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 F1 I0 R1
|
2892 |
75.3 |
5698161 |
66.1% |
3766484 |
59.5 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,258,406 |
G→T |
29.6% |
intergenic (+77/+88) |
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 | 1,258,406 | 0 | G | T | 29.6%
| 176.2
/ 55.7
| 91 | intergenic (+77/+88) | yecP/torZ | predicted methyltransferase/trimethylamine N‑oxide reductase system III, catalytic subunit |
| Reads supporting (aligned to +/- strand): ref base G (36/28); new base T (9/18); total (45/46) |
| Fisher's exact test for biased strand distribution p-value = 6.60e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 4.72e-01 |
GTATTACTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTC > minE/1258337‑1258476
|
gTATTACTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAgg < 1:4004945/71‑1 (MQ=255)
ttACTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGAc > 1:4767619/1‑71 (MQ=255)
ccGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATg > 1:3734384/1‑69 (MQ=255)
ccGGATGCGGCGTGAACGCCTTATCCGACCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATg < 1:4526893/69‑1 (MQ=255)
ggATGCGGCGTGAACGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAgg < 1:3870347/71‑1 (MQ=255)
aTGCGGCGTGAACGCCTTATCCGACCCACAAAGTCTTGCAAAATCAATAAATTGCAGGAACGATGTAGGcc > 1:1312535/1‑71 (MQ=2)
cggcgTGAACGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTg < 1:3147214/70‑1 (MQ=255)
gcgTGAACGCCTTATCCGGCCTACAAATCCTTGCGAATTCAATATATTGTATGGA‑AATTCAGGCCTGATaa < 1:3969092/71‑1 (MQ=2)
cgTGAACGCCTTATCCGGCCTACAAATCCTTGCGAATTCAATATATTGTATGGA‑AATTCAGGCCTGATAAg > 1:2912678/1‑71 (MQ=9)
cgTGAACGCCTTATCCGGCCTACAAATCCTTGCGAATTCAATATATTGTATGGA‑AATTCAGGCCTGATAAg < 1:163709/71‑1 (MQ=9)
cgTGAACGCCTTATCCGACCCACAAAGTCTTGCAAAATCAATAAATTGCAGGAACGATGTAGGCCTGAt > 1:5601232/1‑69 (MQ=2)
cgTGAACGCCTTATCCGACCCACAAAGTCTTGCAAAATCAATAAATTGCAGGAACGATGTAGGCCTGAt > 1:1196526/1‑69 (MQ=2)
gTGAACGCCTTATCCGACCCACAAAGTCTTGCAAAATCAATAAATTGCAGGAACGATGTAgg > 1:4938926/1‑62 (MQ=2)
gTGAACGCCTTATCCGACCCACAAAGTCTTGCAAAATCAATAAATTGCAGGAACGATGTAgg > 1:88908/1‑62 (MQ=2)
tGAACGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATg < 1:3963067/57‑1 (MQ=255)
aaCGCCTTATCCGGCCTACAAATCCTTGCGAATTCAATATATTGTATGGA‑AATTCAGGCCTGATAAGcg > 1:1237008/1‑68 (MQ=9)
aaCGCCTTATCCGGCCTACAAATCCTTGCGAATTCAATATATTGTATGGA‑AATTCAGGCCTGATAAGcg > 1:5304301/1‑68 (MQ=9)
aaCGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAgg > 1:5130665/1‑48 (MQ=255)
aaCGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAgg > 1:4206099/1‑48 (MQ=255)
aaCGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAgg < 1:3962078/48‑1 (MQ=255)
aaCGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCAt < 1:4433128/71‑1 (MQ=255)
aaCGCCTTATCCGACCCACAAAGTCTTGCAAAATCAATAAATTGCAGGAACGATGTAGGCCTGATAAGcg > 1:1345539/1‑69 (MQ=2)
aCGCCTTATCCGGCCTACAAATCCTTGCGAATTCAATATATTGTATGGA‑AATTCAGGCCTGATAAGCGTAg > 1:4359043/1‑71 (MQ=9)
aCGCCTTATCCGACCCACAAAGTCTTGCAAAATCAATAAATTGCAGGAACGATGTAGGCCTGATAAGcg > 1:4030252/1‑68 (MQ=2)
cGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGa > 1:106423/1‑48 (MQ=255)
cGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGa > 1:5654816/1‑48 (MQ=255)
ccTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAgcg > 1:1787019/1‑71 (MQ=255)
ccTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAgcg > 1:3335205/1‑71 (MQ=255)
ttATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAgcg < 1:63454/69‑1 (MQ=255)
ttATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAgcg < 1:955393/69‑1 (MQ=255)
ttATCCGACCCACAAAGTCTTGCAAAATCAATAAATAGCAGGAACGATGTAGGCCTGATa > 1:935178/1‑60 (MQ=2)
aTCCGGCCTACAAATCCTTGCGAATTCAATATATTGTATGGA‑AATTCAGGCCTGATAAGCGTAGCGCAt > 1:1791272/1‑69 (MQ=9)
aTCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCa > 1:4474839/1‑69 (MQ=255)
aTCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCAt > 1:5182346/1‑70 (MQ=255)
aTCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCAt > 1:4121435/1‑70 (MQ=255)
tCCGGCCTACAAATCCTTGCGAATTCAATATATTGTATGGaaa < 1:3417786/43‑3 (MQ=14)
tCCGGCCTACAAATCCTTGCGAATTCAATATATTGTATGGaaa < 1:3424206/43‑3 (MQ=14)
tCCGGCCTACAAATCCTTGCGAATTCAATATATTGTATGGaaa < 1:4037079/43‑3 (MQ=14)
tCCGGCCTACAAATCCTTGCGAATTCAATATATTGTATGGaaa < 1:144553/43‑3 (MQ=14)
tCCGGCCTACAAATCCTTGCGAATTCAATATATTGTATGGA‑AATTCAGGCCTGATAAGCGTAGCGCATCAg < 1:4437046/71‑1 (MQ=9)
gCCTACAAATCCTTGCGAATTCAATATATTGTATGGA‑AATTCAGGCCTGATAAGCGTAGCGCATCa > 1:3288905/1‑66 (MQ=9)
gCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAg < 1:3345577/55‑1 (MQ=255)
gCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAg < 1:920956/55‑1 (MQ=255)
tACAAAACCTTGCTAATTCAATATATTGCAGGGACTAt < 1:4967192/38‑1 (MQ=255)
tACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCa < 1:2978919/61‑1 (MQ=255)
aCAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCAt < 1:1561115/54‑1 (MQ=255)
aCAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCtt > 1:4506173/1‑71 (MQ=255)
cAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCt < 1:2390062/44‑1 (MQ=255)
cAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCt < 1:3539309/44‑1 (MQ=255)
aaaaCCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCAt < 1:3053980/59‑1 (MQ=255)
aaaaCCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCAt < 1:959986/59‑1 (MQ=255)
aaaaCCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCttt < 1:1847400/70‑1 (MQ=255)
aaCCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGc > 1:1623060/1‑48 (MQ=255)
aCCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGt < 1:4203399/71‑1 (MQ=255)
aCCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGt < 1:2336628/71‑1 (MQ=255)
ccTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGtt > 1:1082953/1‑71 (MQ=255)
tGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGttt > 1:1692566/1‑69 (MQ=255)
gCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAgg > 1:2003473/1‑55 (MQ=255)
gCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAgg > 1:3310184/1‑55 (MQ=255)
cTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCAt < 1:3921158/71‑1 (MQ=255)
cTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCAt < 1:3633435/71‑1 (MQ=255)
tAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCAt > 1:2458677/1‑70 (MQ=255)
tAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCAt > 1:3643659/1‑70 (MQ=255)
aagttCAATATATTTAATGGGTTATGTAGACCTGATAAGCATAGCGCATCAGGCTGCTTTGCGttt > 1:2317224/4‑66 (MQ=9)
aaTTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCtt > 1:831128/1‑58 (MQ=255)
aaTTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCtt > 1:3091987/1‑58 (MQ=255)
aTTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATaa > 1:4601760/1‑70 (MQ=255)
ttCAATATATTTAATGGGTTATGTAGACCTGATAAGCATAGCGCATCAGGctg < 1:1985576/53‑3 (MQ=9)
ttCAATATATTTAATGGGTTATGTAGACCTGATAAGCATAGCGCATCAGGctg < 1:4791809/53‑3 (MQ=9)
ttCAATATATTTAATGGGTTATGTAGACCTGATAAGCATAGCGCATCAGGctg < 1:4798301/53‑3 (MQ=9)
ttCAATATATTTAATGGGTTATGTAGACCTGATAAGCATAGCGCATCAGGctg < 1:5610084/53‑3 (MQ=9)
ttCAATATATTTAATGGGTTATGTAGACCTGATAAGCATAGCGCATCAGGCTGCtt < 1:1378907/56‑1 (MQ=9)
ttCAATATATTTAATGGGTTATGTAGACCTGATAAGCATAGCGCATCAGGCTGCtt < 1:5190587/56‑1 (MQ=9)
ttCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCa < 1:2500841/45‑1 (MQ=255)
tCAATATATTTAATGGGTTATGTAGACCTGATAAGCATAGCGCATCAGgctgct < 1:2949309/54‑1 (MQ=9)
cAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACg > 1:1236330/1‑58 (MQ=255)
cAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCt < 1:943738/70‑1 (MQ=255)
aaTATATTTAATGGGTTATGTAGACCTGATAAGCATAgcgc < 1:5136185/41‑1 (MQ=12)
aaTATATTTAATGGGTTATGTAGACCTGATAAGCATAgcgc < 1:3025246/41‑1 (MQ=12)
aaTATATTTAATGGGTTATGTAGACCTGATAAGCATAgcgc < 1:5605311/41‑1 (MQ=12)
aaTATATTTAATGGGTTATGTAGACCTGATAAGCATAgcgc < 1:5038193/41‑1 (MQ=12)
aaTATATTTAATGGGTTATGTAGACCTGATAAGCATAGCGCATCAGGCTGCTTTGCGt > 1:3009687/1‑58 (MQ=9)
aaTATATTTAATGGGTTATGTAGACCTGATAAGCATAGCGCATCAGGCTGCTTTGCGt > 1:1525217/1‑58 (MQ=9)
atatatTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAg < 1:2701218/71‑1 (MQ=255)
atatatTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAg < 1:357589/71‑1 (MQ=255)
tatatTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCAt < 1:785787/41‑1 (MQ=255)
tatatTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCa > 1:948591/1‑69 (MQ=255)
atatTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCa > 1:913594/1‑42 (MQ=255)
tatTGGAGGGACTATGTAGGCCTGATAAGCATAGCGCATc > 1:3183619/1‑40 (MQ=255)
tatTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATc > 1:2292898/1‑40 (MQ=255)
tatTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATc > 1:5316275/1‑40 (MQ=255)
tatTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATc > 1:618650/1‑40 (MQ=255)
atTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAgcgc < 1:3789462/70‑1 (MQ=255)
ttGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGccc > 1:5067378/1‑71 (MQ=255)
cAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGtt < 1:3583970/71‑1 (MQ=255)
gggACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTc < 1:1467958/71‑1 (MQ=255)
|
GTATTACTGCCGGATGCGGCGTGAACGCCTTATCCGGCCTACAAAACCTTGCTAATTCAATATATTGCAGGGACTATGTAGGCCTGATAAGCATAGCGCATCAGGCAGCTTTACGTTTGCATAACCTCAGCGCCCGTTTC > minE/1258337‑1258476
|
| 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
