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 F21 I0 R2
|
316 |
65.6 |
5147759 |
97.4% |
5013917 |
60.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
862,250 |
G→T |
27.9% |
T260N (ACT→AAT) |
ybiW ← |
predicted pyruvate formate lyase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 862,250 | 0 | G | T | 27.9%
| 89.5
/ 16.2
| 39 | T260N (ACT→AAT) | ybiW | predicted pyruvate formate lyase |
| Reads supporting (aligned to +/- strand): ref base G (16/12); new base T (3/8); total (19/20) |
| Fisher's exact test for biased strand distribution p-value = 1.55e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGCAGCGCCTGCCAGAAAGTCTGCGGCGGCTGGTGGGCGATAAGATCGCAGTTTTCTGCCATCGCCAGCAGTTCATCGCGACG > W3110S.gb/862181‑862314
|
gAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGCAGCGCCTGCCAGAAAGt > 1:4180503/1‑71 (MQ=255)
gAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGCAGCGCCTGCCAGAAAGt > 1:2939907/1‑71 (MQ=255)
aCCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGCAGCGCCTGCCAGAAATTCTgcg > 1:2928988/1‑71 (MQ=255)
cGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGCAGCGCCTGCCAGAAATTc > 1:3002618/1‑65 (MQ=255)
aGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGCAGCGCCTGCCAGAAAGTCTGCGGCGGCt > 1:4739060/1‑71 (MQ=255)
aGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGCAGCGCCTGCCAGAAAGTCTGCGGCGGCt > 1:2757309/1‑71 (MQ=255)
aGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGCAGCGCCTGCCAGAAAGTCTGCGGCGGCt > 1:894781/1‑71 (MQ=255)
ttCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGCAGCGCCTGCCAGAAAGTCTGCGGCGGCt < 1:3819038/68‑1 (MQ=255)
ttCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGCAGCGCCTGCCAGAAAGTCTGCGGCGGCt < 1:4917184/68‑1 (MQ=255)
ttCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGCAGCGCCTGCCAGAAAGTCTGCGGCGGCt < 1:3825116/68‑1 (MQ=255)
tCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGCAGCGCCTGCCAGAAAGTCTGCGGCGGCtggtg > 1:2371693/1‑71 (MQ=255)
cGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGCAGCGCCTGCCAGAAATTCTGCGGCGGCtggtgg > 1:2566181/1‑71 (MQ=255)
tGCAAAATCAACTGGATGAAGTAACACAGTTGCAGCGCCTGCCAGAAAGTCTGCGGCGGCt < 1:3361222/61‑1 (MQ=255)
tGCAAAATCAACTGGATGAAGTAACACAGTTGCAGCGCCTGCCAGAAAGTCTGCGGCGGCTTGTGGGCg < 1:2079925/69‑1 (MQ=255)
cAAAATCAACTGGATGAAGTAACACAGTTGCAGCGCCTGCCAGAAAGTCTGCGGCGGCtgg > 1:1414587/1‑61 (MQ=255)
cAAAATCAACTGGATGAAGTAACACAGTTGCAGCGCCTGCCAGAAAGTCTGCGGCGGCtgg > 1:1681076/1‑61 (MQ=255)
cAAAATCAACTGGATGAAGTAACACAGTTGCAGCGCCTGCCAGAAAGTCTGCGGCGGCTGGTGGGCGAt < 1:1069367/69‑1 (MQ=255)
cAAAATCAACTGGATGAAGTAACACAGTTGCAGCGCCTGCCAGAAAGTCTGCGGCGGCTGGTGGGCGAt < 1:1075346/69‑1 (MQ=255)
aaaaTCAACTGGATGAAGTAACACAGTTGCAGCGCCTGCCAGAAATTCTGCGGCGGCTGGTGGGc < 1:5083984/65‑1 (MQ=255)
aaaTCAACTGGATGAAGTAACACAGTTGCAGCGCCTGCCAGAAAGTCTGCGGCGGCTGGTGGGCGAt > 1:1555455/1‑67 (MQ=255)
aaTCAACTGGATGAAGTAACACAGTTGCAGCGCCTGCCAGAAATTCTGCGGCGGCTGGTGGGCGATAAGAt < 1:3959581/71‑1 (MQ=255)
cTGGATGAAGTAACACAGTTGCAGCGCCTGCCAGAAATTCTGCGGCGGCTGGTGGGCGATAAGATCGCAGt < 1:4767379/71‑1 (MQ=255)
gATGAAGTAACACAGTTGCAGCGCCTGCCAGAAATTCTGCGGCGGCTGGTGGGCGATAAGATCGCAGtttt < 1:4221449/71‑1 (MQ=255)
gATGAAGTAACACAGTTGCAGCGCCTGCCAGAAATTCTGCGGCGGCTGGTGGGCGATAAGATCGCAGtttt < 1:1176643/71‑1 (MQ=255)
aTGAAGTAACACAGTTGCAGCGCCTGCCAGAAAGTCTGCGGCGGCTGGTGGGCGATAAGATCGCAGTTTTc < 1:1777543/71‑1 (MQ=255)
aGTAACACAGTTGCAGCGCCTGCCAGAAAGTCTGCGGCGGCTGGTGGGCGATAAGATCGCAGTTTTCTGc > 1:2630387/1‑70 (MQ=255)
gTAACACAGTTGCAGCGCCTGCCAGAAAGTCTGCGGCGGCTGGTGGGCGAt < 1:3079561/51‑1 (MQ=255)
aaCACAGTTGCAGCGCCTGCCAGAAAGTCTGCGGCGGCtg > 1:2988339/1‑40 (MQ=255)
acacAGTTGCAGCGCCTGCCAGAAATTCTGCGGCGGCTGGTGGGCGATAAGATCGCAGTTTTCTGCCATc < 1:4919790/70‑1 (MQ=255)
tGCAGCGCCTGCCAGAAAGTCTGCGGCGGCTGGTGGGCGATAAGAt > 1:4182726/1‑46 (MQ=255)
tGCAGCGCCTGCCAGAAAGTCTGCGGCGGCTGGTGGGCGATAAGAt > 1:3331755/1‑46 (MQ=255)
tGCAGCGCCTGCCAGAAAGTCTGCGGCGGCTGGTGGGCGATAAGAt > 1:896120/1‑46 (MQ=255)
gCAGCGCCTGCCAGAAAGTCTGCGGCGGCTGGTGGGCGATAAGATCGCAGTTTTCTGCCATCGCcagcatt > 1:4456941/1‑69 (MQ=255)
cAGCGCCTGCCAGAAAGTCTGCGGCGGCTGGTGGGCGATAAGATCGCAGTTTTCTGCCATCGCCAGCAGtt < 1:944138/71‑1 (MQ=255)
gcCTGCCAGAAAGTCTGCGGCGGCTGGTGGGCGATAAGATCGCa > 1:3127963/1‑44 (MQ=255)
gCCAGAAAGTCTGCGGCGGCTGGTGGGCGATAAGATCGCAGTTTTCTGCCATCGCCAGCAGtt < 1:4708036/63‑1 (MQ=255)
gCCAGAAAGTCTGCGGCGGCTGGTGGGCGATAAGATCGCAGTTTTCTGCCATCGCCAGCAGtt < 1:1252993/63‑1 (MQ=255)
cAGAAATTCTGCGGCGGCTGGTGGGCGATAAGATCGCAGTTTTCTGCCATCGCCAGCAGTTCATCGCGACg < 1:2586905/71‑1 (MQ=255)
cAGAAATTCTGCGGCGGCTGGTGGGCGATAAGATCGCAGTTTTCTGCCATCGCCAGCAGTTCATCGCGACg < 1:2091757/71‑1 (MQ=255)
|
GAGTGACCGTTAGATTCGATCTGCAAAATCAACTGGATGAAGTAACACAGTTGCAGCGCCTGCCAGAAAGTCTGCGGCGGCTGGTGGGCGATAAGATCGCAGTTTTCTGCCATCGCCAGCAGTTCATCGCGACG > W3110S.gb/862181‑862314
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 21 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
