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 |
1,097,286 |
T→C |
39.5% |
S174S (AGT→AGC) |
ydiK → |
predicted inner membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,097,286 | 0 | T | C | 39.5%
| 14.8
/ 27.3
| 43 | S174S (AGT→AGC) | ydiK | predicted inner membrane protein |
| Reads supporting (aligned to +/- strand): ref base T (18/8); new base C (9/8); total (27/16) |
| Fisher's exact test for biased strand distribution p-value = 3.43e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.61e-01 |
CGTTGGGCAGGCGGCGCATATCGGGCGCTTTATGGTGCATTGTGCGCTGATGCTTCTCTTCAGTGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCATTCGCCATTTTGCAACCCGTCT > minE/1097223‑1097348
|
cGTTGGGCAGGCGGCGCATATCGGGCGCTTTATGGTGCATTGTGCGCTGATGCTTCTCTTCAGTGc < 1:563959/66‑1 (MQ=255)
tCGGGCGCTTTATGGTGCATTGTGCGCTGATGCTTCTCTTCAGTGCCCTGCTGTACTGGCGCGGTGAAc > 1:3326169/1‑69 (MQ=255)
tCGGGCGCTTTATGGTGCATTGTGCGCTGATGCTTCTCTTCAGTGCCCTGCTGTACTGGCGCGGTGAAc > 1:2174991/1‑69 (MQ=255)
tCGGGCGCTTTATGGTGCATTGTGCGCTGATGCTTCTCTTCAGTGCCCTGCTGTACTGGCGCGGTGAAc > 1:925934/1‑69 (MQ=255)
gTGCATTGTGCGCTGATGCTTCTCTTCAGTGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAgg < 1:2945745/68‑1 (MQ=255)
gTGCATTGTGCGCTGATGCTTCTCTTCAGTGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAgg < 1:649473/68‑1 (MQ=255)
gCATTGTGCGCTGATGCTTCTCTTCAGCGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCAt < 1:1324718/69‑1 (MQ=255)
gCATTGTGCGCTGATGCTTCTCTTCAGCGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCAt < 1:1303878/69‑1 (MQ=255)
gCATTGTGCGCTGATGCTTCTCTTCAGCGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCAt < 1:1592297/69‑1 (MQ=255)
gCATTGTGCGCTGATGCTTCTCTTCAGCGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCAt < 1:1713416/69‑1 (MQ=255)
gCATTGTGCGCTGATGCTTCTCTTCAGCGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCAt < 1:2692114/69‑1 (MQ=255)
gCATTGTGCGCTGATGCTTCTCTTCAGCGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCAt < 1:1925863/69‑1 (MQ=255)
gCATTGTGCGCTGATGCTTCTCTTCAGCGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCAt < 1:2616449/69‑1 (MQ=255)
gCATTGTGCGCTGATGCTTCTCTTCAGCGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCAt < 1:1177205/69‑1 (MQ=255)
cATTGTGCGCTGATGCTTCTCTTCAGTGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCAtt > 1:1328571/1‑69 (MQ=255)
cATTGTGCGCTGATGCTTCTCTTCAGTGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCAtt > 1:3143593/1‑69 (MQ=255)
cATTGTGCGCTGATGCTTCTCTTCAGTGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCAtt > 1:1228944/1‑69 (MQ=255)
cATTGTGCGCTGATGCTTCTCTTCAGTGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCAtt > 1:3403025/1‑69 (MQ=255)
cATTGTGCGCTGATGCTTCTCTTCAGTGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCAt > 1:17685/1‑68 (MQ=255)
cATTGTGCGCTGATGCTTCTCTTCAGTGCCCTGCTGTACTG‑‑GCGGTGAACAGGTGGCACAAGGCATTc > 1:408406/1‑68 (MQ=255)
tgtgCGCTGATGCTTCTCTTCAGTGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCATTCGc < 1:3191867/69‑1 (MQ=255)
tgtgCGCTGATGCTTCTCTTCAGTGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCATTCGc < 1:1037979/69‑1 (MQ=255)
tgtgCGCTGATGCTTCTCTTCAGTGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCATTCGc < 1:2038285/69‑1 (MQ=255)
tgtgCGCTGATGCTTCTCTTCAGTGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCATTCGc < 1:63620/69‑1 (MQ=255)
tgtgCGCTGATGCTTCTCTTCAGTGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCATTCGc < 1:1751973/69‑1 (MQ=255)
gtgCGCTGATGCTTCTCTTCAGTGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCATTCGcc > 1:3030050/1‑69 (MQ=255)
aTGCTTCTCTTCAGCGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCAt > 1:1657175/1‑56 (MQ=255)
aTGCTTCTCTTCAGCGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCATTCGCCATTTTGCa > 1:319347/1‑69 (MQ=255)
aTGCTTCTCTTCAGCGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCATTCGCCATTTTGCa > 1:1040135/1‑69 (MQ=255)
aTGCTTCTCTTCAGCGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCATTCGCCATTTTGCa > 1:3082336/1‑69 (MQ=255)
aTGCTTCTCTTCAGCGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCATTCGCCATTTTGCa > 1:287161/1‑69 (MQ=255)
aTGCTTCTCTTCAGCGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCATTCGCCATTTTGCa > 1:2180242/1‑69 (MQ=255)
aTGCTTCTCTTCAGCGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCATTCGCCATTTTGCa > 1:1962839/1‑69 (MQ=255)
aTGCTTCTCTTCAGCGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCATTCGCCATTTTGCa > 1:1576368/1‑69 (MQ=255)
aTGCTTCTCTTCAGCGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCATTCGCCATTTTGCa > 1:1524719/1‑69 (MQ=255)
ttCAGTGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCATTCGCCATTTTGCAACCCGTCt > 1:3014954/1‑68 (MQ=255)
ttCAGTGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCATTCGCCATTTTGCAACCCGTCt > 1:2895912/1‑68 (MQ=255)
ttCAGTGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCATTCGCCATTTTGCAACCCGTCt > 1:2805775/1‑68 (MQ=255)
ttCAGTGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCATTCGCCATTTTGCAACCCGTCt > 1:3421623/1‑68 (MQ=255)
ttCAGTGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCATTCGCCATTTTGCAACCCGTCt > 1:1963470/1‑68 (MQ=255)
ttCAGTGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCATTCGCCATTTTGCAACCCGTCt > 1:607977/1‑68 (MQ=255)
ttCAGTGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCATTCGCCATTTTGCAACCCGTCt > 1:1914891/1‑68 (MQ=255)
ttCAGTGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCATTCGCCATTTTGAAACCCGTCt > 1:2232796/1‑68 (MQ=255)
|
CGTTGGGCAGGCGGCGCATATCGGGCGCTTTATGGTGCATTGTGCGCTGATGCTTCTCTTCAGTGCCCTGCTGTACTGGCGCGGTGAACAGGTGGCACAAGGCATTCGCCATTTTGCAACCCGTCT > minE/1097223‑1097348
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
