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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,258,382 |
A→T |
19.4% |
intergenic (+53/+112) |
yecP → / ← torZ |
predicted methyltransferase/trimethylamine N‑oxide reductase system III, catalytic subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,258,382 | 0 | A | T | 19.4%
| 141.1
/ 27.3
| 63 | intergenic (+53/+112) | yecP/torZ | predicted methyltransferase/trimethylamine N‑oxide reductase system III, catalytic subunit |
| Reads supporting (aligned to +/- strand): ref base A (24/24); new base T (5/7); total (31/32) |
| Fisher's exact test for biased strand distribution p-value = 7.50e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.75e-01 |
ATTGCGCGCAAGCCGTAAAGGTCTGGTATTACTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTA > minE/1258312‑1258449
|
aTTGCGCGCAAGCCGTAAAGGTCTGGTATTACTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACaaaa > 1:3021810/1‑71 (MQ=255)
ttGCGCGCAAGCCGTAAAGGTCTGGTATTACTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAAc > 1:1390246/1‑71 (MQ=255)
tGCGCGCAAGCCGTAAAGGTCTGGTATTACTGCCGGATGCGGCGTGAACGCCTTATCTGGCCTACAAAAcc > 1:308100/1‑71 (MQ=255)
gcgcgcAAGCCGTAAAGGTCTGGTATTACTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAACCt > 1:2389357/1‑71 (MQ=255)
cgcgcAAGCCGTAAAGGTCTGGTATTACTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAACCt < 1:3302930/70‑1 (MQ=255)
cgcgcAAGCCGTAAAGGTCTGGTATTACTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAACCt < 1:3626820/70‑1 (MQ=255)
gcAAGCCGTAAAGGTCTGGTATTACTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAACCTTGc > 1:3292417/1‑70 (MQ=255)
aaGGTCTGGTATTACTGCCGGATGCGGCGTGAACGCCTTATCCGGGCTACAAAACCTTGCTAATTCAata > 1:2532500/1‑70 (MQ=255)
aaGGTCTGGTATTACTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAACCTTGCTAAt > 1:1865022/1‑64 (MQ=255)
aaGGTCTGGTATTACTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAACCTTGCTAATTCAatat < 1:3380771/71‑1 (MQ=255)
aaGGTCTGGTATTACTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAACCTTGCTAATTCAata > 1:745899/1‑70 (MQ=255)
aaGGTCTGGTATTACTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAACCTTGCTAATTCAata > 1:2257478/1‑70 (MQ=255)
ggTCTGGTATTACTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAACCTTGCTAATTCAatatat < 1:1030772/71‑1 (MQ=255)
gTATTACTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAgg > 1:3930305/1‑71 (MQ=255)
cTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTa < 1:3881990/70‑1 (MQ=255)
ccGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGt < 1:3215171/70‑1 (MQ=255)
ccGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTa < 1:2321149/71‑1 (MQ=255)
ggATGCGGCGTGAACGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAg > 1:2153568/1‑70 (MQ=255)
gATGCGGCGTGAACGCCTTATCCGACCCACAAAGTCTTGCAAAATCAATAAATTGCAGGAACGATGTAGGc < 1:1830028/71‑1 (MQ=2)
aTGCGGCGTGAACGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGcc > 1:2502827/1‑71 (MQ=255)
aTGCGGCGTGAACGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGcc > 1:1344960/1‑71 (MQ=255)
gcggcgTGAACGCCTTATCCGGCCTACAAATCCTTGCGAATTCa < 1:40830/44‑1 (MQ=11)
gcggcgTGAACGCCTTATCCGGCCTACAAATCCTTGCGAATTCa < 1:2575894/44‑1 (MQ=11)
gcggcgTGAACGCCTTATCCGGCCTACAAAACCTTGCTAATTCa > 1:810565/1‑44 (MQ=255)
gcggcgTGAACGCCTTATCCGGCCTACAAAACCTTGCTAATTCa > 1:1357186/1‑44 (MQ=255)
ccggcgTGAACGCCTTATCCGGCCTACAAAACCTTGCTAATTCa < 1:1813584/43‑1 (MQ=255)
cgTGAACGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGAc > 1:2948248/1‑55 (MQ=255)
cgTGAACGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGAt > 1:1902686/1‑69 (MQ=255)
cgTGAACGCCTTATCCGACCCACAAAGTCTTGCAAAATCAATAAATTGCAGGAACGATGTAAGCCTGAt > 1:1839011/1‑69 (MQ=2)
gTGAACGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAg < 1:2098586/71‑1 (MQ=255)
tGAACGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATg < 1:28413/57‑1 (MQ=255)
tGAACGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGt < 1:2089834/58‑1 (MQ=255)
gAACGCCTTATCCGACCCACAAAGTCTTGCAAAATCAATAAATTGCAGGAACGATGTAGGCCTGATAAGcg > 1:846600/1‑70 (MQ=2)
aaCGCCTTATCCGGCCTACAAATCCTTGCGAATTCAATATATTgt < 1:2042568/45‑2 (MQ=11)
aaCGCCTTATCCGGCCTACAAAACCTTGCTAATTCAatatat < 1:138719/42‑1 (MQ=255)
aaCGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTAt > 1:3255345/1‑54 (MQ=255)
aaCGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTAt > 1:3302282/1‑54 (MQ=255)
aaCGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCa < 1:1560218/70‑1 (MQ=255)
aCGCCTTATCCGGCCTACAAATCCTTGCGAATTCAATATATTg < 1:1621388/43‑1 (MQ=14)
aCGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCa < 1:440427/45‑1 (MQ=255)
aCGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCa < 1:3812904/45‑1 (MQ=255)
cGCCTTATCCGGCCTACAAATCCTTGCGAATTCAATATATTGTATGGA‑AATTCAGGCCTGATAAGCGTAgc < 1:3361755/71‑1 (MQ=9)
cGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAg > 1:3384363/1‑71 (MQ=255)
ccTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAgcg > 1:2996392/1‑71 (MQ=255)
cTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAgg < 1:774345/43‑1 (MQ=255)
ttATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATg < 1:2185908/49‑1 (MQ=255)
ttATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATg < 1:2190403/49‑1 (MQ=255)
aTCCGGCCTACAAATCCTTGCGAATTCAATATATTGTATGGA‑AATTCAGGCCTGATAAGCGTAGCGCAt > 1:3007148/1‑69 (MQ=9)
aTCCGGCCTACAAATCCTTGCGAATTCAATATATTGTATGGA‑AATTCAGGCCTGATAAGCGTAGCGCAt > 1:2934480/1‑69 (MQ=9)
aTCCGGCCTACAAATCCTTGCGAATTCAATATATTGTATGGA‑AATTCAGGCCTGATAAGCGTAGCGCAt < 1:2422172/69‑1 (MQ=9)
aTCCGGCCTACAAATCCTTGCGAATTCAATATATTGTATGGA‑AATTCAGGCCTGATAAGCGTAGCGCAt < 1:1781149/69‑1 (MQ=9)
aTCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAgg < 1:2323138/40‑1 (MQ=255)
tCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCAt > 1:714290/1‑69 (MQ=255)
ggCCTACAAATCCTTGCGAATTCAATATATTGTATGGA‑AATTCAGGCCTGATAAGAGTAGCGCATCAGGct > 1:3661923/1‑70 (MQ=9)
gCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATg < 1:2533442/42‑1 (MQ=255)
gCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATg < 1:527739/42‑1 (MQ=255)
gCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAgg > 1:3797587/1‑69 (MQ=255)
ccTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAg > 1:2191031/1‑71 (MQ=255)
tACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAgcg < 1:2401853/59‑1 (MQ=255)
tACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAgcg < 1:1502178/59‑1 (MQ=255)
aCAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAg < 1:1940867/51‑1 (MQ=255)
cAAATCCTTGCGAATTCAATATATTGTATGGA‑AATTCAGGCCTGATAAg > 1:3090375/1‑49 (MQ=9)
cAAATCCTTGCGAATTCAATATATTGTATGGA‑AATTCAGGCCTGATAAg > 1:58022/1‑49 (MQ=9)
cAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCa > 1:2874553/1‑62 (MQ=255)
aaaaCCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTa > 1:3594583/1‑71 (MQ=255)
aaaCCTTGCTAATTCAATATATTGCAGGGACTATg < 1:1095669/35‑1 (MQ=255)
|
ATTGCGCGCAAGCCGTAAAGGTCTGGTATTACTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTA > minE/1258312‑1258449
|
| 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
