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 F8 I0 R2
|
296 |
77.6 |
4260404 |
88.1% |
3753415 |
61.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
2,513,416 |
T→C |
50.0% |
F203S (TTT→TCT) |
gltS → |
glutamate transporter |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,513,416 | 0 | T | C | 50.0%
| ‑2.4
/ 75.2
| 50 | F203S (TTT→TCT) | gltS | glutamate transporter |
| Reads supporting (aligned to +/- strand): ref base T (15/10); new base C (18/7); total (33/17) |
| Fisher's exact test for biased strand distribution p-value = 5.51e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCGCGCTATCTGGTGAAACACTCCACCACGCCGAACGGTATTCCGGATGACCAGGAAGTCCCGACGGCGTTTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTGCTGATTGAAACTATCGCGCTGATTGCT > minE/2513346‑2513483
|
gcgcgcTATCTGGTGAAACACTCCACCACGCCGAACGGTATTCCGGATGACCAGGAAGTCCCGACGGCGtt < 1:2954781/71‑1 (MQ=255)
tCTGGTGAAACACTCCACCACGCCGAACGGTATTCCGGATGACCAGGAAGTCCCGACGGCGTTTGaaaa < 1:2941673/69‑1 (MQ=255)
tCTGGTGAAACACTCCACCACGCCGAACGGTATTCCGGATGACCAGGAAGTCCCGACGGCGTTTGAAAAg < 1:2248915/70‑1 (MQ=255)
tGGTGAAACACTCCACCACGCCGAACGGTATTCCGGATGACCAGGAAGTCCCGACGGCGTTTGAAAAGCCg > 1:3585084/1‑71 (MQ=255)
tGGTGAAACACTCCACCACGCCGAACGGTATTCCGGATGACCAGGAAGTCCCGACGGCGTCTGAAAAGCCg > 1:1401167/1‑71 (MQ=255)
tGGTGAAACACTCCACCACGCCGAACGGTATTCCGGATGACCAGGAAGTCCCGACGGCGTCTGAAAAGCCg > 1:2503630/1‑71 (MQ=255)
tGGTGAAACACTCCACCACGCCGAACGGTATTCCGGATGACCAGGAAGTCCCGACGGCGTCTGAAAAGCCg > 1:3091952/1‑71 (MQ=255)
gTGAAACACTCCACCACGCCGAACGGTATTCCGGATGACCAGGAAGTCCCGACGGCGTTTGAAAAGCCg < 1:2636900/69‑1 (MQ=255)
gTGAAACACTCCACCACGCCGAACGGTATTCCGGATGACCAGGAAGTCCCGACGGCGTTTGAAAAGCCg < 1:2019014/69‑1 (MQ=255)
acGCCGAACGGTATTCCGGATGACCAGGAAGTCCCGACGGCGTTTGAAAAGCCGGATGTGGGACGCATGAt < 1:2208741/71‑1 (MQ=255)
cGCCGAACGGTATTCCGGATGACCAGGAAGTCCCGACGGCGTTTGAAAAGCCGGATGTGGGACGCATGATc < 1:841966/71‑1 (MQ=255)
cGCCGAACGGTATTCCGGATGACCAGGAAGTCCCGACGGCGTCTGAAAAGCCGGATGTGGGACGCATGATc < 1:2473447/71‑1 (MQ=255)
cGAACGGTATTCCGGATGACCAGGAAGTCCCGACGGCGTTTGAAAAGCCGGATGTGGGACGCATGATc < 1:3721744/68‑1 (MQ=255)
aaCGGTATTCCGGATGACCAGGAAGTCCCGACGGCGTTTGAAAAGCCGGATGTGGGACGCATGATCACCTc < 1:3749560/71‑1 (MQ=255)
cGGTATTCCGGATGACCAGGAAGTCCCGACGGCGTCTGAAAAGCCGGATGTGGGACGCATGATCACCTCg > 1:622554/1‑70 (MQ=255)
ccGGATGACCAGGAAGTCCCGACGGCGTCTGAAAAGCCGGATGTGGGACGCATGATCAc > 1:3378883/1‑59 (MQ=255)
ccGGATGACCAGGAAGTCCCGACGGCGTCTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTGCt > 1:2320918/1‑71 (MQ=255)
cGGATGACCAGGAAGTCCCGACGGCGTTTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTGCt < 1:3616250/70‑1 (MQ=255)
cGGATGACCAGGAAGTCCCGACGGCGTCTGAAAAGCCGGATGTGGGTCGCATGATCACCTCGTTGGTGCt < 1:129363/70‑1 (MQ=255)
cGGATGACCAGGAAGTCCCGACGGCGTCTGAAAAGCCGGATGTGGGACGCATg > 1:868454/1‑53 (MQ=255)
cGGATGACCAGGAAGTCCCGACGGCGTCTGAAAAGCCGGATGTGGGACGCATGa > 1:1310330/1‑54 (MQ=255)
cGGATGACCAGGAAGTCCCGACGGCGTCTGAAAAGCCGGATGTGGGACGCATGa > 1:312025/1‑54 (MQ=255)
cGGATGACCAGGAAGTCCCGACGGCGTCTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTGCt < 1:649528/70‑1 (MQ=255)
tGACCAGGAAGTCCCGACGGCGTCTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTGCTGAtt > 1:927954/1‑70 (MQ=255)
tGACCAGGAAGTCCCGACGGCGTCTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTGCTGAtt > 1:2377918/1‑70 (MQ=255)
cAGGAAGTCCCGACGGCGTTTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTGCTGATTGAAAc > 1:1694270/1‑71 (MQ=255)
cAGGAAGTCCCGACGGCGTTTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTGCTGATTGAAAc > 1:1762047/1‑71 (MQ=255)
cAGGAAGTCCCGACGGCGTTTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTGCTGATTGAAAc > 1:4064101/1‑71 (MQ=255)
cAGGAAGTCCCGACGGCGTTTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTGCTGATTGAAAc > 1:3372296/1‑71 (MQ=255)
cAGGAAGTCCCGAAGGCGTTTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTGCTGATTGAAAc > 1:2713238/1‑71 (MQ=255)
aaGTCCCGACGGCGTTTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTGCTGATTGAAACTAt > 1:2667155/1‑70 (MQ=255)
aaGTCCCGACGGCGTTTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTGCTGATTGAAACTATc > 1:3169539/1‑71 (MQ=255)
aaGTCCCGACGGCGTTTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTGCTGATTGAAACTATc > 1:1943216/1‑71 (MQ=255)
aGTCCCGACGGCGTTTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTGCTGATTGAAACTATcg > 1:1714031/1‑71 (MQ=255)
aGTCCCGACGGCGTTTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTGCTGATTGAAACTATcg > 1:4088491/1‑71 (MQ=255)
aGTCCCGACGGCGTTTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTGCTGATTGAAACTATcg > 1:3094358/1‑71 (MQ=255)
aGTCCCGACGGCGTCTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTGCTGATTGAAAc > 1:2876496/1‑66 (MQ=255)
aGTCCCGACGGCGTCTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTGCTGATTGAAAc > 1:3699962/1‑66 (MQ=255)
aGTCCCGACGGCGTCTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTGCTGATTGAAAc > 1:3196154/1‑66 (MQ=255)
aGTCCCGACGGCGTCTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTAGTGCTGATTGAAAc > 1:4077456/1‑66 (MQ=255)
gTCCCGACGGCGTTTGAAAAGCCGGATGTTGGACGCATGATCACCTCGTTg > 1:2200895/1‑51 (MQ=255)
gTCCCGACGGCGTTTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTg > 1:3479308/1‑51 (MQ=255)
gTCCCGACGGCGTTTGAAAAGCCGGATGTGGGACGCATGAT‑ACCTCGTTg > 1:69410/1‑50 (MQ=255)
cccGACGGCGTCTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTGCt < 1:916379/54‑1 (MQ=255)
cccGACGGCGTCTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTGCTGATTGAAACTATCgcgc > 1:4011770/1‑71 (MQ=255)
cccGACGGCGTCTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTGCTGATTGAAACTATCgcgc > 1:2077042/1‑71 (MQ=255)
cccGACGGCGTCTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTGCTGATTGAAACTATCgcgc > 1:2328548/1‑71 (MQ=255)
ccGACGGCGTCTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTGCTGATTGAAACTa < 1:2455504/64‑1 (MQ=255)
ccGACGGCGTCTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTGCTGATTGAAACTa < 1:3095146/64‑1 (MQ=255)
aCGGCGTCTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTGCTGATTGAAACTATCGCGCTGAt < 1:1994106/71‑1 (MQ=255)
cGTTTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTGCTGATTGAAACTATCGCGCTGATTGCt < 1:3345981/71‑1 (MQ=255)
|
GCGCGCTATCTGGTGAAACACTCCACCACGCCGAACGGTATTCCGGATGACCAGGAAGTCCCGACGGCGTTTGAAAAGCCGGATGTGGGACGCATGATCACCTCGTTGGTGCTGATTGAAACTATCGCGCTGATTGCT > minE/2513346‑2513483
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
