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
A12 F28 I1 R1	176	31.5	1082462	98.8%	1069472	138.9

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	2,973,440	T→C	E141E (GAA→GAG)	lplT ←	lysophospholipid transporter

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	2,973,440	0	T	C	100.0%	41.3 / NA	13	E141E (GAA→GAG)	lplT	lysophospholipid transporter
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (9/4); total (9/4)

TTGGCAACGACCGCACCACCGTAGGCCAGTGCGCATGCGGCCAGGGCGACGAGGACATGCCAGTCAGCCAGCACACCACCGGCTACGGAACCGAGCAAAATCGCCGCTATGGTAGAAGCTTCCATTAAACCGTTAGCTTTCACTAACTTACTACCCGTGGTTAATTCGCCGAGAATACCGTATTTCGCCGGTGAATAGGCTGCAGCACCAACACCCACCAGCGTATAGCCGAGAAACGGATTGATACCAAAG  >  NC_000913/2973321‑2973572

ttGGCAACGACCGCACCACCGTAGGCCAGTGCGCATGCGGCCAGGGCGACGAGGACATGCCAGTCAGCCAGCACTCCACCGGCTACGGAACCGAGCAAAATCGCCGCTATGGTAGAAGCCTCCATTAAACCGTTAGCttt                                                                                                                  <  1:472331/140‑1 (MQ=255)

                             tGCGCATGCGGCCAGGGCGACGAGGACATGCCAGTCAGCCAGCACACCACCGGCTACGGAACCGAGCAAAATCGCCGCTATGGTAGAAGCCTCCATTAAACCGTTAGCTTTCACTAACTTACTACCCGTGGTTAATTCGc                                                                                     >  1:55059/1‑140 (MQ=255)

                             tGCGCATGCGGCCAGGGCGACGAGGACATGCCAGTCAGCCAGCACACCACCGGCTACGGAACCGAGCAAAATCGCCGCTATGGTAGAAGCCTCCATTAAACCGTTAGCTTTCACTAACTTACTACCCGTGGTTAATTCGc                                                                                     >  2:30753/1‑140 (MQ=255)

                             tGCGCATGCGGCCAGGGCGACGAGGACATGCCAGTCAGCCAGCACACCACCGGCTACGGAACCGAGCAAAATCGCCGCTATGGTAGAAGCCTCCATTAAACCGTTAGCTTTCACTAACTTACTACCCGTGGTTAATTCGc                                                                                     >  2:536579/1‑140 (MQ=255)

                                   tGCGGCCAGGGCGACGAGGACATGCCAGTCAGCCAGCACACCACCGGCTACGGAACCGAGCAAAATCGCCGCTATGGTAGAAGCCTCCATTAAACCGTTAGCTTTCACTAACTTACTACCCGTGGTTAATTCGCCGAGaa                                                                               <  1:30753/140‑1 (MQ=255)

                                                 cgaGGACATGCCAGTCAGCCAGCACACCACCGGCTACGGAACCGAGCAAAATCGCCGCTATGGTAGAAGCCTCCATTAAACCGTTAGCTTTCACTAACTTACTACCCGTGGTTAATTCGCCGAGAATACCGTATTTCGcc                                                                 >  2:228545/1‑140 (MQ=255)

                                                               tCAGCCAGCACACCACCGGCTACGGAACCGAGCAAAATCGCCGCTATGGTAGAAGCCTCCATTAAACCGTTAGCTTTCACTAACTTACTACCCGTGGTTAATTCGCCGAGAATACCGTATTTCGCCGGTGAATAGGCTgc                                                   >  1:7642/1‑140 (MQ=255)

                                                               tCAGCCAGCACACCACCGGCTACGGAACCGAGCAAAATCGCCGCTATGGTAGAAGCCTCCATTAAACCGTTAGCTTTCACTAACTTACTACCCGTGGTTAATTCGCCGAGAATACCGTATTTCGCCGGTGAATAGGCTgc                                                   >  2:66919/1‑140 (MQ=255)

                                                                            caccGGCTACGGAACCGAGCAAAATCGCCGCTATGGTAGAAGCCTCCATTAAACCGTTAGCTTTCACTAACTTACTACCCGTGGTTAATTCGCCGAGAATACCGTATTTCGCCGGTGAATAGGCTGCAGCACCAAcaccc                                      >  2:221989/1‑140 (MQ=255)

                                                                                 gCTACGGAACCGAGCAAAATCGCCGCTATGGTAGAAGCCTCCATTAAACCGTTAGCTTTCACTAACTTACTACCCGTGGTTAATTCGCCGAGAATACCGTATTTCGCCGGTGAATAGGCTGCAGCACCAACACCCACCAg                                 >  2:466234/1‑140 (MQ=255)

                                                                                             aGCAAAATCGCCGCTATGGTAGAAGCCTCCATTAAACCGTTAGCTTTCACTAACTTACTACCCGTGGTTAATTCGCCGAGAATACCGTATTTCGCCGGTGAATAGGCTGCAGCACCAACACCCACCAGCGTATAGCCgag                     >  2:342543/1‑140 (MQ=255)

                                                                                               cAAAATCGCCGCTATGGTAGAAGCCTCCATTAAACCGTTAGCTTTCACTAACTTACTACCCGTGGTTAATTCGCCGAGAATACCGTATTTCGCCGGTGAATAGGCTGCAGCACCAACACCCACCAGCGTATAGCCGAGaa                   >  1:342710/1‑140 (MQ=255)

                                                                                                     cgccgcTATGGTAGAAGCCTCCATTAAACCGTTAGCTTTCACTAACTTACTACCCGTGGTTAATTCGCCGAGAATACCGTATTTCGCCGGTGAATAGGCTGCAGCACCAACACCCACCAGCGTATAGCCGAGAAACGGAt             <  1:228545/140‑1 (MQ=255)

                                                                                                          cTATGGTAGAAGCCTCCATTAAACCGTTAGCTTTCACTAACTTACTACCCGTGGTTAATTCGCCGAGAATACCGTATTTCGCCGGTGAATAGGCTGCAGCACCAACACCCACCAGCGTATAGCCGAGAAACGGATTGATa        <  2:342710/140‑1 (MQ=255)

                                                                                                                tAGAAGCCTCCATTAAACCGTTAGCTTTCACTAACTTACTAGCCGTGGTTAATTCGCCGAGAATACCGTATTTCGCCGGTGAATAGGCTGCAGCACCAACACCCACCAGCGTATAGCCGAGAAACGGATTGATACCAAAg  <  1:536579/140‑1 (MQ=255)

TTGGCAACGACCGCACCACCGTAGGCCAGTGCGCATGCGGCCAGGGCGACGAGGACATGCCAGTCAGCCAGCACACCACCGGCTACGGAACCGAGCAAAATCGCCGCTATGGTAGAAGCTTCCATTAAACCGTTAGCTTTCACTAACTTACTACCCGTGGTTAATTCGCCGAGAATACCGTATTTCGCCGGTGAATAGGCTGCAGCACCAACACCCACCAGCGTATAGCCGAGAAACGGATTGATACCAAAG  >  NC_000913/2973321‑2973572

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