcAGTCAGATCCATCTCCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGCTGttta                                           >  1:589927/1‑140 (MQ=255)

                                                                                                     ccATCTCCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGTTGTATAAATTCTTGAGc                                <  2:16849/140‑1 (MQ=255)

                                                                                                        tctcCAGCGGATGGTCGTACAGTACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGTTGTATAAATTCTTGAGCCGa                             <  2:398913/140‑1 (MQ=255)

                                                                                                        tctcCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGTTGTATAAATTCTTGAGCCGa                             <  2:806374/140‑1 (MQ=255)

                                                                                                        tctcCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGTTGTATAAATTCTTGAGCCGa                             >  1:443119/1‑140 (MQ=255)

                                                                                                         ctcCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGTTGTATAAATTCTTTAGCCGAg                            >  2:286863/1‑140 (MQ=255)

                                                                                                         ctcCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGTTGTATAAATTCTTGAGCCGAg                            >  1:131662/1‑140 (MQ=255)

                                                                                                         ctcCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGTTGTATAAATTCTTGAGCCGAg                            >  1:1168126/1‑140 (MQ=255)

                                                                                                         ctcCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGTTGTATAAATTCTTGAGCCGAg                            >  2:668156/1‑140 (MQ=255)

                                                                                                         ctcCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGTTGTATAAATTCTTGAGCCGAg                            >  1:885375/1‑140 (MQ=255)

                                                                                                         ctcCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAAACGCTCGGCGCGGCGGTTGtata                                           >  1:446703/1‑125 (MQ=255)

                                                                                                         ctcCAGCGGATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAAACGCTCGGCGCGGCGGTTGtata                                           <  2:446703/125‑1 (MQ=255)

                                                                                                                 gATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGTTGTATAAATTCTTGAGCCGAGGGAACaaa                    >  1:1031677/1‑139 (MQ=255)

                                                                                                                 gATGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGTTGTATAAATTCTTGAGCCGAGGGAACAAt                    <  1:1020134/140‑1 (MQ=255)

                                                                                                                  aTGGTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGTTGTATAAATTCTTGAGCCGAGGGAACAATa                   >  2:938404/1‑140 (MQ=255)

                                                                                                                    ggTCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGTTGTATAAATTCTTGAGCCGAGGGAACAATAAc                 >  1:475272/1‑140 (MQ=255)

                                                                                                                      tCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGTTGTATAAATTCTTGAGCCGa                             <  2:946813/126‑1 (MQ=255)

                                                                                                                      tCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGTTGTATAAATTCTTGAGCCGa                             >  1:946813/1‑126 (MQ=255)

                                                                                                                      tCGTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGTTGTATAAATTCTTGAGCCGAGGGAACAATAAcgg               <  2:318131/140‑1 (MQ=255)

                                                                                                                        gTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGTTGTATAAATTCTTGAGCCGAGGGAACAATAAcggcg             <  2:12156/140‑1 (MQ=255)

                                                                                                                        gTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGTTGTATAAATTCTTGAGCCGAGGGAACAATAAcggcg             <  1:938404/140‑1 (MQ=255)

                                                                                                                        gTACAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGTTGTATAAATTCTTGAGCCGAGGGAACAATAAcggcg             <  1:668156/140‑1 (MQ=255)

                                                                                                                          aCAGCACCACTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGTTGTATAAATTCTTGAGCCGAGGGAACAATAACGGCGGa           <  2:131662/140‑1 (MQ=255)

                                                                                                                              caccacTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGTTGTATAAATTCTTGAGCCGAGGGAACAATAACGGCGGAATCa       >  1:754694/1‑140 (MQ=255)

                                                                                                                              caccacTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGTTGTATAAATTCTTGAGCCGAGGGAACAATAACGGCGGAATCa       >  2:860617/1‑140 (MQ=255)

                                                                                                                              caccacTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGGTGGATAAATTCTTGGACCGAGGGGACAATAAACGCGGAAACa       >  2:651897/1‑140 (MQ=255)

                                                                                                                                ccacTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGTTGTATAAATTCTTGAGCCGAGGGGACAATAAaggcgggacatat     >  2:290262/1‑133 (MQ=255)

                                                                                                                                ccacTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGTTGTATAAATTCTTGAGCCGAGGGGACAATAACGGCGGGAACata     >  2:1213912/1‑140 (MQ=255)

                                                                                                                                ccacTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGTTGTATAAATTCTTGAGCCGAGGGAACAATAACGGCGGAATCata     >  2:429637/1‑140 (MQ=255)

                                                                                                                                 cacTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGTTGTATAAATTCTTGAGCCGAGGGAACAATAACGGCGGAATCatat    <  1:1074977/140‑1 (MQ=255)

                                                                                                                                   cTTCCCGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGTTGTATAAATTTTTGAGCCGAGGGAACAATAACGGCGGGAACATATcc  >  2:70414/1‑140 (MQ=255)

CGCCATCAGCAGCTTTTGCCAGTGCTTATCACGCGGCAGAACGTGAATATCCAGCGGGGGCTTGCCTTGTGCGCTGGCTTCTTTAATGCGCGCAGTCAGATCCATCTCCAGCGGATGGTCGTACAGCACCACTTCCTGGGCGTGGGCGATAAGCGCAGCAAAGCGCAGGTAATCACCCAGAGGATTATTTTCTGCCAGCTCGCGCAGACGCTCGGCGCGGCGGTTGTATAAATTCTTGAGCCGAGGGAACAATAACGGCGGAATCATATCC  >  NC_000913/4080902‑4081172

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 22 ≤` `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