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
A5 F28 I1 R1	260	73.5	2514320	99.3%	2496719	138.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,788,399	T→C	intergenic (+121/‑36)	ppsR → / → aroH	posphoenolpyruvate synthetase regulatory protein/3‑deoxy‑7‑phosphoheptulonate synthase, Trp‑sensitive

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,788,399	0	T	C	100.0%	193.3 / NA	55	intergenic (+121/‑36)	ppsR/aroH	posphoenolpyruvate synthetase regulatory protein/3‑deoxy‑7‑phosphoheptulonate synthase, Trp‑sensitive
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (26/29); total (26/29)

TACTAGAGAACTAGTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGTCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTGCGCGTATTGAGAGCCTGGTAACGCCCGCCGAACTCGCGCTACGGTATCCCGTAACGCCTGGCGTCGCCAC  >  NC_000913/1788273‑1788532

tACTAGAGAACTAGTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAg                                                                                                                          >  2:758728/1‑140 (MQ=255)

  cTAGAGAACTAGTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGca                                                                                                                        >  1:449106/1‑140 (MQ=255)

          cTAGTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAAttt                                                                                                                >  2:927344/1‑140 (MQ=255)

          cTAGTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAAttt                                                                                                                >  2:26696/1‑140 (MQ=255)

            aGTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCt                                                                                                              <  1:26696/140‑1 (MQ=255)

              tGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTga                                                                                                            <  1:343436/140‑1 (MQ=255)

                 aTTAGCTTATTTTTTTGTTATCATGCTACCCCCCCGGCGAGGTGCGACACCCCTCGCACTTGAAATCAGCACCGTTTGGTTTATCGTGGTGCGCATCACTCCCCGCCCCCCCTGCCGTAGAAGCAACAAATTTCTGAGAc                                                                                                         <  2:627341/140‑1 (MQ=255)

                 aTTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGAc                                                                                                         <  1:758728/140‑1 (MQ=255)

                     gCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGt                                                                                                     >  2:702247/1‑140 (MQ=255)

                        tATTTTTTTGTTATCATGCTAACCACCCTGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAAt                                                                                                  >  1:251415/1‑140 (MQ=255)

                          tttttttGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGAc                                                                                                         <  1:607539/131‑1 (MQ=255)

                          tttttttGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGAc                                                                                                         >  2:607539/1‑131 (MQ=255)

                           ttttttGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGaa                                                                                               <  1:576633/140‑1 (MQ=255)

                                     tCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGAc                                                                                     <  2:825734/140‑1 (MQ=255)

                                     tCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGAc                                                                                     <  2:449106/140‑1 (MQ=255)

                                     tCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGAc                                                                                     <  2:1190800/140‑1 (MQ=255)

                                     tCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGAc                                                                                     <  2:461941/140‑1 (MQ=255)

                                     tCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGAc                                                                                     <  1:702247/140‑1 (MQ=255)

                                       aTGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGa                                                                                   <  1:867225/140‑1 (MQ=255)

                                            aaCCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAg                                                                                            >  1:391152/1‑126 (MQ=255)

                                            aaCCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAg                                                                                            <  2:391152/126‑1 (MQ=255)

                                             accaccCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCg                                                                             >  1:877092/1‑140 (MQ=255)

                                                   cGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTgc                                                                       >  2:1039115/1‑140 (MQ=255)

                                                    ggCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTgcg                                                                      >  1:711987/1‑140 (MQ=255)

                                                     gCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTgcgc                                                                     <  1:691570/140‑1 (MQ=255)

                                                         ggTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTGCGCGTAt                                                                 >  1:9781/1‑140 (MQ=255)

                                                          gtgtGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTGCGCGTAtt                                                                <  1:38922/140‑1 (MQ=255)

                                                           tgtgACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTGCGCGTATTg                                                               <  2:195479/140‑1 (MQ=255)

                                                            gtgACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTGCGCGTATTga                                                              <  1:1039115/140‑1 (MQ=255)

                                                                     cTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTGCGCGTATTGAGAGCCTGGt                                                     >  1:1121847/1‑140 (MQ=255)

                                                                     cTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTGCGCGTATTGAGAGCCTGGt                                                     >  1:1147532/1‑140 (MQ=255)

                                                                       cGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTGCGCGTATTGAGAGCCTGGTaa                                                   >  1:89397/1‑140 (MQ=255)

                                                                              gAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTGCGCGTATTGAGAGCCTGGTAAcgcccgc                                            >  1:757950/1‑140 (MQ=255)

                                                                               aaaTCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTGCGCGTATTGAGAGCCTGGTAAcgcccgcc                                           >  2:260460/1‑140 (MQ=255)

                                                                                 aTCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTGCGCGTATTGAGAGCCTGGTAAcgcccgc                                            <  2:67389/137‑1 (MQ=255)

                                                                                 aTCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTGCGCGTATTGAGAGCCTGGTAAcgcccgc                                            >  1:67389/1‑137 (MQ=255)

                                                                                 aTCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTGCGCGTATTGAGAGCCTGGTAACGCCCGCCGa                                         >  2:227274/1‑140 (MQ=255)

                                                                                    agcagcGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTGCGCGTATTGAGAGCCTGGTAACGCCCGCCGAACt                                      <  2:1121847/140‑1 (MQ=255)

                                                                                         cGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTGCGCGTATTGAGAGCCTGGTAACGCCCGCCGAACTCgcgc                                 >  2:541564/1‑140 (MQ=255)

                                                                                         cGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTGCGCGTATTGAGAGCCTGGTAACGCCCGCCGAACTCgcgc                                 <  2:9781/140‑1 (MQ=255)

                                                                                         cGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTGCGCGTATTGAGAGCCTGGTAACGCCCGCCGAACTCgcgc                                 >  2:630855/1‑140 (MQ=255)

                                                                                         cGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTGCGCGTATTGAGAGCCTGGTAACGCCCGCCGAACTCgcgc                                 <  1:2486/140‑1 (MQ=255)

                                                                                           aTTGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTGCGCGTATTGAGAGCCTGGTAACGCCCGCCGAACTCGCGCTa                               <  1:541564/140‑1 (MQ=255)

                                                                                             tGGTTTATCGTGATGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTGCGCGTATTGAGAGCCTGGTAACGCCCGCCGAACTCGCGCTACg                             <  1:620729/140‑1 (MQ=255)

                                                                                                         aTGCGCATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTGCGCGTATTGAGAGCCTGGTAACGCCCGCCGAACTCGCGCTACGGTATCCCGTAAc                 >  2:977201/1‑140 (MQ=255)

                                                                                                              cATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTGCGCGTATTGAGAGCCTGGTAACGCCCGCCGAACTCGCGCTACGGTATCCCGTAACGCCTg            >  2:669814/1‑140 (MQ=255)

                                                                                                              cATCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTGCGCGTATTGAGAGCCTGGTAACGCCCGCCGAACTCGCGCTACGGTATCCCGTAACGCCTg            >  1:1041356/1‑140 (MQ=255)

                                                                                                               aTCACTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTGCGCGTATTGAGAGCCTGGTAACGCCCGCCGAACTCGCGCTACGGTATCCCGTAACGCCTgg           <  2:1147532/140‑1 (MQ=255)

                                                                                                                  aCTTCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTGCGCGTATTGAGAGCCTGGTAACGCCCGCCGAACTCGCGCTACGGTATCCCGTAACGCCTGGCGt        <  2:1041356/140‑1 (MQ=255)

                                                                                                                    ttCCCGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTGCGCGTATTGAGAGCCTGGTAACGCCCGCCGAACTCGCGCTACGGTATCCCGTAACGCCTGGCGTCg      <  1:630855/140‑1 (MQ=255)

                                                                                                                        cGGCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTGCGCGTATTGAGAGCCTGGTAACGCCCGCCGAACTCGCGCTACGGTATCCCGTAACGCCTGGCGTCGCCAc  <  2:877092/140‑1 (MQ=255)

                                                                                                                         ggCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTGCGCGTATTGAGAGCCTGGTAACGCCCGCCGAACTCGCGCTACGGTATCCCGTAACGCCTgg           >  2:1236784/1‑130 (MQ=255)

                                                                                                                         ggCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTGCGCGTATTGAGAGCCTGGTAACGCCCGCCGAACTCGCGCTACGGTATCCCGTAACGCCTgg           <  1:1236784/130‑1 (MQ=255)

                                                                                                                         ggCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTGCGCGTATTGAGAGCCTGGTAACGCCCGCCGAACTCGCGCTACGGTATCCCGTAACGCCTGGCGTCGCCa   <  1:734063/138‑1 (MQ=255)

                                                                                                                         ggCAGCCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTGCGCGTATTGAGAGCCTGGTAACGCCCGCCGAACTCGCGCTACGGTATCCCGTAACGCCTGGCGTCGCCa   >  2:734063/1‑138 (MQ=255)

TACTAGAGAACTAGTGCATTAGCTTATTTTTTTGTTATCATGCTAACCACCCGGCGAGGTGTGACACACCTCGCACTTGAAATCAGCAGCGATTGGTTTATCGTGATGCGCATCACTTCCCGGCAGTCCTGCCGTAGAAGCAACAAATTTCTGAGACTTGTAATGAACAGAACTGACGAACTCCGTACTGCGCGTATTGAGAGCCTGGTAACGCCCGCCGAACTCGCGCTACGGTATCCCGTAACGCCTGGCGTCGCCAC  >  NC_000913/1788273‑1788532

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