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 |
2,724,675 |
C→T |
73.4% |
K165K (AAG→AAA) |
yheT ← |
predicted hydrolase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,724,675 | 0 | C | T | 73.4%
| 45.8
/ 15.2
| 45 | K165K (AAG→AAA) | yheT | predicted hydrolase |
| Reads supporting (aligned to +/- strand): ref base C (8/4); new base T (14/19); total (22/23) |
| Fisher's exact test for biased strand distribution p-value = 1.89e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CTTCCAGCATAAACGGCGCAGAGACAATCACCGCCGCATCAACCGGGAGATCATTGCCTTCCTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGAATAGCCGACGGC > minE/2724614‑2724725
|
cTTCCAGCATAAACGGCGCAGAGACAATCACCGCCGCATCAACCGGGAGATCATTGCCTTCCTTTGcc > 1:2167982/1‑68 (MQ=255)
aaCGGCGCAGAGACAATCACCGCCGCATCAACCGGGAGATCATTGCCTTCCTTTGCCAGCAAACAGGcc > 1:1677180/1‑69 (MQ=255)
aaCGGCGCAGAGACAATCACCGCCGCATCAACCGGGAGATCATTGCCTTCCTTTGCCAGCAAACAGGcc > 1:369309/1‑69 (MQ=255)
cGGCGCAGAGACAATCACCGCCGCATCAACCGGGAGATCATTGCCTTCCTTTGCCAGCAAACAGGCCAg > 1:1904846/1‑69 (MQ=255)
cgcAGAGACAATCACCGCCGCATCAACCGGGAGATCATTGCCTTCCTTTGCCAGCAAACAGGCCAGCa < 1:225574/68‑1 (MQ=255)
cACCGCCGCATCAACCGGGAGATCATTGCCTTCCTTTGCCAGCaaa < 1:2967743/46‑1 (MQ=255)
cACCGCCGCATCAACCGGGAGATCATTGCCTTCCTTTGCCAGCaaa < 1:1941549/46‑1 (MQ=255)
cACCGCCGCATCAACCGGGAGATCATTGCCTTCCTTTGCCAGCaaa < 1:165656/46‑1 (MQ=255)
gccgcATCAATCGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCGAGCATATTACCGCCGAGCGaa < 1:2617943/69‑1 (MQ=255)
gccgcATCAATCGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGaa < 1:3234962/69‑1 (MQ=255)
gccgcATCAATCGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGaa < 1:3002494/69‑1 (MQ=255)
gccgcATCAATCGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGaa < 1:3014614/69‑1 (MQ=255)
gccgcATCAATCGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGaa < 1:3052821/69‑1 (MQ=255)
gccgcATCAATCGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGaa < 1:1217206/69‑1 (MQ=255)
gccgcATCAATCGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGaa < 1:3276582/69‑1 (MQ=255)
gccgcATCAATCGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGaa < 1:459510/69‑1 (MQ=255)
gccgcATCAATCGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGaa < 1:568381/69‑1 (MQ=255)
gccgcATCAATCGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGaa < 1:617593/69‑1 (MQ=255)
gccgcATCAATCGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGaa < 1:666198/69‑1 (MQ=255)
gccgcATCAATCGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGaa < 1:740756/69‑1 (MQ=255)
gccgcATCAATCGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGaa < 1:2099490/69‑1 (MQ=255)
gccgcATCAATCGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGaa < 1:1353626/69‑1 (MQ=255)
gccgcATCAATCGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGaa < 1:1574816/69‑1 (MQ=255)
gccgcATCAATCGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGaa < 1:1744418/69‑1 (MQ=255)
gccgcATCAATCGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGaa < 1:1814779/69‑1 (MQ=255)
gccgcATCAATCGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGaa < 1:1925309/69‑1 (MQ=255)
ccgcATCAATCGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGaa < 1:2473313/68‑1 (MQ=255)
tCAACCGGGAGATCATTGCCTTCCTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGAATAGCCg > 1:1904993/1‑69 (MQ=255)
tCAACCGGGAGATCATTGCCTTCCTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGAATAGCCg > 1:2191007/1‑69 (MQ=255)
tCAACCGGGAGATCATTGCCTTCCTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGAATAGCCg > 1:3200097/1‑69 (MQ=255)
tCAACCGGGAGATCATTGCCTTCCTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGAATAGCCg > 1:1720284/1‑69 (MQ=255)
cGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGAATAGCCGACGGc > 1:777163/1‑69 (MQ=255)
cGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGAATAGCCGACGGc > 1:1032910/1‑69 (MQ=255)
cGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGAATAGCCGACGGc > 1:705840/1‑69 (MQ=255)
cGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGAATAGCCGACGGc > 1:628881/1‑69 (MQ=255)
cGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGAATAGCCGACGGc > 1:1468558/1‑69 (MQ=255)
cGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGAATAGCCGACGGc > 1:1626001/1‑69 (MQ=255)
cGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGAATAGCCGACGGc > 1:3372575/1‑69 (MQ=255)
cGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGAATAGCCGACGGc > 1:3346832/1‑69 (MQ=255)
cGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGAATAGCCGACGGc > 1:3299184/1‑69 (MQ=255)
cGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGAATAGCCGACGGc > 1:2093844/1‑69 (MQ=255)
cGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGAATAGCCGACGGc > 1:3195315/1‑69 (MQ=255)
cGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGAATAGCCGACGGc > 1:1856849/1‑69 (MQ=255)
cGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCCAGCATATTACCGCAGAGCGAATAGCCGACGGc > 1:3094047/1‑69 (MQ=255)
cGGGAGATCATTGCCTTCTTTTGCCAGCAAACAGGCAAGCATATTACCGCCGAGCGAATAGCCGACGGc > 1:1957618/1‑69 (MQ=255)
ccttctttTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGaa < 1:3021406/45‑1 (MQ=255)
|
CTTCCAGCATAAACGGCGCAGAGACAATCACCGCCGCATCAACCGGGAGATCATTGCCTTCCTTTGCCAGCAAACAGGCCAGCATATTACCGCCGAGCGAATAGCCGACGGC > minE/2724614‑2724725
|
| 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
