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 |
1,383,043 |
T→A |
100% |
P35P (CCT→CCA) |
yeiG → |
predicted esterase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,383,043 | 0 | T | A | 95.5%
| 99.4
/ ‑2.5
| 44 | P35P (CCT→CCA) | yeiG | predicted esterase |
| Reads supporting (aligned to +/- strand): ref base T (1/1); new base A (22/20); total (23/21) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.25e-01 |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
ACGCTGGCGACACGACTCCAGTACCTTAAACTGCCCGATGACGTTCAGTATCTTTCTCCCTCCACCTCGTGATCACACTCCGCCACCAGTGCTGTACTGGCTT > minE/1382983‑1383085
|
aCGCTGGCGACACGACTCTAGTACCTTAAACTGCCCGATGACGTTCAGTATCTTTCTCCCACCACCTc > 1:197415/1‑68 (MQ=255)
aCGCTGGCGACACGACTCCAGTACCTTAAACTGCCCGATGACGTTCAGTATCTTTctcccacc > 1:1346873/1‑63 (MQ=255)
aCGCTGGCGACACGACTCCAGTACCTTAAACTGCCCGATGACGTTCAGTATCTTTCTCCCaccacc > 1:3253641/1‑66 (MQ=255)
aCGCTGGCGACACGACTCCAGTACCTTAAACTGCCCGATGACGTTCAGTATCTTTCTCCCACCACCTc > 1:1080391/1‑68 (MQ=255)
aCGCTGGCGACACGACTCCAGTACCTTAAACTGCCCGATGACGTTCAGTATCTTTCTCCCACCACCTc > 1:3188006/1‑68 (MQ=255)
aCGCTGGCGACACGACTCCAGTACCTTAAACTGCCCGATGACGTTCAGTATCTTTCTCCCACCACCTc > 1:3053839/1‑68 (MQ=255)
aCGCTGGCGACACGACTCCAGTACCTTAAACTGCCCGATGACGTTCAGTATCTTTCTCCCACCACCTc > 1:604451/1‑68 (MQ=255)
aCGCTGGCGACACGACTCCAGTACCTTAAACTGCCCGATGACGTTCAGTATCTTTCTCCCACCACCTc > 1:653665/1‑68 (MQ=255)
aCGCTGGCGACACGACTCCAGTACCTTAAACTGCCCGATGACGTTCAGTATCTTTCTCCCACCACCTc > 1:688025/1‑68 (MQ=255)
aCGCTGGCGACACGACTCCAGTACCTTAAACTGCCCGATGACGTTCAGTATCTTTCTCCCACCACCTc > 1:714356/1‑68 (MQ=255)
aCGCTGGCGACACGACTCCAGTACCTTAAACTGCCCGATGACGTTCAGTATCTTTCTCCCACCACCTc > 1:2269801/1‑68 (MQ=255)
aCGCTGGCGACACGACTCCAGTACCTTAAACTGCCCGATGACGTTCAGTATCTTTCTCCCACCACCTc > 1:2121722/1‑68 (MQ=255)
aCGCTGGCGACACGACTCCAGTACCTTAAACTGCCCGATGACGTTCAGTATCTTTCTCCCACCACCTc > 1:206276/1‑68 (MQ=255)
aCGCTGGCGACACGACTCCAGTACCTTAAACTGCCCGATGACGTTCAGTATCTTTCTCCCACCACCTc > 1:1992840/1‑68 (MQ=255)
aCGCTGGCGACACGACTCCAGTACCTTAAACTGCCCGATGACGTTCAGTATCTTTCTCCCACCACCTc > 1:1861657/1‑68 (MQ=255)
aCGCTGGCGACACGACTCCAGTACCTTAAACTGCCCGATGACGTTCAGTATCTTTCTCCCACCACCTc > 1:1692942/1‑68 (MQ=255)
aCGCTGGCGACACGACTCCAGTACCTTAAACTGCCCGATGACGTTCAGTATCTTTCTCCCACCACCTc > 1:1515122/1‑68 (MQ=255)
aCGCTGGCGACACGACTCCAGTACCTTAAACTGCCCGATGACGTTCAGTATCTTTCTCCCACCACCTc > 1:1510507/1‑68 (MQ=255)
aCGCTGGCGACACGACTCCAGTACCTTAAACTGCCCGATGACGTTCAGTATCTTTCTCCCACCACCTc > 1:1498688/1‑68 (MQ=255)
aCGCTGGCGACACGACTCCAGTACCTTAAACTGCCCGATGACGTTCAGTATCTTTCTCCCACCACCTc > 1:1133441/1‑68 (MQ=255)
aCGCTGGCGACACGACTCCAGTACCTTAAACTGCCCGATGACGTTCAGTATCTTTCTCCCACCACCTc > 1:1393623/1‑68 (MQ=255)
aCGCTGGCGACACGACTCCAGTACCTTAAACTGCCCGATGACGTTCAGTATCTTTCTCCCACCACCTc > 1:1385333/1‑68 (MQ=255)
aCGCTGGCGACACGACTCCAGTACCTTAAACTGCCCGATGACGTTCAGTATCTTTCTCCCACCACCTc > 1:1191485/1‑68 (MQ=255)
aCGCTGGCGACACGACTCCAGTACCTTAAACTGCCCGATGACGTTCAGTATCTTTCTCCCACCACCTc > 1:1198319/1‑68 (MQ=255)
ttAAACTGCCCGATGACGTTCAGTATCTTTCTCCCTCCACCTCGTGATCACACTCCGCCACCAGTGCTg < 1:1951354/69‑1 (MQ=255)
tGCCCGATGACGTTCAGTATCTTTCTCCCTCCACCTCGTGATCACACTCCGCCACCAGTGCTGTACTgg > 1:1614857/1‑69 (MQ=255)
cGATGACGTTCAGTATCTTTCTCCCACCACCTCGTGATCACACCCCTCCACCAGTGCTGTACTGGCtt < 1:613722/68‑1 (MQ=255)
cGATGACGTTCAGTATCTTTCTCCCACCACCTCGTGATCACACCCCGCCACCAGTGCTGTACTGTCtt < 1:2713645/68‑1 (MQ=255)
cGATGACGTTCAGTATCTTTCTCCCACCACCTCGTGATCACACCCCGCCACCAGTGCTGTACTGGCtt < 1:503714/68‑1 (MQ=255)
cGATGACGTTCAGTATCTTTCTCCCACCACCTCGTGATCACACCCCGCCACCAGTGCTGTACTGGCtt < 1:974234/68‑1 (MQ=255)
cGATGACGTTCAGTATCTTTCTCCCACCACCTCGTGATCACACCCCGCCACCAGTGCTGTACTGGCtt < 1:102143/68‑1 (MQ=255)
cGATGACGTTCAGTATCTTTCTCCCACCACCTCGTGATCACACCCCGCCACCAGTGCTGTACTGGCtt < 1:865899/68‑1 (MQ=255)
cGATGACGTTCAGTATCTTTCTCCCACCACCTCGTGATCACACCCCGCCACCAGTGCTGTACTGGCtt < 1:718399/68‑1 (MQ=255)
cGATGACGTTCAGTATCTTTCTCCCACCACCTCGTGATCACACCCCGCCACCAGTGCTGTACTGGCtt < 1:804597/68‑1 (MQ=255)
cGATGACGTTCAGTATCTTTCTCCCACCACCTCGTGATCACACCCCGCCACCAGTGCTGTACTGGCtt < 1:736651/68‑1 (MQ=255)
cGATGACGTTCAGTATCTTTCTCCCACCACCTCGTGATCACACCCCGCCACCAGTGCTGTACTGGCtt < 1:464979/68‑1 (MQ=255)
cGATGACGTTCAGTATCTTTCTCCCACCACCTCGTGATCACACCCCGCCACCAGTGCTGTACTGGCtt < 1:2982929/68‑1 (MQ=255)
cGATGACGTTCAGTATCTTTCTCCCACCACCTCGTGATCACACCCCGCCACCAGTGCTGTACTGGCtt < 1:2638496/68‑1 (MQ=255)
cGATGACGTTCAGTATCTTTCTCCCACCACCTCGTGATCACACCCCGCCACCAGTGCTGTACTGGCtt < 1:252699/68‑1 (MQ=255)
cGATGACGTTCAGTATCTTTCTCCCACCACCTCGTGATCACACCCCGCCACCAGTGCTGTACTGGCtt < 1:2488037/68‑1 (MQ=255)
cGATGACGTTCAGTATCTTTCTCCCACCACCTCGTGATCACACCCCGCCACCAGTGCTGTACTGGCtt < 1:2325021/68‑1 (MQ=255)
cGATGACGTTCAGTATCTTTCTCCCACCACCTCGTGATCACACCCCGCCACCAGTGCTGTACTGGCtt < 1:2190621/68‑1 (MQ=255)
cGATGACGTTCAGTATCTTTCTCCCACCACCTCGTGATCACACCCCGCCACCAGTGCTGTACTGGCtt < 1:1324608/68‑1 (MQ=255)
cGATGACGTTCAGTATCTTTCTCCCACCACCTCGTGATCACACCCCGCCACCAGTGCTGTACTGGCtt < 1:1292922/68‑1 (MQ=255)
cGATGACGTTCAGTATCTTTCTCCCACCACCTCGTGATCACAC‑CCGCCACCAGTGCTGTACTGGCtt < 1:1632243/67‑1 (MQ=255)
cGATGACGTTCAGTATCTTTCTCCCACCACCTCGTGATCACAC‑CCCCCACCAGTGCTGTACTGGCtt < 1:1808458/67‑1 (MQ=255)
|
ACGCTGGCGACACGACTCCAGTACCTTAAACTGCCCGATGACGTTCAGTATCTTTCTCCCTCCACCTCGTGATCACACTCCGCCACCAGTGCTGTACTGGCTT > minE/1382983‑1383085
|
| 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
