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 F17 I0 R2
|
278 |
43.2 |
2215644 |
94.6% |
2095999 |
61.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,697,632 |
A→G |
17.6% |
Y195C (TAT→TGT) |
yfhR → |
predicted peptidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,697,632 | 0 | A | G | 17.6%
| 111.7
/ 20.0
| 51 | Y195C (TAT→TGT) | yfhR | predicted peptidase |
| Reads supporting (aligned to +/- strand): ref base A (20/22); new base G (4/5); total (24/27) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTGGATGTTATTGGTCGGGGTGATCGTGAAGGCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGCCAACCAAATGATCCCCGGCAGTGGCTACTTACTTGATGAGAGTTACAGCGGCGAAAAT > minE/1697562‑1697702
|
cTGGATGTTATTGGTCGGGGTGATCGTGAAGGCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTa > 1:1155465/1‑71 (MQ=255)
cTGGATGTTATTGGTCGGGGTGATCGTGAAGGCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTa > 1:1958783/1‑71 (MQ=255)
cTGGATGTTATTGGTCGGGCTGATCGTGAAGGCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTa > 1:1952377/1‑71 (MQ=255)
ggATGTTATTGGTCGGGGTGATCGTGAAGGCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTAt > 1:1899678/1‑70 (MQ=255)
ttGGTCGGGGTGATCGTGAAGGCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTGTGCAAcc < 1:1421448/68‑1 (MQ=255)
ggggTGATCGTGAATGCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGccaac > 1:2016473/1‑71 (MQ=255)
ggggTGATCGTGAAGGCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGccaac > 1:520267/1‑71 (MQ=255)
ggTGATCGTGAAGGCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGccaacca < 1:1947677/71‑1 (MQ=255)
ggTGATCGTGAAGGCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGccaacca < 1:1723325/71‑1 (MQ=255)
tGATCGTGAAGGCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGCCAACCaaa < 1:2111981/71‑1 (MQ=255)
aTCGTGAAGGCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGccaaccaa < 1:1046107/68‑1 (MQ=255)
aTCGTGAAGGCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGccaaccaa < 1:476003/68‑1 (MQ=255)
aTCGTGAAGGCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGCCAACCAAATg < 1:1052318/71‑1 (MQ=255)
tCGTGAAGGCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTGTGCAACCATCGCCAACCaaa < 1:2130633/68‑1 (MQ=255)
tCGTGAAGGCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGc < 1:2180468/51‑1 (MQ=255)
tCGTGAAAGCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTGTGCAACCATCGCCAACCaaa < 1:230904/68‑1 (MQ=255)
cGTGAAGGCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGCCAACCAAATGAt > 1:1310970/1‑71 (MQ=255)
aaGGCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCAt > 1:1565124/1‑52 (MQ=255)
aaGGCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCAt > 1:714537/1‑52 (MQ=255)
aGGCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCAt > 1:1246717/1‑51 (MQ=255)
aGGCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCAt > 1:847013/1‑51 (MQ=255)
ggCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGCCAACCAAATGATCCCCgg < 1:1005538/71‑1 (MQ=255)
gCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGCCAACCAAATGATCCCCGGc < 1:879349/71‑1 (MQ=255)
aTACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGCCAACCAAATGATCCCCGGCAg < 1:745853/71‑1 (MQ=255)
aTACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGCCAACCAAATGATCCCCGGCAg < 1:1258869/71‑1 (MQ=255)
tACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCAt < 1:1542108/46‑1 (MQ=255)
cGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGCCAACCAAATGATCCCCGGCAg > 1:250138/1‑68 (MQ=255)
cGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGCCAACCAAATGATCCCCGGCAGTgg > 1:1869539/1‑71 (MQ=255)
cGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGCCAACCAAATGATCCCCGGCAGTgg > 1:1866996/1‑71 (MQ=255)
cGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATAGccaacca > 1:900866/1‑53 (MQ=255)
ggTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGccaacca < 1:1254246/48‑1 (MQ=255)
ggTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGccaacca < 1:746517/48‑1 (MQ=255)
ggTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGccaacca < 1:892667/48‑1 (MQ=255)
gTGATCCTCGACTCCACATTTGCCTCTTGTGCAACCATCGCCAACCAAATGATCCCCGGCa > 1:460587/1‑61 (MQ=255)
tGATCCTCGACTCCACATTTGCCTCTTGTGCAACCATCGCCAACCAAATGATCCCCGGCAGTGGCtactta > 1:1821073/1‑71 (MQ=255)
tCCTCGACTCCACATTTGCCTCTTATGCAACCATCGccaacca < 1:1450717/43‑1 (MQ=255)
tCCTCGACTCCACATTTGCCTCTTATGCAACCATCGCCAACCAAATGATCCCCGGCAGTGGCTacttactt < 1:1593014/71‑1 (MQ=255)
cTCGACTCCACATTTGCCTCTTGTGCAACCATCGccaaccaa < 1:85092/42‑1 (MQ=255)
cGACTCCACATTTGCCTCTTATGCAACCATCGCCAACCAAATGATCCCCGGCAGTGGCTACTTACTtgat > 1:1155572/1‑70 (MQ=255)
gACTCCACATTTGCCTCTTGTGCAACCATCGCCAACCAAATGATCCCCGGCAGTGGCTACTTACTtgat > 1:265719/1‑69 (MQ=255)
gACTCCACATTTGCCTCTTGTGCAACCATCGCCAACCAAATGATCCCCGGCAGTGGCTACTTACTtgat > 1:462372/1‑69 (MQ=255)
gACTCCACATTTGCCTCTTATGCAACCATCGCCAACCAAATGATCCCCGGCAGTGGCTACTTACTtgatga < 1:231959/71‑1 (MQ=255)
gACTCCACATTTGCCTCTTATGCAACCATCGCCAACCAAATGATCCCCGGCAGTGGCTACTTACTtgatga < 1:1065747/71‑1 (MQ=255)
gACTCCACATTTGCCTCTTATG‑AACCATCGCCAACCAAATGATCCCCGGCAGTGGCTACTTACTtgatga < 1:1340543/70‑1 (MQ=255)
aCTCCACATTTGCCTCTTATGCAACCATCGCCAACCAAATGATCCCCGGCAGTg < 1:962116/54‑1 (MQ=255)
tCCACATTTGCCTCTTGTGCAACCATCGCCAACCAAATg < 1:307240/39‑1 (MQ=255)
tCCACATTTGCCTCTTATGCAACCATCGCCAACCAAATGATCCCCGGCAGTGGCTACTTACTtgatg > 1:1744803/1‑67 (MQ=255)
cacaTTTGCCTCTTATGCAACCATCGCCAACCAAATGATCCCCGGCAGTGGCtacttac > 1:780131/1‑59 (MQ=255)
cacaTTTGCCTCTTATGCAACCATCGCCAACCAAATGATCCCCGGCAGTGGCTacttactt > 1:545347/1‑61 (MQ=255)
acaTTTGCCTCTTATGCAACCATCGCCAACCAAATGATCCCCGGCAGTGGCTACTTACTTGATGAGAGTTa < 1:284642/71‑1 (MQ=255)
tttGCCTCTTATGCAACCATCGCCAACCAAATGATCCCCgg > 1:1855531/1‑41 (MQ=255)
tttGCCTCTTATGCAACCATCGCCAACCAAATGATCCCCgg > 1:1556266/1‑41 (MQ=255)
tctTATGCAACCATCGCCAACCAAATGATCCCCGGCAGTGGCTACTTACTTGATgaga > 1:431660/1‑58 (MQ=255)
ctTATGCAACCATCGCCAACCAAATGATCCCCGGCAGTGGCTACTTACTTGATGAGAGTTACAgcggcg > 1:75044/1‑69 (MQ=255)
aTGCAACCATCGCCAACCAAATGATCCCCGGCAGTGGCTACTTACTtga > 1:689597/1‑49 (MQ=255)
aTGCAACCATCGCCAACCAAATGATCCCCGGCAGTGGCTACTTACTTGATGAGAGTTACAGCGGCGaaaa > 1:1908281/1‑70 (MQ=255)
aTGCAACCATCGCCAACCAAATGATCCCCGGCAGTGGCTACTTACTTGATGAGAGTTACAGCGGCGAAAAt > 1:1580448/1‑71 (MQ=255)
|
CTGGATGTTATTGGTCGGGGTGATCGTGAAGGCATACGTGCGGTGATCCTCGACTCCACATTTGCCTCTTATGCAACCATCGCCAACCAAATGATCCCCGGCAGTGGCTACTTACTTGATGAGAGTTACAGCGGCGAAAAT > minE/1697562‑1697702
|
| 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
