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 |
|
A1 F8 I0 R1
|
311 |
50.1 |
4085234 |
95.9% |
3917739 |
60.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,128,408 |
T→C |
33.4% |
D155G (GAC→GGC) |
yghO ← |
predicted DNA‑binding transcriptional regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,128,408 | 0 | T | C | 33.4%
| 46.1
/ 40.8
| 46 | D155G (GAC→GGC) | yghO | predicted DNA‑binding transcriptional regulator |
| Reads supporting (aligned to +/- strand): ref base T (13/17); new base C (10/5); total (23/23) |
| Fisher's exact test for biased strand distribution p-value = 2.08e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 5.74e-01 |
CCCAGTTGTTCAATATGCGCGGCATACCACGGTTTGCCGTGTGGCATCATCGCACAGGGTGGTGTGTCAAAACCTTCAATCAGTAATCCGCTTTCCTGATTGATATTCAGGCTGAAAGGACCGCTGATCTTA > W3110S.gb/3128342‑3128473
|
cccAGTTGTTCAATATGCGCGGCATACCACGGTTTGCCGTGTGGCATCATCGCACAGGGTGGTGTGTCaaa < 1:1776679/71‑1 (MQ=255)
aGTTGTTCAATATGCGCGGCATACCACGGTTTGCCGTGTGGCTTCATCGCACAGGGTGGTGTGTCAAAAcc > 1:623287/1‑71 (MQ=255)
aGTTGTTCAATATGCGCGGCATACCACGGTTTGCCGTGTGGCATCATCGCACAGGGTGGTGTGTCAAAAcc > 1:3539717/1‑71 (MQ=255)
aGTTGTTCAATATGCGCGGCATACCACGGTTTGCCGTGTGGCATCATCGCACAGGGTGGTGTGTCAAAAcc > 1:799994/1‑71 (MQ=255)
tgttCAATATGCGCGGCATACCACGGTTTGCCGTGTGGCATCATCGCACAGGGTGGTGTGTCAAAACCtt > 1:1723879/1‑70 (MQ=255)
tgttCAATATGCGCGGCATACCACGGTTTGCCGTGTGGCATCATCGCACAGGGTGGTGTGCCAAAACCtt > 1:3813304/1‑70 (MQ=255)
tgttCAATATGCGCGGCATACCACGGTTTGCCGTGTGGCATCATCGCACAGGGTGGTGTGCCAAAACCtt > 1:320988/1‑70 (MQ=255)
tatGCGCGGCATACCACGGTTTGCCGTGTGGCATCATCGCACAGGGTGGTGTGCCAAAACCTTCAATCAg > 1:3181967/1‑70 (MQ=255)
cgcgGCATACCACGGTTTGCCGTGTGGCATCATCGCACAGGGTGgtgtgt > 1:3999564/1‑50 (MQ=255)
cgcgGCATACCACGGTTTGCCGTGTGGCATCATCGCACAGGGTGgtgtgt > 1:383929/1‑50 (MQ=255)
cgcgGCATACCACGGTTTGCCGTGTGCCATCATCGCACAGGGTGGTGTGCCAAAACCTTCAATCAGTAATc < 1:2762090/71‑1 (MQ=255)
cATACCACGGTTTGCCGTGTGGCATCATCGCACAGGGTGGTGTGTCAAAACCTTCAATCAGTAATCCGCtt < 1:541845/71‑1 (MQ=255)
ccACGGTTTGCCGTGTGGCATCATCGCACAGGGTGGTGTGTCAAAACCTTCAATCAGTAATCCGCTTTcc < 1:304191/70‑1 (MQ=255)
ccACGGTTTGCCGTGTGGCATCATCGCACAGGGTGGTGTGTCAAAACCTTCAATCAGTAATCCGCTTTcc < 1:2994320/70‑1 (MQ=255)
ccACGGTTTGCCGTGTGGCATCATCGCACAGGGTGGTGTGTCAAAACCTTCAATCAGTAATCCGCTTTCCt > 1:2480924/1‑71 (MQ=255)
ccACGGTTTGCCGTGTGGCATCATCGCACAGGGTGGTGTGCCAAAACCTTCAATCAGTAATCCGCTTTCCt > 1:3938280/1‑71 (MQ=255)
cACGGTTTGCCGTGTGGCATCATCGCACAGGGTGGTGTGCCAAAACCTTCAATCAGTAATCCGCTTTCCtg < 1:828963/71‑1 (MQ=255)
aCGGTTTGCCGTGTGGCATCATCGCACAGGGTGgtgtgt > 1:3526874/1‑39 (MQ=255)
aCGGTTTGCCGTGTGGCATCATCGCACAGGGTGGTGTGTCAAAACCTTCAATCAGTaa > 1:1940294/1‑58 (MQ=255)
aCGGTTTGCCGTGTGGCATCATCGCACAGGGTGGTGTGCCAAAACCTTCAATCAGTAATCCGCTTTCCtga > 1:1646654/1‑71 (MQ=255)
aCGGTTTGCCGTGTGGCATCATCGCACAGGGTGGTGTGCCAAAACCTTCAATCAGTAATCCGCTTTCCtga > 1:1384907/1‑71 (MQ=255)
gTTTGCCGTGTGGCATCATCG‑‑CAGGGTGGTGTGCCAAAACCTTCAATCAGTAATCCGCTTTCCtgatt > 1:1053158/1‑68 (MQ=255)
gCCGTGTGGCATCATCGCACAGGGTGGTGTGCCAAAACCTTCAATCAGTAATCCGCTTTCCTGATTGata < 1:3427147/70‑1 (MQ=255)
tgtgGCATCATCGCACAGGGTGGTGTGTCAAAACCTTCAATCAGTAATCCGCTTTCCTGATTGATATTCAg < 1:1215144/71‑1 (MQ=255)
gCATCATCGCACAGGGTGGTGTGCCAAAACCTTCAATCAGTAATCCGCTTTCCTGATTGATATTCAGGCt > 1:1596923/1‑70 (MQ=255)
atcatcGCACAGGGTGGTGTGTCAAAACCTTCAATCAGTAATCCGCTTTCCTGATTGATATTCAGGCTGaa < 1:2921785/71‑1 (MQ=255)
tcatcGCACAGGGTGGTGTGTCAAAACCTTCAATCAGTAATCCGCTTTCCt < 1:2483839/51‑1 (MQ=255)
tcatcGCACAGGGTGGTGTGTCAAAACCTTCAATCAGTAATCCGCTTTCCt < 1:3980456/51‑1 (MQ=255)
tcatcGCACAGGGTGGTGTGGCAAAACCTTCAATCAGTAATCCGCTTTCCt < 1:1387962/51‑1 (MQ=255)
atcGCAGAGGGTGGTGTGTCAAAACCTTCAATCAGTAATCCGCTTTCCTGATTGATATTCAGGCTGAAAg > 1:523828/1‑70 (MQ=255)
atcGCACAGGGTGGTGTGTCAAAACCTTCAATCAGTAATCCGCTTTCCtgat > 1:2123484/1‑52 (MQ=255)
atcGCACAGGGTGGTGTGTCAAAACCTTCAATCAGTAATCCGCTTTCCtga > 1:884721/1‑51 (MQ=255)
atcGCACAGGGTGGTGTGTCAAAACCTTCAATCAGTAATCCGCTTTCCTGATTGATATTCAGGCTGAAAg > 1:1863046/1‑70 (MQ=255)
atcGCACAGGGTGGTGTGTCAAAACCTTCAATCAGTAATCCGCTTTCCTGATTGATATTCAGGCTGAAAg > 1:3688340/1‑70 (MQ=255)
atcGCACAGGGTGGTGTGCCAAAACCTTCAATCAGTAATc > 1:3857043/1‑40 (MQ=255)
atcGCACAGGGTGGTGTGCCAAAACCTTCAATCAGTAATCCGCTTTCCTGATTGATATTCAGGCTGAAAg > 1:3383146/1‑70 (MQ=255)
atcGCACAGGGT‑GTGTGTCAAAACCTTCAATCAGTAATCCGCTTTCCtga > 1:3511569/1‑50 (MQ=39)
cGCACAGGGTGGTGTGTCAAAACCTTCAATCAGTAATCCGCTTTCCTGATTGATATTCAGGCTGAAAGGAc > 1:1855888/1‑71 (MQ=255)
caGGGTGGTGTGTCAAAACCTTCAATCAGTAATCCGCttt < 1:4072750/40‑1 (MQ=255)
caGGGTGGTGTGTCAAAACCTTCAATCAGTAATCCGCttt < 1:405881/40‑1 (MQ=255)
caGGGTGGTGTGTCAAAACCTTCAATCAGTAATCCGCttt < 1:4044453/40‑1 (MQ=255)
caGGGTGGTGTGTCAAAACCTTCAATCAGTAATCCGCttt < 1:2165596/40‑1 (MQ=255)
caGGGTGGTGTGTCAAAACCTTCAATCAGTAATCCGCttt < 1:2506359/40‑1 (MQ=255)
caGGGTGGTGTGTCAAAACCTTCAATCAGTAATCCGCtt < 1:956813/39‑1 (MQ=255)
caGGGTGGTGTGTCAAAACCTTCAATCAGTAATCCGCtt < 1:2312630/39‑1 (MQ=255)
caGGGTGGTGTGTCAAAACCTTCAATCAGGAATCCGCttt < 1:328031/40‑1 (MQ=255)
aGGGTGGTGTGCCAAAACCTTCAATCAGTAATCCGCTTTCCTGATTGATATTCAGGCTGAAAGGACCGCTg < 1:3302415/71‑1 (MQ=255)
ggtggtGTGTCAAAACCTTCAATCAGTAATCCGCTTTCCt < 1:2614750/40‑1 (MQ=255)
tggtgTGCCAAAACCTTCAATCAGTAATCCGCTTTCCTGATTGATAtt < 1:868447/48‑1 (MQ=255)
gtgtgtCAAAACCTTCAATCAGTAATCCGCTTTCCTGATTGATATTCAGGCTGAAAGGACCGCTGATCTTa < 1:381596/71‑1 (MQ=255)
gtgtgcCAAAACCTTCAATCAGTAATCCGCTTTCCtgattga > 1:2131900/1‑42 (MQ=255)
tCAAAACCTTCAATCAGTAATACGCTTTCCTGATTGatat > 1:2688339/1‑40 (MQ=255)
|
CCCAGTTGTTCAATATGCGCGGCATACCACGGTTTGCCGTGTGGCATCATCGCACAGGGTGGTGTGTCAAAACCTTCAATCAGTAATCCGCTTTCCTGATTGATATTCAGGCTGAAAGGACCGCTGATCTTA > W3110S.gb/3128342‑3128473
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
