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
A2 F28 I1 R1	142	96.2	3256224	98.9%	3220405	138.8

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,097,218	(G)_7→8	intergenic (+389/+347)	ycdU → / ← serX	uncharacterized protein YcdU/tRNA‑Ser

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,097,211	1	.	G	100.0%	11.4 / NA	6	intergenic (+382/+354)	ycdU/serX	uncharacterized protein YcdU/tRNA‑Ser
Reads supporting (aligned to +/- strand): ref base . (0/0); new base G (0/6); total (0/6)

GCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGACCCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGG‑TGA‑GGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCC  >  NC_000913/1097078‑1097289

gCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGACCCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGG‑TGA‑gggggg                                                                          >  2:418927/1‑140 (MQ=35)

   ttCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGACCCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGG‑TGA‑gggggggga                                                                       <  1:171778/140‑3 (MQ=21)

                       gtGTCGCCAGTTGTCGACCCCCGGTCGGGGCTTCTCAGCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGG‑TGAGGGGGGGGATTGACTCGCTTCGCTCGccc                                                    <  2:1371221/139‑1 (MQ=255)

                                           ccGGTCGGGGCTTCTCATCCCCCCGGTGTGTGTAATACACGAAAAAAAAGCCCGTACCTTCGTACGAGCTCTTCTTTAAATATGGCGG‑TGAGGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTg                                <  1:175602/140‑1 (MQ=255)

                                                   ggCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGG‑TGAGGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACg                        <  1:418927/140‑1 (MQ=17)

                                                   ggCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGG‑TGAGGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACg                        <  2:1305071/140‑1 (MQ=17)

                                                       gctcggccccccGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGG‑TGAGGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCt                    <  2:74282/134‑1 (MQ=255)

                                                                  cGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGGAGGG‑GGGGGGGGTTGGCGCGCTTCGCTCCCCCTCCGGGCAGCCCCCCCCCCGCGGTCCCCGTCTGTCCCAcccgc         >  2:1510436/1‑136 (MQ=2)

                                                                         tgCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGG‑TGAGGGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGcc  <  2:1116641/140‑1 (MQ=17)

GCGTTCACGGTCTGTCCAACTGGCTGTCGCCAGTTGTCGACCCCCGGTCGGGGCTTCTCATCCCCCCGGTGTGTGCAATACACGAAAAAAAAGCCCGTACTTTCGTACGAGCTCTTCTTTAAATATGGCGG‑TGA‑GGGGGGGATTGACTCGCTTCGCTCGCCCTGCGGGCAGCCCGCTCACTGCGTTCACGGTCTGTCCAACTGGCTGTCGCC  >  NC_000913/1097078‑1097289

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