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
A14 F1 I2 R1	774	49.2	2112398	96.9%	2046913	118.5

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,057,676	(C)_7→8	intergenic (+102/+351)	yeeN → / ← asnW	UPF0082 family protein/tRNA‑Asn

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,057,669	1	.	C	100.0%	20.3 / NA	7	intergenic (+95/+358)	yeeN/asnW	UPF0082 family protein/tRNA‑Asn
Reads supporting (aligned to +/- strand): ref base . (0/0); new base C (5/2); total (5/2)

AAGTTTATCATAACGTCGCAAATCTCTAATTATCTTTTAAAGAAATCTGTCTTTACGGCAGATTTCTTTAATCTCATATAATTCTTATAAAAAATATAATATTCAACTCGTCATATTGATTATA‑CCCCCCCGTTCCCAGAGAAATAATATTTATTAAAATTCCAGTTCTTCTTTTTCTGATTACAGAAGGCAAAGTGGCAATTACGCATAGTTTCCCGATAAAGACGCGATAGCGACATCCCGCATAAGGCATTTTT  >  NC_000913/2057546‑2057802

aaGTTTATCATAACGTCGCAAATCTCTAATTATCTTTTAAAGAAATCTGTCTTTACGGCAGATTTCTTTAATCTCATATAATTCTTATAAAAAATATAATATTCAACTCGTCATATTGATTATACCCCCCCCGTTCCCa                                                                                                                         <  1:827152/139‑1 (MQ=255)

                                                                            tataATTCTTATAAAAAATATAATATTCAACTCGTCATATTGATTATACCCCCCCCGTTCCCAGAGAAATAATATTTATTAAAATTCCAGTTCTTCTTTTTCTGATTACAGAAGGCAAAGTGGCAATTACGCATAGttt                                             >  1:880171/1‑139 (MQ=255)

                                                                                                        aaCTCGTCATATTGATTATACCCCCCCCGTTCCCAGAGAAATAATATTTATTAAAATTCCAGTTCTTCTTTTTCTGATTACAGAAGGCAAAGTGGCAATTACGCATAGTTTCCCGATAAAGACGCGATAGCGACATccc                 >  1:660048/1‑139 (MQ=255)

                                                                                                             gTCATATTGATTATACCCCCCCCGTTCCCAGAGAAATAATATTTATTAAAATTCCAGTTCTTCTTTTTCTGATTACAGAAGGCAAAGTGGCAATTACGCATAGTTTCCCGATAAAGACGCGATAGCGACATCCCGCATa            >  2:794798/1‑139 (MQ=255)

                                                                                                                       ttATACCCCCCCCGTTCCCAGAGAAATAATATTTATTAAAATTCCAGTTCTTCTTTTTCTGATTACAGAAGGCAAAGTGGCAATTACGCATAGTTTCCCGATAAAGACGCGATAGCGACATCCCGCATAAGGCAttttt  >  1:918113/1‑139 (MQ=255)

                                                                                                                       ttATACCCCCCCCGTTCCCAGAGAAATAATATTTATTAAAATTCCAGTTCTTCTTTTTCTGATTACAGAAGGCAAAGTGGCAATTACGCATAGTTTCCCGATAAAGACGCGATAGCGACATCCCGCATAAGGCAttt    <  1:897502/137‑1 (MQ=255)

                                                                                                                       ttATACCCCCCCCGTTCCCAGAGAAATAATATTTATTAAAATTCCAGTTCTTCTTTTTCTGATTACAGAAGGCAAAGTGGCAATTACGCATAGTTTCCCGATAAAGACGCGATAGCGACATCCCGCATAAGGCAttt    >  2:897502/1‑137 (MQ=255)

AAGTTTATCATAACGTCGCAAATCTCTAATTATCTTTTAAAGAAATCTGTCTTTACGGCAGATTTCTTTAATCTCATATAATTCTTATAAAAAATATAATATTCAACTCGTCATATTGATTATA‑CCCCCCCGTTCCCAGAGAAATAATATTTATTAAAATTCCAGTTCTTCTTTTTCTGATTACAGAAGGCAAAGTGGCAATTACGCATAGTTTCCCGATAAAGACGCGATAGCGACATCCCGCATAAGGCATTTTT  >  NC_000913/2057546‑2057802

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 30 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A