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	124	90.1	3003320	99.2%	2979293	139.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,316,315	T→C	intergenic (‑280/+101)	yciG ← / ← trpA	protein YciG/tryptophan synthase subunit alpha

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,316,315	0	T	C	100.0%	159.5 / NA	43	intergenic (‑280/+101)	yciG/trpA	protein YciG/tryptophan synthase subunit alpha
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (26/17); total (26/17)

ATATTAACAATTACCTGAGGAATAAGTGACTTAGAGAAAATTATTGATTTTACTGGTGTTATGTTGCGGGATTAATTTGTTTGATTATATTACTGTTGGGCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGTAAGCGAAACGGTAAAAAGATAAATATTAAATGAATTTAGGATTTTTCCGGCTTCATTAAAGAAAGTTAAAATGCCGCCAGCGGAACTGGCGGCTGTGGGATTAACTGCGCGTCGCCGCTTTCATCGGTTGTACAA  >  NC_000913/1316181‑1316450

atatTAACAATTACCTGAGGAATAAGTGACTTAGAGAAAATTATTGATTTTACTGGTGTTATGTTGCGGGATTAATTTGTTTGATTATATTACTGTTGGGCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCg                                                                                                                                    >  2:503870/1‑140 (MQ=255)

  atTAACAATTACCTGAGGAATAAGTGACTTAGAGAAAATTATTGATTTTACTGGTGTTATGTTGCGGGATTAATTTGTTTGATTATATTACTGTTGGGCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGaa                                                                                                                                  >  1:952375/1‑140 (MQ=255)

   ttAACAATTACCTGAGGAATAAGTGACTTAGAGAAAATTATTGATTTTACTGGTGTTATGTTGCGGGATTAATTTGTTTGATTATATTACTGTTGGGCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGaaa                                                                                                                                 >  1:1085200/1‑140 (MQ=255)

   ttAACAATTACCTGAGGAATAAGTGACTTAGAGAAAATTATTGATTTTACTGGTGTTATGTTGCGGGATTAATTTGTTTGATTATATTACTGTTGGGCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGaaa                                                                                                                                 <  1:1357898/140‑1 (MQ=255)

    tAACAATTACCTGAGGAATAAGTGACTTAGAGAAAATTATTGATTTTACTGGTGTTATGTTGCGGGATTAATTTGTTTGATTATATTACTGTTGGGCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAAc                                                                                                                                <  2:1368600/140‑1 (MQ=255)

       cAATTACCTGAGGAATAAGTGACTTAGAGAAAATTATTGATTTTACTGGTGTTATGTTGCGGGATTAATTTGTTTGATTATATTACTGTTGGGCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGt                                                                                                                             <  1:1223309/140‑1 (MQ=255)

            aCCTGAGGAATAAGTGACTTAGAGAAAATTATTGATTTTACTGGTGTTATGTTGCGGGATTAATTTGTTTGATTATATTACTGTTGGGCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTaaaaa                                                                                                                        >  2:580563/1‑140 (MQ=255)

             ccTGAGGAATAAGTGACTTAGAGAAAATTATTGATTTTACTGGTGTTATGTTGCGGGATTAATTTGTTTGATTATATTACTGTTGGGCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTAAAAAg                                                                                                                       >  1:1358329/1‑140 (MQ=255)

               tGAGGAATAAGTGACTTAGAGAAAATTATTGATTTTACTGGTGTTATGTTGCGGGATTAATTTGTTTGATTATATTACTGTTGGGCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTAAAAAGAt                                                                                                                     <  1:962835/140‑1 (MQ=255)

                  ggAATAAGTGACTTAGAGAAAATTATTGATTTTACTGGTGTTATGTTGCGGGATTAATTTGTTTGATTATATTACTGTTGGGCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTAAAAAGATaaa                                                                                                                  >  2:782185/1‑140 (MQ=255)

                    aaTAAGTGACTTAGAGAAAATTATTGATTTTACTGGTGTTATGTTGCGGGATTAATTTGTTTGATTATATTACTGTTGGGCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTAAAAAGATAAata                                                                                                                >  2:984308/1‑140 (MQ=255)

                        aGTGACTTAGAGAAAATTATTGATTTTACTGGTGTTATGTTGCGGGATTAATTTGTTTGATTATATTACTGTTGGGCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTAAAAAGATAAATATTaa                                                                                                            >  1:1144360/1‑140 (MQ=255)

                                agagAAAATTATTGATTTTACTGGTGTTATGTTGCGGGATTAATTTGTTTGATTATATTACTGTTGGGCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTAAAAAGATAAATATTAAATGAAttt                                                                                                    <  1:905379/140‑1 (MQ=255)

                                  agaAAATTATTGATTTTACTGGTGTTATGTTGCGGGATTAATTTGTTTGATTATATTACTGTTGGGCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTAAAAAGATAAATATTAAATGAATTTAg                                                                                                  >  2:437094/1‑140 (MQ=255)

                                    aaaaTTATTGATTTTACTGGTGTTATGTTGCGGGATTAATTTGTTTGATTATATTACTGTTGGGCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTAAAAAGATAAATATTAAATGAATTTAGGa                                                                                                >  1:328047/1‑140 (MQ=255)

                                             gATTTTACTGGTGTTATGTTGCGGGATTAATTTGTTTGATTATATTACTGTTGGGCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTAAAAAGATAAATATTAAATGAATTTAGGATTTTTCCgg                                                                                       <  1:506005/140‑1 (MQ=255)

                                             gATTTTACTGGTGTTATGTTGCGGGATTAATTTGTTTGATTATATTACTGTTGGGCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTAAAAAGATAAATATTAAATGAATTTAGGATTTTTCCgg                                                                                       <  2:1266182/140‑1 (MQ=255)

                                              aTTTTACTGGTGTTATGTTGCGGGATTAATTTGTTTGATTATATTACTGTTGGGCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTAAAAAGATAAATATTAAATGAATTTAGGATTTTTCCGGc                                                                                      <  1:1154908/140‑1 (MQ=255)

                                                                  cGGGATTAATTTGTTTGATTATATTACTGTTGGGCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTAAAAAGATAAATATTAAATGAATTTAGGATTTTTCCGGCTTCATTAAAGAAAGTTaaaa                                                                  >  1:87219/1‑140 (MQ=255)

                                                                  cGGGATTAATTTGTTTGATTATATTACTGTTGGGCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTAAAAAGATAAATATTAAATGAATTTAGGATTTTTCCGGCTTCATTAAAGAAAGTTaaaa                                                                  >  1:1352625/1‑140 (MQ=255)

                                                                  cGGGATTAATTTGTTTGATTATATTACTGTTGGGCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTAAAAAGATAAATATTAAATGAATTTAGGATTTTTCCGGCTTCATTAAAGAAAGTTaaaa                                                                  >  2:1327349/1‑140 (MQ=255)

                                                                        tAATTTGTTTGATTATATTACTGTTGGGCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTAAAAAGATAAATATTAAATGAATTTAGGATTTTTCCGGCTTCATTAAAGAAAGTTAAAATgccgc                                                            <  1:580563/140‑1 (MQ=255)

                                                                               tttgATTATATTACTGTTGGGCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTAAAAAGATAAATATTAAATGAATTTAGGATTTTTCCGGCTTCATTAAAGAAAGTTAAAATGCCGCCAGCGGa                                                     <  1:984308/140‑1 (MQ=255)

                                                                                     tataTTACTGTTGGGCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTAAAAAGATAAATATTAAATGAATTTAGGATTTTTCCGGCTTCATTAAAGAAAGTTAAAATGCCGCCAGCGGAACTggc                                               <  2:1085200/140‑1 (MQ=255)

                                                                                         ttACTGTTGGGCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTAAAAAGATAAATATTAAATGAATTTAGGATTTTTCCGGCTTCATTAAAGAAAGTTAAAATGCCGCCAGCGGAACTGGCGGCt                                           >  1:1356838/1‑140 (MQ=255)

                                                                                         ttACTGTTGGGCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTAAAAAGATAAATATTAAATGAATTTAGGATTTTTCCGGCTTCATTAAAGAAAGTTAAAATGCCGCCAGCGGAACTGGCGGCt                                           <  2:1144360/140‑1 (MQ=255)

                                                                                            cTGTTGGGCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTAAAAAGATAAATATTAAATGAATTTAGGATTTTTCCGGCTTCATTAAAGAAAGTTAAAATGCCGCCAGCGGAACTGGCGGCtgtg                                        >  2:1465257/1‑140 (MQ=255)

                                                                                               ttGGGCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTAAAAAGATAAATATTAAATGAATTTAGGATTTTTCCGGCTTCATTAAAGAAAGTTAAAATGCCGCCAGCGGAACTGGCGGCTGTGGGa                                     >  1:1384660/1‑140 (MQ=255)

                                                                                               ttGGGCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTAAAAAGATAAATATTAAATGAATTTAGGATTTTTCCGGCTTCATTAAAGAAAGTTAAAATGCCGCCAGCGGAACTGGCGGCTGTGGGa                                     >  1:124435/1‑140 (MQ=255)

                                                                                               ttGGGCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTAAAAAGATAAATATTAAATGAATTTAGGATTTTTCCGGCTTCATTAAAGAAAGTTAAAATGCCGCCAGCGGAACTGGCGGCTGTGGGa                                     >  2:219761/1‑140 (MQ=255)

                                                                                                  ggCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTAAAAAGATAAATATTAAATGAATTTAGGATTTTTCCGGCTTCATTAAAGAAAGTTAAAATGCCGCCAGCGGAACTGGCGGCTGTGGGATTa                                  >  2:1272244/1‑140 (MQ=255)

                                                                                                  ggCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTAAAAAGATAAATATTAAATGAATTTAGGATTTTTCCGGCTTCATTAAAGAAAGTTAAAATGCCGCCAGCGGAACTGGCGGCTGTGGGATTa                                  >  2:55176/1‑140 (MQ=255)

                                                                                                  ggCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTAAAAAGATAAATATTAAATGAATTTAGGATTTTTCCGGCTTCATTAAAGAAAGTTAAAATGCCGCCAGCGGAACTGGCGGCTGTGGGATTa                                  >  2:609232/1‑140 (MQ=255)

                                                                                                    cGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTAAAAAGATAAATATTAAATGAATTTAGGATTTTTCCGGCTTCATTAAAGAAAGTTAAAATGCCGCCAGCGGAACTGGCGGCTGTGGGATTAAc                                >  2:446155/1‑140 (MQ=255)

                                                                                                    cGGAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTAAAAAGATAAATATTAAATGAATTTAGGATTTTTCCGGCTTCATTAAAGAAAGTTAAAATGCCGCCAGCGGAACTGGCGGCTGTGGGATTAAc                                >  1:1220140/1‑140 (MQ=255)

                                                                                                      gAAAAATGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTAAAAAGATAAATATTAAATGAATTTAGGATTTTTCCGGCTTCATTAAAGAAAGTTAAAATGCCGCCAGCGGAACTGGCGGCTGTGGGATTAACTg                              >  1:750213/1‑140 (MQ=255)

                                                                                                        aaaaTGACGTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTAAAAAGATAAATATTAAATGAATTTAGGATTTTTCCGGCTTCATTAAAGAAAGTTAAAATGCCGCCAGCGGAACTGGCGGCTGTGGGATTAACTgcg                            <  1:503870/140‑1 (MQ=255)

                                                                                                                gTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTAAAAAGATAAATATTAAATGAATTTAGGATTTTTCCGGCTTCATTAAAGAAAGTTAAAATGCCGCCAGCGGAACTGGCGGCTGTGGGATTAACTGCGCGTcgccg                    <  2:1358329/140‑1 (MQ=255)

                                                                                                                gTAAGTTGACGTTCGACCGGGGCAAGCGAAACGGTAAAAAGATAAATATTAAATGAATTTAGGATTTTTCCGGCTTCATTAAAGAAAGTTAAAATGCCGCCAGCGGAACTGGCGGCTGTGGGATTAACTGCGCGTcgcca                    <  2:328047/140‑2 (MQ=255)

                                                                                                                          gTTCGACCGGGGCAAGCGAAACGGTAAAAAGATAAATATTAAATGAATTTAGGATTTTTCCGGCTTCATTAAAGAAAGTTAAAATGCCGCCAGCGGAACTGGCGGCTGTGGGATTAACTGCGCGTCGCCGCTTTCATCgg          <  2:1352625/140‑1 (MQ=255)

                                                                                                                            tCGACCGGGGCAAGCGAAACGGTAAAAAGATAAATATTAAATGAATTTAGGATTTTTCCGGCTTCATTAAAGAAAGTTAAAATGCCGCCAGCGGAACTGGCGGCTGTGGGATTAACTGCGCGTCGCCGCTTTCATCGGtt        >  2:78161/1‑140 (MQ=255)

                                                                                                                             cGACCGGGGCAAGCGAAACGGTAAAAAGATAAATATTAAATGAATTTAGGATTTTTCCGGCTTCATTAAAGAAAGTTAAAATGCCGCCAGCGGAACTGGCGGCTGTGGGATTAACTGCGCGTCGCCGCTTTCATCGGTTg       <  1:1327349/140‑1 (MQ=255)

                                                                                                                                  ggggCAAGCGAAACGGTAAAAAGATAAATATTAAATGAATTTAGGATTTTTCCGGCTTCATTAAAGAAAGTTAAAATGCCGCCAGCGGAACTGGCGGCTGTGGGATTAACTGCGCGTCGCCGCTTTCATCGGTTGTACaa  >  1:458338/1‑140 (MQ=255)

ATATTAACAATTACCTGAGGAATAAGTGACTTAGAGAAAATTATTGATTTTACTGGTGTTATGTTGCGGGATTAATTTGTTTGATTATATTACTGTTGGGCGGAAAAATGACGTAAGTTGACGTTCGACCGGGGTAAGCGAAACGGTAAAAAGATAAATATTAAATGAATTTAGGATTTTTCCGGCTTCATTAAAGAAAGTTAAAATGCCGCCAGCGGAACTGGCGGCTGTGGGATTAACTGCGCGTCGCCGCTTTCATCGGTTGTACAA  >  NC_000913/1316181‑1316450

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