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
A30 F30 I1 R1	25	26.9	915936	99.4%	910440	139.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,352,538	G→T	intergenic (‑164/‑109)	glpT ← / → glpA	sn‑glycerol 3‑phosphate:phosphate antiporter/anaerobic glycerol‑3‑phosphate dehydrogenase subunit A

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,352,538	0	G	T	100.0%	91.3 / NA	27	intergenic (‑164/‑109)	glpT/glpA	sn‑glycerol 3‑phosphate:phosphate antiporter/anaerobic glycerol‑3‑phosphate dehydrogenase subunit A
Reads supporting (aligned to +/- strand): ref base G (0/0); new base T (16/11); total (16/11)

GATTAACAGCCTGATTCAGTGAGAGAACCTGCCGTTTCTTGAGTTGCCGCGATGTTAAGAAAACATTCATAAATTAAATGTGAATTGCCGCACACATTATTAAATAAGATTTACAAAATGTTCAAAATGACGCATGAAATCACGTTTCACTTTCGAATTATGAGCGAATATGCGCGAAATCAAACAATTCATGTTTTTACTATGGCTAAATGGTAAAAAACGAACTTCAGAGGGATAACAATGAAAACTCGCGACTCGCAATCAAGTG  >  NC_000913/2352407‑2352674

gATTAACAGCCTGATTCAGTGAGAGAACCTGCCGTTTCTTGAGTTGCCGCGATGTTAAGAAAACATTCATAAATTAAATGTGAATTGCCGCACACATTATTAAATAAGATTTACAAAATGTTCAAAATGACTCATGAAAt                                                                                                                                  >  2:24617/1‑140 (MQ=255)

gATTAACAGCCTGATTCAGTGAGAGAACCTGCCGTTTCTTGAGTTGCCGCGATGTTAAGAAAACATTCATAAATTAAATGTGAATTGCCGCACACATTATTAAATAAGATTTACAAAATGTTCAAAATGACTCATGAAAt                                                                                                                                  >  2:239113/1‑140 (MQ=255)

gATTAACAGCCTGATTCAGTGAGAGAACCTGCCGTTTCTTGAGTTGCCGCGATGTTAAGAAAACATTCATAAATTAAATGTGAATTGCCGCACACATTATTAAATAAGATTTACAAAATGTTCAAAATGACTCATGAAAt                                                                                                                                  >  2:430292/1‑140 (MQ=255)

                   tGAGAGAACCTGCCGTTTCTTGAGTTGCCGCGATGTTAAGAAAACATTCATAAATTAAATGTGAATTGCCGCACACATTATTAAATAAGATTTACAAAATGTTCAAAATGACTCATGAAATCACGTTTCACTTTCGAAtt                                                                                                               >  2:355510/1‑140 (MQ=255)

                        gaACCTGCCGTTTCTTGAGTTGCCGCGATGTTAAGAAAACATTCATAAATTAAATGTGAATTGCCGCACACATTATTAAATAAGATTTACAAAATGTTCAAAATGACTCATGAAATCACGTTTCACTTTCGAATTATGAg                                                                                                          >  2:265164/1‑140 (MQ=255)

                                  tttCTTGAGTTGCCGCGATGTTAAGAAAACATTCATAAATTAAATGTGAATTGCCGCACACATTATTAAATAAGATTTACAAAATGTTCAAAATGACTCATGAAATCACGTTTCACTTTCGAATTATGAGCGAATATgcg                                                                                                <  2:347453/140‑1 (MQ=255)

                                            tGCCGCGATGTTAAGAAAACATTCATAAATTAAATGTGAATTGCCGCACACATTATTAAATAAGATTTACAAAATGTTCAAAATGACTCATGAAATCACGTTTCACTTTCGAATTATGAGCGAATATGCGCGAAATCaaa                                                                                      <  2:321503/140‑1 (MQ=255)

                                            tGCCGCGATGTTAAGAAAACATTCATAAATTAAATGTGAATTGCCGCACACATTATTAAATAAGATTTACAAAATGTTCAAAATGACTCATGAAATCACGTTTCACTTTCGAATTATGAGCGAATATGCGCGAAATCaaa                                                                                      >  1:343476/1‑140 (MQ=255)

                                              ccGCGATGTTAAGAAAACATTCATAAATTAAATGTGAATTGCCGCACACATTATTAAATAAGATTTACAAAATGTTCAAAATGACTCATGAAATCACGTTTCACTTTCGAATTATGAGCGAATATGCGCGAAATCAAACa                                                                                    >  1:56561/1‑140 (MQ=255)

                                                 cgATGTTAAGAAAACATTCATAAATTAAATGTGAATTGCCGCACACATTATTAAATAAGATTTACAAAATGTTCAAAATGACTCATGAAATCACGTTTCACTTTCGAATTATGAGCGAATATGCGCGAAATCAAACAAtt                                                                                 <  2:333573/140‑1 (MQ=255)

                                                   aTGTTAAGAAAACATTCATAAATTAAATGTGAATTGCCGCACACATTATTAAATAAGATTTACAAAATGTTCAAAATGACTCATGAAATCACGTTTCACTTTCGAATTATGAGCGAATATGCGCGAAATCAAACAATTCa                                                                               <  1:111208/140‑1 (MQ=255)

                                                             aaCATTCATAAATTAAATGTGAATTGCCGCACACATTATTAAATAAGATTTACAAAATGTTCAAAATGACTCATGAAATCACGTTTCACTTTCGAATTATGAGCGAATATGCGCGAAATCAAACAATTCATGTTTTTACt                                                                     <  1:130570/140‑1 (MQ=255)

                                                                aTTCATAAATTAAATGTGAATTGCCGCACACATTATTAAATAAGATTTACAAAATGTTCAAAATGACTCATGAAATCACGTTTCACTTTCGAATTATGAGCGAATATGCGCGAAATCAAACAATTCATGTTTTTACTATg                                                                  >  2:293197/1‑140 (MQ=255)

                                                                aTTCATAAATTAAATGTGAATTGCCGCACACATTATTAAATAAGATTTACAAAATGTTCAAAATGACTCATGAAATCACGTTTCACTTTCGAATTATGAGCGAATATGCGCGAAATCAAACAATTCATGTTTTTACTATg                                                                  >  1:220033/1‑140 (MQ=255)

                                                                  tCATAAATTAAATGTGAATTGCCGCACACATTATTAAATAAGATTTACAAAATGTTCAAAATGACTCATGAAATCACGTTTCACTTTCGAATTATGAGCGAATATGCGCGAAATCAAACAATTCATGTTTTTACTATGGc                                                                >  1:7080/1‑140 (MQ=255)

                                                                     taaattaaatGTGAATTGCCGCACACATTATTAAATAAGATTTACAAAATGTTCAAAATAACTCATGAAATCACGTTTCACTTTCGAATTATGAGCGAATATGCGCGAAATCAAACAATTCATGTTTTTACTATGGCTaa                                                             >  1:88318/1‑140 (MQ=255)

                                                                                 gAATTGCCGCACACATTATTAAATAAGATTTACAAAATGTTCAAAATGACTCATGAAATCACGTTTCACTTTCGAATTATGAGCGAATATGCGCGAAATCAAACAATTCATGTTTTTACTATGGCTAAATGGTAAAAAAc                                                 <  1:24617/140‑1 (MQ=255)

                                                                                  aaTTGCCGCACACATTATTAAATAAGATTTACAAAATGTTCAAAATGACTCATGAAATCACGTTTCACTTTCGAATTATGAGCGAATATGCGCGAAATCAAACAATTCATGTTTTTACTATGGCTAAATGGTAAAAAACg                                                <  1:38318/140‑1 (MQ=255)

                                                                                        cGCACACATTATTAAATAAGATTTACAAAATGTTCAAAATGACTCATGAAATCACGTTTCACTTTCGAATTATGAGCGAATATGCGCGAAATCAAACAATTCATGTTTTTACTATGGCTAAATGGTAAAAAACGAACTTc                                          <  1:239113/140‑1 (MQ=255)

                                                                                           acacaTTATTAAATAAGATTTACAAAATGTTCAAAATGACTCATGAAATCACGTTTCACTTTCGAATTATGAGCGAATATGCGCGAAATCAAACAATTCATGTTTTTACTATGGCTAAATGGTAAAAAACGAACTTCaga                                       <  1:265164/140‑1 (MQ=255)

                                                                                                        tAAGATTTACAAAATGTTCAAAATGACTCATGAAATCACGTTTCACTTTCGAATTATGAGCGAATATGCGCGAAATCAAACAATTCATGTTTTTACTATGGCTAAATGGTAAAAAACGAACTTCAGAGGGATAACAATGa                          >  2:64600/1‑140 (MQ=255)

                                                                                                         aaGATTTACAAAATGTTCAAAATGACTCATGAAATCACGTTTCACTTTCGAATTATGAGCGAATATGCGCGAAATCAAACAATTCATGTTTTTACTATGGCTAAATGGTAAAAAACGAACTTCAGAGGGATAACAATGaa                         >  2:105125/1‑140 (MQ=255)

                                                                                                           gATTTACAAAATGTTCAAAATGACTCATGAAATCACGTTTCACTTTCGAATTATGAGCGAATATGCGCGAAATCAAACAATTCATGTTTTTACTATGGCTAAATGGTAAAAAACGAACTTCAGAGGGATAACAATGaaaa                       >  2:321406/1‑140 (MQ=255)

                                                                                                               tACAAAATGTTCAAAATGACTCATGAAATCACGTTTCACTTTCGAATTATGAGCGAATATGCGCGAAATCAAACAATTCATGTTTTTACTATGGCTAAATGGTAAAAAACGAACTTCAGAGGGATAACAATGAAAACTcg                   <  1:355510/140‑1 (MQ=255)

                                                                                                                aCAAAATGTTCAAAATGACTCATGAAATCACGTTTCACTTTCGAATTATGAGCGAATATGCGCGAAATCAAACAATTCATGTTTTTACTATGGCTAAATGGTAAAAAACGAACTTCAGAGGGATAACAATGAAAACTcgc                  >  2:216038/1‑140 (MQ=255)

                                                                                                                          cAAAATGACTCATGAAATCACGTTTCACTTTCGAATTATGAGCGAATATGCGCGAAATCAAACAATTCATGTTTTTACTATGGCTAAATGGTAAAAAACGAACTTCAGAGGGATAACAATGAAAACTCGCGACTCGCAAt        >  1:339478/1‑140 (MQ=255)

                                                                                                                                gACTCATGAAATCACGTTTCACTTTCGAATTATGAGCGAATATGCGCGAAATCAAACAATTCATGTTTTTACTATGGCTAAATGGTAAAAAACGAACTTCAGAGGGATAACAATGAAAACTCGCGACTCGCAATCAAGTg  <  2:84317/140‑1 (MQ=255)

GATTAACAGCCTGATTCAGTGAGAGAACCTGCCGTTTCTTGAGTTGCCGCGATGTTAAGAAAACATTCATAAATTAAATGTGAATTGCCGCACACATTATTAAATAAGATTTACAAAATGTTCAAAATGACGCATGAAATCACGTTTCACTTTCGAATTATGAGCGAATATGCGCGAAATCAAACAATTCATGTTTTTACTATGGCTAAATGGTAAAAAACGAACTTCAGAGGGATAACAATGAAAACTCGCGACTCGCAATCAAGTG  >  NC_000913/2352407‑2352674

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 33 ≤` `ATCG/ATCG` `< 34 ≤` `ATCG/ATCG` `< 37 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A