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
A5 F28 I3 R1	375	42.1	2927644	71.4%	2090337	57.4

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	W3110S.gb	3,502,990	T→C	intergenic (‑144/+185)	katG ← / ← metF	catalase/hydroperoxidase HPI(I)/5,10‑methylenetetrahydrofolate reductase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	W3110S.gb	3,502,990	0	T	C	100.0%	225.6 / NA	66	intergenic (‑144/+185)	katG/metF	catalase/hydroperoxidase HPI(I)/5,10‑methylenetetrahydrofolate reductase
Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (0/66); total (0/66)

ATTGTTGGTTAAAGAGATGTAGATCAAATTGATCTTAATTAAGCTTTTTTGATTATGTCCGAATTCGGACAAATGCTTTATAAAAAAGGGTTTTAGCTTCATATCC  >  W3110S.gb/3502946‑3503051

atTGTTGGTTAAAGAGATGTTGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:1722427/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:2893994/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:393013/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:352853/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:351987/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:350308/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:348768/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:309232/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:305785/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:1014669/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:2878477/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:2809665/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:2766702/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:2751713/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:2639615/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:2633719/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:2577306/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:413210/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:544019/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:548337/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:552124/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:604846/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:612724/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:62766/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:630557/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:634139/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:740467/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:744058/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:815050/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:864290/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:887585/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:983769/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:1765719/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:1256733/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:1312521/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:1354708/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:1181296/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:1366774/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:1406990/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:1408881/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:1148526/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:156307/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:1592501/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:1595715/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:1689058/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:1712781/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:2409175/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:1764535/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:1769386/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:1784386/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:1788779/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:1966980/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:2030233/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:2157965/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:2178704/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:2253486/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:2259319/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:235011/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:2362642/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:1040704/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGaa                                                       <  1:196637/53‑2 (MQ=255)

atTGTTGGTTAAAGAGATGTAGATCAAATTCATCGTAATTAAGCCTTTATGag                                                       <  1:2650730/53‑2 (MQ=255)

 ttgttgGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:407482/52‑2 (MQ=255)

 ttgttgGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:674184/52‑2 (MQ=255)

 ttgttgGTTAAAGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:2377748/52‑2 (MQ=255)

           aaGAGATGTAGATCAAATTGATCGTAATTAAGCCTTTATGag                                                       <  1:1477183/42‑2 (MQ=255)

                                            ttttttGATTATGTCCGAATTCGGACAAATGCTTTATAAAAAAGGGTTTTAGCTTCATATcc  <  1:947867/62‑1 (MQ=255)

ATTGTTGGTTAAAGAGATGTAGATCAAATTGATCTTAATTAAGCTTTTTTGATTATGTCCGAATTCGGACAAATGCTTTATAAAAAAGGGTTTTAGCTTCATATCC  >  W3110S.gb/3502946‑3503051

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 32 ≤` `ATCG/ATCG` `< 36 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A