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 |
2,854,647 |
C→T |
38.4% |
L361L (TTG→TTA) |
yjeS ← |
predicted Fe‑S electron transport protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,854,647 | 0 | C | T | 38.4%
| 17.8
/ 22.2
| 39 | L361L (TTG→TTA) | yjeS | predicted Fe‑S electron transport protein |
| Reads supporting (aligned to +/- strand): ref base C (6/18); new base T (10/5); total (16/23) |
| Fisher's exact test for biased strand distribution p-value = 1.84e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.39e-01 |
CTGTGGATGAATCAGGCGTCACGCGGTAACCCTTTTTCAATCACCCGAACCAGACGCTGTTTTTTCGGCAATTGCACTTCGACTATGCACGCATTTCGTCTCTCTATTTGCTGCGCAATCGCCCACGCTATGTGCTC > minE/2854579‑2854715
|
cTGTGGATGAATCAGGCGTCACGCGGTAACCCTTTTTCAATCACCCGAACCAGACGCTGTTTTTTCGGc < 1:2661660/69‑1 (MQ=255)
cTGTGGATGAATCAGGCGTCACGCGGTAACCCTTTTTCAATCACCCGAACCAGACGCTGTTTTTTCGGc < 1:2862048/69‑1 (MQ=255)
cTGTGGATGAATCAGGCGTCACGCGGTAACCCTTTTTCAATCACCCGAACCAGACGCTGTTTTTTCGGc < 1:442473/69‑1 (MQ=255)
cTGTGGATGAATCAGGCGTCACGCGGTAACCCTTTTTCAATCACCCGAACCAGACGCTGTTTTTTCGGc < 1:3097952/69‑1 (MQ=255)
gATGAATCAGGCGTCACGCGGTAACCCTTTTTCAATCACCCGAACCAGACGCTGTTTTTTCGGTAATTg < 1:67357/69‑1 (MQ=255)
gATGAATCAGGCGTCACGCGGTAACCCTTTTTCAATCACCCGAACCAGACGCTGTTTTTTCGGTAATTg < 1:549688/69‑1 (MQ=255)
gATGAATCAGGCGTCACGCGGTAACCCTTTTTCAATCACCCGAACCAGACGCTGTTTTTTCGGTAATTg < 1:1523988/69‑1 (MQ=255)
gATGAATCAGGCGTCACGCGGTAACCCTTTTTCAATCACCCGAACCAGACGCTGTTTTTTCGGTAATTg < 1:1801820/69‑1 (MQ=255)
gATGAATCAGGCGTCACGCGGTAACCCTTTTTCAATCACCCGAACCAGACGCTGTTTTTTCGGCAATTg < 1:2852244/69‑1 (MQ=255)
gATGAATCAGGCGTCACGCGGTAACCCTTTTTCAATCACCCGAACCAGACGCTGTTTTTTCGGCAATTg < 1:138280/69‑1 (MQ=255)
aTGAATCATGCGTCACGCGGTAACCCTTTTTCAATCACCCGAACCAGACGCTGTTTTTTCGGTAATTg < 1:2575860/68‑1 (MQ=255)
gAATCAGGCGTCACGCGGTAACCCTTTTTCAATCACCCGAACCAGACGCTGTTTTTTCGGCAATTGCAc > 1:2108823/1‑69 (MQ=255)
ggCGTCACGCGGTAACCCTTTTTCAATCACCCGAACCAGACGCTGTTTTTTCGGCAATTGCACTTCGAc > 1:468019/1‑69 (MQ=255)
ggCGTCACGCGGTAACCCTTTTTCAATCACCCGAACCAGACGCTGTTTTTTCGGCAATTGCACTTCGAc > 1:763814/1‑69 (MQ=255)
aaCCCTTTTTCAATCACCCGAACCAGACGCTGTTTTTTCGGCAATTGCACTTCGACTATGCACGCAttt > 1:3325733/1‑69 (MQ=255)
aaTCACCCGAACCAGACGCTGTTTTTTCGGCAATTGCACTTCGACTATGCACGCATTTCGTCTCTCTa < 1:1158844/68‑1 (MQ=255)
aaTCACCCGAACCAGACGCTGTTTTTTCGGCAATTGCACTTCGACTATGCACGCATTTCGTCTCTCTa < 1:2552945/68‑1 (MQ=255)
aaTCACCCGAACCAGACGCTGTTTTTTCGGCAATTGCACTTCGACTATGCACGCATTTCGTCTCTCTa < 1:794428/68‑1 (MQ=255)
aaTCACCCGAACCAGACGCTGTTTTTTCGGCAATTGCACTTCGACTATGCACGCATTTCGTCTCTCTa < 1:123378/68‑1 (MQ=255)
aaTCACCCGAACCAGACGCTGTTTTTTCGGCAATTGCACTTCGACTATGCACGCATTTCGTCTCTCTa < 1:1603856/68‑1 (MQ=255)
aaTCACCCGAACCAGACGCTGTTTTTTCGGCAATTGCACTTCGACTATGCACGCATTTCGTCTCTCTa < 1:2116875/68‑1 (MQ=255)
aaTCACCCGAACCAGACGCTGTTTTTTCGGCAATTGCACTTCGACTATGCACGCATTTCGTCTCTCTa < 1:1865837/68‑1 (MQ=255)
aaTCACCCGAACCAGACGCTGTTTTTTCGGCAATTGCACTTCGACTATGCACGCATTTCGTCTCTCTa < 1:2418921/68‑1 (MQ=255)
aaTCACCCGAACCAGACGCTGTTTTTTCGGCAATTGCACTTCGACTATGCACGCATTTCGTCTCTCTa < 1:1891284/68‑1 (MQ=255)
aTCACCCGAACCAGACGCTGTTTTTTCGGCAATTGCACTTCGACTATGCACGCATTTCGTCTCTCTa < 1:835764/67‑1 (MQ=255)
aTCACCCGAACCAGACGCTGTTTTTTCGGCAATTGCACTTCGACTATGCACGCATTTCGTCTCTCTa < 1:1127586/67‑1 (MQ=255)
aTCACCCGAACCAGACGCTGTTTTTTCGGCAATTGCACTTCGACTATGCACGCATTTCGTCTCTCTa < 1:1586240/67‑1 (MQ=255)
tCACCCGAACCAGACGCTGTTTTTTCGGCAATTGCACTTCGACTATGCACGCATTTCGTCTCTCTAttt > 1:777116/1‑69 (MQ=255)
aCCCGAACCAGACGCTGTTTTTTCGGTAATTGCACTTCGAcc > 1:382908/1‑41 (MQ=39)
aCCCGAACCAGACGCTGTTTTTTCGGTAATTGCACTTCGACCACGCACGCATTTCGCCTCTCGATTtgc > 1:296791/1‑69 (MQ=255)
aCCCGAACCAGACGCTGTTTTTTCGGTAATTGCACTTCGACCACGCACGCATTTCGCCTCTCGATTtgc > 1:131832/1‑69 (MQ=255)
aCCCGAACCAGACGCTGTTTTTTCGGTAATTGCACTTCGACCACGCACGCATTTCGCCTCTCGATTtgc > 1:2766498/1‑69 (MQ=255)
aCCCGAACCAGACGCTGTTTTTTCGGTAATTGCACTTCGACCACGCACGCATTTCGCCTCTCGATTtgc > 1:2653249/1‑69 (MQ=255)
aCCCGAACCAGACGCTGTTTTTTCGGTAATTGCACTTCGACCACGCACGCATTTCGCCTCTCGATTtgc > 1:2648339/1‑69 (MQ=255)
aCCCGAACCAGACGCTGTTTTTTCGGTAATTGCACTTCGACCACGCACGCATTTCGCCTCTCGATTtgc > 1:2642364/1‑69 (MQ=255)
aCCCGAACCAGACGCTGTTTTTTCGGTAATTGCACTTCGACCACGCACGCATTTCGCCTCTCGATTtgc > 1:2258613/1‑69 (MQ=255)
aCCCGAACCAGACGCTGTTTTTTCGGTAATTGCACTTCGACCACGCACGCATTTCGCCTCTCGATTtgc > 1:2568991/1‑69 (MQ=255)
aCCCGAACCAGACGCTGTTTTTTCGGTAATTGCACTTCGACCACGCACGCATTTCGCCTCTCGATTtgc > 1:2472206/1‑69 (MQ=255)
aCCCGAACCAGACGCTGTTTTTTCGGCAATTGCACTTCGAc < 1:485177/41‑1 (MQ=255)
aCCCGAACCAGACGCTGTTTTTTCGGCAATTGCACTTCGAc < 1:2585789/41‑1 (MQ=255)
aaCCAGACGCTGTTTTTTCGGCAATTGCACTTCGACTATGCACGCATTTCGTCTCTCTa < 1:2068060/59‑1 (MQ=255)
cAGACGCTGTTTTTTCGGCAATTGCACTTCGACTATGCACGCATTTCGTCTCTCTATTTGCTGCGCAAt < 1:1848239/69‑1 (MQ=255)
gCTGTTTTTTCGGCAATTGCACTTCGACTATGCACGCATTTCGTCTCTCTATTTGCTGCGCAATCGcc > 1:239483/1‑68 (MQ=255)
cAATTGCACTTCGACTATGCACGCATTTCGTCTCTCTATTTGCTGCGCAATCGCCCACGCTATGTGCTc < 1:1523506/69‑1 (MQ=255)
|
CTGTGGATGAATCAGGCGTCACGCGGTAACCCTTTTTCAATCACCCGAACCAGACGCTGTTTTTTCGGCAATTGCACTTCGACTATGCACGCATTTCGTCTCTCTATTTGCTGCGCAATCGCCCACGCTATGTGCTC > minE/2854579‑2854715
|
| 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
