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 |
2,281,039 |
G→A |
31.1% |
R94R (CGC→CGT) |
fabR ← |
DNA‑binding transcriptional repressor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,281,039 | 0 | G | A | 31.1%
| 56.6
/ 29.3
| 64 | R94R (CGC→CGT) | fabR | DNA‑binding transcriptional repressor |
| Reads supporting (aligned to +/- strand): ref base G (18/26); new base A (2/18); total (20/44) |
| Fisher's exact test for biased strand distribution p-value = 1.89e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.45e-01 |
AATGTGGAGACCGAGGTGCGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCAGACCCAGTTCGTCTA > minE/2280980‑2281100
|
aaTGTGGAGACCGAGGTGCGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGt > 1:2189451/1‑69 (MQ=255)
agaCCGAGGTGCGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTGACGCATGAGTTGGCGt > 1:988930/1‑68 (MQ=255)
agaCCGAGGTGCGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTGACGCATGAGTTGGCGt > 1:974727/1‑68 (MQ=255)
cGAGGTGCGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGc > 1:1134227/1‑67 (MQ=255)
cGAGGTGCGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCa > 1:1326402/1‑68 (MQ=255)
cGAGGTGCGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCa > 1:1330122/1‑68 (MQ=255)
cGAGGTGCGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCa > 1:1379187/1‑68 (MQ=255)
cGAGGTGCGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCa > 1:2917290/1‑68 (MQ=255)
cGAGGTGCGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCa > 1:2537994/1‑68 (MQ=255)
cGAGGTGCGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCa > 1:2299473/1‑68 (MQ=255)
cGAGGTGCGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCa > 1:679544/1‑68 (MQ=255)
cGAGGTGCGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCa > 1:1993618/1‑68 (MQ=255)
cGAGGTGCGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCa > 1:1667177/1‑68 (MQ=255)
cGAGGTGCGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCa > 1:1924645/1‑68 (MQ=255)
cGAGGTGCGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCa > 1:1723164/1‑68 (MQ=255)
cGAGGTGCGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCAt < 1:2592151/69‑1 (MQ=255)
cGAGGTGCGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTCGCGCATGAGTTGGCGTAGCAt < 1:979247/69‑1 (MQ=255)
aTCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCATTAAACCGctc < 1:3060361/69‑1 (MQ=255)
aTCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCATTAAACCGctc < 1:2605892/69‑1 (MQ=255)
cccGCCTTTGGCGATACGCTGACGCGCCTTGCGCATGAGTTGGCGTAGCATTAAACCGCTCtcatca > 1:1840820/1‑67 (MQ=255)
cccGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCATTa < 1:2324652/53‑1 (MQ=255)
cccGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCATTa < 1:2922494/53‑1 (MQ=255)
cccGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCATTa < 1:3237898/53‑1 (MQ=255)
cccGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCATTa < 1:3368783/53‑1 (MQ=255)
cccGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCATTa < 1:1441516/53‑1 (MQ=255)
cccGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCATTa < 1:1512040/53‑1 (MQ=255)
cccGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCATTa < 1:2393960/53‑1 (MQ=255)
cccGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCATTa < 1:1920954/53‑1 (MQ=255)
cccGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCATTa < 1:1604799/53‑1 (MQ=255)
cccGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCATTa < 1:1642443/53‑1 (MQ=255)
cccGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCATTAAACCGCTCtcatca > 1:2249411/1‑67 (MQ=255)
cccGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCATTAAACCGCTCtcatca > 1:1417513/1‑67 (MQ=255)
cccGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCATTAAACCGCTCtcatca > 1:142064/1‑67 (MQ=255)
cccGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAAc > 1:455373/1‑69 (MQ=255)
gCGATACGCTGACGCGCCTGACGCATGAGTTGGCGTAGCATTAAACCGCTCTCGTCAACCATGGTCa < 1:2011705/67‑1 (MQ=255)
gCGATACGCTGACGCGCCTGACGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCa < 1:689111/67‑1 (MQ=255)
gCGATACGCTGACGCGCCTGACGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCa < 1:1129323/67‑1 (MQ=255)
gCGATACGCTGACGCGCCTGACGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCa < 1:894985/67‑1 (MQ=255)
gCGATACGCTGACGCGCCTGACGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCa < 1:3297680/67‑1 (MQ=255)
gCGATACGCTGACGCGCCTGACGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCa < 1:658578/67‑1 (MQ=255)
gCGATACGCTGACGCGCCTGACGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCa < 1:389695/67‑1 (MQ=255)
gCGATACGCTGACGCGCCTGACGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCa < 1:72984/67‑1 (MQ=255)
gCGATACGCTGACGCGCCTGACGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCa < 1:1193542/67‑1 (MQ=255)
gCGATACGCTGACGCGCCTGACGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCa < 1:581776/67‑1 (MQ=255)
gCGATACGCTGACGCGCCTGACGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCa < 1:1365740/67‑1 (MQ=255)
gCGATACGCTGACGCGCCTGACGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCa < 1:260443/67‑1 (MQ=255)
gCGATACGCTGACGCGCCTGACGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCa < 1:1690806/67‑1 (MQ=255)
gCGATACGCTGACGCGCCTGACGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCa < 1:1827193/67‑1 (MQ=255)
gCGATACGCTGACGCGCCTGACGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCa < 1:3135493/67‑1 (MQ=255)
gCGATACGCTGACGCGCCTGACGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGGCa < 1:2100287/67‑1 (MQ=255)
cGATACGCTGACGCGCCTGACGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCa < 1:271370/66‑1 (MQ=255)
cGATACGCTGACGCGCCTGACGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCa < 1:2028599/66‑1 (MQ=255)
aCGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGt < 1:3406484/60‑1 (MQ=255)
aCGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGt < 1:850265/60‑1 (MQ=255)
gcgcCTGGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCAGACCCAGTTCGTCTa < 1:1297728/69‑1 (MQ=255)
gcgcCTGGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCAGACCCAGTTCGTCTa < 1:1313901/69‑1 (MQ=255)
gcgcCTGGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCAGACCCAGTTCGTCTa < 1:1586278/69‑1 (MQ=255)
gcgcCTGGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCAGACCCAGTTCGTCTa < 1:2048979/69‑1 (MQ=255)
gcgcCTGGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCAGACCCAGTTCGTCTa < 1:2382801/69‑1 (MQ=255)
gcgcCTGGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCAGACCCAGTTCGTCTa < 1:4057/69‑1 (MQ=255)
gcgcCTGGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCAGACCCAGTTCGTCTa < 1:2505973/69‑1 (MQ=255)
gcgcCTGGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCAGACCCAGTTCGTCTa < 1:358629/69‑1 (MQ=255)
gcgcCTGGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCAGACCCAGTTCGTCTa < 1:2843015/69‑1 (MQ=255)
gcgcCTGGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCAGACCCAGTTCGTCTa < 1:3150889/69‑1 (MQ=255)
|
AATGTGGAGACCGAGGTGCGGATCACACTCCCGCCTTTGGCGATACGCTGACGCGCCTGGCGCATGAGTTGGCGTAGCATTAAACCGCTCTCATCAACCATGGTCAGACCCAGTTCGTCTA > minE/2280980‑2281100
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
