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 F1 I0 R1
|
4577 |
57.4 |
3436498 |
77.7% |
2670158 |
63.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,221,569 |
C→T |
44.1% |
T48T (ACC→ACT) |
yebT → |
conserved hypothetical protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,221,569 | 0 | C | T | 44.1%
| 16.7
/ 51.2
| 68 | T48T (ACC→ACT) | yebT | conserved hypothetical protein |
| Reads supporting (aligned to +/- strand): ref base C (13/25); new base T (14/16); total (27/41) |
| Fisher's exact test for biased strand distribution p-value = 3.28e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.11e-01 |
GCTAATGATTGCCAGTTGGCTGATTTGGGACAGTTATCAGGACCGGGGTAATACCGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCAGGCCGTACGCCTGTTCGTTATCAGGGCG > minE/1221515‑1221636
|
gcTAATGATTGCCAGTTGGCTGATTTGGGACAGTTATCAGGACCGGGGTAATACCGTCACCATCGACtt < 1:2145361/69‑1 (MQ=255)
gcTAATGATTGCCAGTTGGCTGATTTGGGACAGTTATCAGGACCGGGGTAATACCGTCACCATCGACtt < 1:11343/69‑1 (MQ=255)
gcTAATGATTGCCAGTTGGCTGATTTGGGACAGTTATCAGGACCGGGGTAATACCGTCACCATCGACtt < 1:686042/69‑1 (MQ=255)
gcTAATGATTGCCAGTTGGCTGATTTGGGACAGTTATCAGGACCGGGGTAATACCGTCACCATCGACtt < 1:232208/69‑1 (MQ=255)
gcTAATGATTGCCAGTTGGCTGATTTGGGACAGTTATCAGGACCGGGGTAATACCGTCACCATCGACtt < 1:1785961/69‑1 (MQ=255)
gcTAATGATTGCCAGTTGGCTGATTTGGGACAGTTATCAGGACCGGGGTAATACCGTCACCATCGACtt < 1:2749440/69‑1 (MQ=255)
gcTAATGATTGCCAGTTGGCTGATTTGGGACAGTTATCAGGACCGGGGTAATACCGTCACCATCGACtt < 1:1541644/69‑1 (MQ=255)
gcTAATGATTGCCAGTTGGCTGATTTGGGACAGTTATCAGGACCGGGGTAATACCGTCACCATCGACtt < 1:343060/69‑1 (MQ=255)
gcTAATGATTGCCAGTTGGCTGATTTGGGACAGTTATCAGGACCGGGGTAATACCGTCACCATCGACtt < 1:2888328/69‑1 (MQ=255)
gcTAATGATTGCCAGTTGCCTGATTTGGGACAGTTATCAGGACCGGGGTAATACCGTCACCATCGACtt < 1:655058/69‑1 (MQ=255)
aaTGATTGCCAGTTGGCTGATTTGGGACAGTTATCAGGACCGGGGTAATACCGTCACCATCGACTTTAt < 1:1635145/69‑1 (MQ=255)
aaTGATTGCCAGTTGGCTGATTTGGGACAGTTATCAGGACCGGGGTAATACCGTCACCATCGACTTTAt < 1:536672/69‑1 (MQ=255)
tGCCAGTTGGCTGATTTGGGACAGTTATCAGGACCTGGGTAATACCGTCACCATCGACTTTATGTcgg < 1:906733/68‑1 (MQ=255)
tGCCAGTTGGCTGATTTGGGACAGTTATCAGGACCGGGGTAATACCGTCACCATCGACTTTATGTcgg < 1:1484253/68‑1 (MQ=255)
tGCCAGTTGGCTGATTTGGGACAGTTATCAGGACCGGGGTAATACCGTCACCATCGACTTTATGTcgg < 1:1381476/68‑1 (MQ=255)
tGCCAGTTGGCTGATTTGGGACAGTTATCAGGACCGGGGTAATACCGTCACCATCGACTTTATGTcgg < 1:2621985/68‑1 (MQ=255)
tGCCAGTTGGCTGATTTGGGACAGTTATCAGGACCGGGGTAATACCGTCACCATCGACTTTATGTcgg < 1:556834/68‑1 (MQ=255)
tGCCAGTTGGCTGATTTGGGACAGTTATCAGGACCGGGGTAATACCGTCACCATCGACTTTATGTcgg < 1:1184318/68‑1 (MQ=255)
tggTTGGCTGATTTGGGACAGTTATCAGGACCGGGGCAATACTGt > 1:562028/3‑45 (MQ=255)
tggTTGGCTGATTTGGGACAGTTATCAGGACCGGGGCAATACTGTCACCATCGACTTTATGTCGGCGGa > 1:363911/3‑69 (MQ=255)
tggTTGGCTGATTTGGGACAGTTATCAGGACCGGGGCAATACTGTCACCATCGACTTTATGTCGGCGGa > 1:106520/3‑69 (MQ=255)
tggTTGGCTGATTTGGGACAGTTATCAGGACCGGGGCAATACTGTCACCATCGACTTTATGTCGGCGGa > 1:2543859/3‑69 (MQ=255)
tggTTGGCTGATTTGGGACAGTTATCAGGACCGGGGCAATACTGTCACCATCGACTTTATGTCGGCGGa > 1:2500254/3‑69 (MQ=255)
tggTTGGCTGATTTGGGACAGTTATCAGGACCGGGGCAATACTGTCACCATCGACTTTATGTCGGCGGa > 1:2462945/3‑69 (MQ=255)
tggTTGGCTGATTTGGGACAGTTATCAGGACCGGGGCAATACTGTCACCATCGACTTTATGTCGGCGGa > 1:2615558/3‑69 (MQ=255)
tggTTGGCTGATTTGGGACAGTTATCAGGACCGGGGCAATACTGTCACCATCGACTTTATGTCGGCGGa > 1:2078928/3‑69 (MQ=255)
tggTTGGCTGATTTGGGACAGTTATCAGGACCGGGGCAATACTGTCACCATCGACTTTATGTCGGCGGa > 1:1167107/3‑69 (MQ=255)
tggTTGGCTGATTTGGGACAGTTATCAGGACCGGGGCAATACTGTCACCATCGACTTTATGTCGGCGGa > 1:1462656/3‑69 (MQ=255)
tggTTGGCTGATTTGGGACAGTTATCAGGACCGGGGCAATACTGTCACCATCGACTTTATGTCGGCGGa > 1:1517151/3‑69 (MQ=255)
tggTTGGCTGATTTGGGACAGTTATCAGGACCGGGGCAATACTGTCACCATCGACTTTATGTCGGCGGa > 1:1617556/3‑69 (MQ=255)
tggTTGGCTGATTTGGGACAGTTATCAGGACCGGGGCAATACTGTCACCATCGACTTTATGTCGGCGGa > 1:1201516/3‑69 (MQ=255)
tggTTGGCTGATTTGGGACAGTTATCAGGACCGGGGCAATACTGTCACCATCGACTTTATGTCGGCGGa > 1:1647306/3‑69 (MQ=255)
tGGGACAGTTATCAGGACCGGGGCAATACTGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCa < 1:2822596/69‑1 (MQ=255)
tGGGACAGTTATCAGGACCGGGGCAATACTGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCa < 1:189609/69‑1 (MQ=255)
tGGGACAGTTATCAGGACCGGGGCAATACTGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCa < 1:3387558/69‑1 (MQ=255)
tGGGACAGTTATCAGGACCGGGGCAATACTGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCa < 1:1446983/69‑1 (MQ=255)
tGGGACAGTTATCAGGACCGGGGCAATACTGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCa < 1:2835460/69‑1 (MQ=255)
tGGGACAGTTATCAGGACCGGGGCAATACTGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCa < 1:122710/69‑1 (MQ=255)
tGGGACAGTTATCAGGACCGGGGCAATACTGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCa < 1:2682592/69‑1 (MQ=255)
tGGGACAGTTATCAGGACCGGGGCAATACTGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCa < 1:620326/69‑1 (MQ=255)
tGGGACAGTTATCAGGACCGGGGCAATACTGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCa < 1:572178/69‑1 (MQ=255)
tGGGACAGTTATCAGGACCGGGGCAATACTGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCa < 1:2194391/69‑1 (MQ=255)
tGGGACAGTTATCAGGACCGGGGCAATACTGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCa < 1:1689325/69‑1 (MQ=255)
tGGGACAGTTATCAGGACCGGGGCAATACTGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCa < 1:1747270/69‑1 (MQ=255)
tGGGACAGTTATCAGGACCGGGGCAATACTGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCa < 1:242004/69‑1 (MQ=255)
gggACTGTTATCAGGACCGGGGCAATACTGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCa < 1:411168/68‑1 (MQ=255)
gggACAGTTATCAGGACCGGGGCAATACTGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCa < 1:1887445/68‑1 (MQ=255)
gggACAGTTATCAGGACCGGGGCAATACTGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCa < 1:1919746/68‑1 (MQ=255)
aaTACCGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCAGGCCGTACGCCTGTTCGTTATCAg < 1:479463/69‑1 (MQ=255)
aaTACCGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCAGGCCGTACGCCTGTTCGTTATCAg < 1:3112778/69‑1 (MQ=255)
aaTACCGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCAGGCCGTACGCCTGTTCGTTATCAg < 1:283803/69‑1 (MQ=255)
aaTACCGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCAGGCCGTACGCCTGTTCGTTATCAg < 1:1075113/69‑1 (MQ=255)
aaTACCGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCAGGCCGTACGCCTGTTCGTTATCAg < 1:1891539/69‑1 (MQ=255)
aaTACCGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCAGGCCGTACGCCTGTTCGTTATCAg < 1:1563724/69‑1 (MQ=255)
aaTACCGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCAGGCCGTACGCCTGTTCGTTATCAg < 1:3080317/69‑1 (MQ=255)
aTACCGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCAGGCCGTACGCCTGTTCGTTATCAgg > 1:778263/1‑69 (MQ=255)
aTACCGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCAGGCCGTACGCCTGTTCGTTATCAgg > 1:3304233/1‑69 (MQ=255)
aCCGTCACCTTCGACTTTATGTCGGCGGATGGTATTGTTCCAGGCCGTACGCCTGTTCGTTATCAGGGc > 1:72790/1‑69 (MQ=255)
aCCGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCAGGCCGTACGCCTGTTCGTTa > 1:136821/1‑62 (MQ=255)
aCCGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCAGGCCGTACGCCTGTTCGTTATCAgggg > 1:1896011/1‑68 (MQ=255)
aCCGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCAGGCCGTACGCCTGTTCGTTATCAGGGc > 1:36640/1‑69 (MQ=255)
aCCGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCAGGCCGTACGCCTGTTCGTTATCAGGGc > 1:799184/1‑69 (MQ=255)
aCCGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCAGGCCGTACGCCTGTTCGTTATCAGGGc > 1:3202548/1‑69 (MQ=255)
aCCGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCAGGCCGTACGCCTGTTCGTTATCAGGGc > 1:516737/1‑69 (MQ=255)
aCCGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCAGGCCGTACGCCTGTTCGTTATCAGGGc > 1:1619657/1‑69 (MQ=255)
aCCGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCAGGCCGTACGCCTGTTCGTTATCAGGGc > 1:564146/1‑69 (MQ=255)
aCCGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCAGGCCGTACGCCTGTTCGTTATCAGGGc > 1:314249/1‑69 (MQ=255)
aCCGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCAGGCCGTACGCCTGTTCGTTATCAGGGc > 1:726661/1‑69 (MQ=255)
ccGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCAGGCCGTACGCCTGTTCGTTATCAGGGc > 1:3271301/1‑68 (MQ=255)
ccGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCAGGCCGTACGCCTGTTCGTTATCAGGGc > 1:396618/1‑68 (MQ=255)
ccGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCAGGCCGTACGCCTGTTCGTTATCAGGGCg > 1:116913/1‑69 (MQ=255)
ccGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCAGGCCGTACGCCTGTTCGTTATCAGGGCg > 1:3400993/1‑69 (MQ=255)
ccGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCAGGCCGTACGCCTGTTCGTTATCAGGGCg > 1:2889666/1‑69 (MQ=255)
ccGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCAGGCCGTACGCCTGTTCGTTATCAGGGCg > 1:1903233/1‑69 (MQ=255)
|
GCTAATGATTGCCAGTTGGCTGATTTGGGACAGTTATCAGGACCGGGGTAATACCGTCACCATCGACTTTATGTCGGCGGATGGTATTGTTCCAGGCCGTACGCCTGTTCGTTATCAGGGCG > minE/1221515‑1221636
|
| 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
