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
A8 F1 I2 R1	97	53.3	2484976	94.5%	2348302	111.1

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,629,726	A→G	intergenic (+245/‑66)	yfgG → / → yfgH	uncharacterized protein/outer membrane integrity lipoprotein

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,629,726	0	A	G	100.0%	33.7 / NA	11	intergenic (+245/‑66)	yfgG/yfgH	uncharacterized protein/outer membrane integrity lipoprotein
Reads supporting (aligned to +/- strand): ref base A (0/0); new base G (8/3); total (8/3)

ATGTTTATCCTGTTTGGCTGCGAAATAAATATAAAATTAATATATATGTTGTAATGATATATTTTTATAAATTATTCCCTGCGTGAATTTTAATAAATTTAATCTATCCCTTTATACGCAATACATTTACTTTCCTCTTTTGATGATCTTAAATGTCTTATTTTTCGTAATGTGTATAACAAGGAATAGTGATGAAATTTAAAAAATGTCTTCTGCCTGTGGCAATGTTAGCGTCATTCACTCTGGCAGGA  >  NC_000913/2629604‑2629854

aTGTTTATCCTGTTTGGCTGCGAAATAAATATAAAATTAATATATATGTTGTAATGATATATTTTTATAAATTATTCCCTGCGTGAATTTTAATAAATTTAATCTATCCCTTTATACGCAATGCATTTACTTTCCTCtt                                                                                                                  >  2:1219134/1‑139 (MQ=255)

                                                 tgtAATGATATATTTTTATAAATTATTCCCTGCGTGAATTTTAATAAATTTAATCTATCCCTTTATACGCAATGCATTTACTTTCCTCTTTTGATGATCTTAAATGTCTTATTTTTCGTAATGTGTATAACAAGGAATa                                                                 >  2:1210989/1‑139 (MQ=255)

                                                                  ataAATTATTCCCTGCGTGAATTTTAATAAATTTAATCTATCCCTTTATACGCAATGCATTTACTTTCCTCTTTTGATGATCTTAAATGTCTTATTTTTCGTAATGTGTATAACAAGGAATAGTGATGAAATTTaaaaa                                                >  2:1162592/1‑139 (MQ=255)

                                                                                 cGTGAATTTTAATAAATTTAATCTATCCCTTTATACGCAATGCATTTACTTTCCTCTTTTGATGATCTTAAATGTCTTATTTTTCGTAATGTGTATAACAAGGAATAGTGATGAAATTTAAAAAATGTCTTCTGCCtgt                                 >  2:893826/1‑139 (MQ=255)

                                                                                                          tCCCTTTATACGCAATGCATTTACTTTCCTCTTTTGATGATCTTaa                                                                                                     <  1:712530/46‑1 (MQ=255)

                                                                                                          tCCCTTTATACGCAATGCATTTACTTTCCTCTTTTGATGATCTTaa                                                                                                     >  2:712530/1‑46 (MQ=255)

                                                                                                          tCCCTTTATACGCAATGCATTTACTTTCCTCTTTTGATGATCTTAAATGTCTTATTTTTCGTAATGTGTATAACAAGGAATAGTGATGAAATTTaa                                                   >  1:403782/1‑96 (MQ=255)

                                                                                                          tCCCTTTATACGCAATGCATTTACTTTCCTCTTTTGATGATCTTAAATGTCTTATTTTTCGTAATGTGTATAACAAGGAATAGTGATGAAATTTaa                                                   <  2:403782/96‑1 (MQ=255)

                                                                                                                tataCGCAATGCATTTACTTTCCTCTTTTGATGATCTTAAATGTCTTATTTTTCGTAATGTGTATAACAAGGAATAGTGATGAAATTTAAAAAATGTCTTCTGc                                     >  1:565752/1‑104 (MQ=255)

                                                                                                                tataCGCAATGCATTTACTTTCCTCTTTTGATGATCTTAAATGTCTTATTTTTCGTAATGTGTATAACAAGGAATAGTGATGAAATTTAAAAAATGTCTTCTGc                                     <  2:565752/104‑1 (MQ=255)

                                                                                                                tataCGCAATGCATTTACTTTCCTCTTTTGATGATCTTAAATGTCTTATTTTTCGTAATGTGTATAACAAGGAATAGTGATGAAATTTAAAAAATGTCTTCTGCCTGTGGCAATGTTAGCGTCATTCACTCTGGCAGGa  >  2:683437/1‑139 (MQ=255)

ATGTTTATCCTGTTTGGCTGCGAAATAAATATAAAATTAATATATATGTTGTAATGATATATTTTTATAAATTATTCCCTGCGTGAATTTTAATAAATTTAATCTATCCCTTTATACGCAATACATTTACTTTCCTCTTTTGATGATCTTAAATGTCTTATTTTTCGTAATGTGTATAACAAGGAATAGTGATGAAATTTAAAAAATGTCTTCTGCCTGTGGCAATGTTAGCGTCATTCACTCTGGCAGGA  >  NC_000913/2629604‑2629854

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 16 ≤` `ATCG/ATCG` `< 31 ≤` `ATCG/ATCG` `< 38 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A