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 |
289,285 |
G→A |
26.1% |
T643T (ACG→ACA) |
lon → |
DNA‑binding ATP‑dependent protease La |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 289,285 | 0 | G | A | 26.1%
| 70.2
/ 20.4
| 61 | T643T (ACG→ACA) | lon | DNA‑binding ATP‑dependent protease La |
| Reads supporting (aligned to +/- strand): ref base G (25/20); new base A (8/8); total (33/28) |
| Fisher's exact test for biased strand distribution p-value = 7.75e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.76e-01 |
AAGGCAAACTGACCTATACCGGTTCGCTCGGCGAAGTGATGCAGGAGTCCATTCAGGCGGCGTTAACGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGTGACATCCA > minE/289218‑289350
|
aaGGCAAACTGACCTATACCGGTTCGCTCGGCGAAGTGATGCAGGAGTCCATTCAGGCGGCGTTAACgg > 1:836847/1‑69 (MQ=255)
aaGGCAAACTGACCTATACCGGTTCGCTCGGCGAAGTGATGCAGGAGTCCATTCAGGCGGCGTTAACgg > 1:399938/1‑69 (MQ=255)
aCCTATACCGGTTCGCTCGGCGAAGTGATGCAGGAGTCCATTCAGGCGGCGTTAACGGTGGTTcgtgcg > 1:2428942/1‑69 (MQ=255)
aCCTATACCGGTTCGCTCGGCGAAGTGATGCAGGAGTCCATTCAGGCGGCGTTAACGGTGGTTcgtgcg > 1:2834026/1‑69 (MQ=255)
aCCTATACCGGTTCGCTCGGCGAAGTGATGCAGGAGTCCATTCAGGCGGCGTTAACGGTGGTTcgtgcg > 1:821351/1‑69 (MQ=255)
aCCTATACCGGTTCGCTCGGCGAAGTGATGCAGGAGTCCATTCAGGCGGCGTTAACGGTGGTTcgtgc > 1:905907/1‑68 (MQ=255)
aCCTATACCGGTTCGCTCGGCGAAGTGATGCAGGAGTCCATTCAGGCGGCGTTAACGGTGGTTcgtgc > 1:2478921/1‑68 (MQ=255)
aCCTATACCGGTTCGCTCGGCGAAGTGATGCAGGAGTCCATTCAGGCGGCGTTAACGGTGGTTcgtgc > 1:2845227/1‑68 (MQ=255)
cTATACCGGTTCGCTCGGCGAAGTGATGCAGGAGTCCATTCAGGCGGCGTTAACGGTGGTTcgtgcg < 1:2735318/67‑1 (MQ=255)
cTATACCGGTTCGCTCGGCGAAGTGATGCAGGAGTCCATTCAGGCGGCGTTAACGGTGGTTcgtgcg < 1:1243243/67‑1 (MQ=255)
cTATACCGGTTCGCTCGGCGAAGTGATGCAGGAGTCCATTCAGGCGGCGTTAACGGTGGTTcgtgcg < 1:2322496/67‑1 (MQ=255)
cTATACCGGTTCGCTCGGCGAAGTGATGCAGGAGTCCATTCAGGCGGCGTTAACGGTGGTTcgtgcg < 1:2200297/67‑1 (MQ=255)
cTATACCGGTTCGCTCGGCGAAGTGATGCAGGAGTCCATTCAGGCGGCGTTAACGGTGGTTcgtgcg < 1:310870/67‑1 (MQ=255)
taCCGGTTCGCTCGGCGAAGTGATGCAGGAGTCCATTCAGGCGGCGTTAACGGTGGTTcgtgcgcgtg > 1:2225484/1‑68 (MQ=255)
ccGGTTCGCTCGGCGAAGTGATGCAGGAGTCCATTCAGGCGGCGTTAACGGTGGTTcgtgcgcgtgcg > 1:166754/1‑68 (MQ=255)
ccGGTTCGCTCGGCGAAGTGATGCAGGAGTCCATTCAGGCGGCGTTAACGGTGGTTcgtgcgcgtgc > 1:2027336/1‑67 (MQ=255)
gAAGTGATGCAGGAGTCTATTCAGGCGGCGTTAACAGTGGTTCGTGCGCGTGCGGAAAAACTggg > 1:2077347/1‑65 (MQ=255)
gAAGTGATGCAGGAGTCTATTCAGGCGGCGTTAACAGTGGTTCGTGCGCGTGCGGAAAAACTggg > 1:3329285/1‑65 (MQ=255)
gAAGTGATGCAGGAGTCTATTCAGGCGGCGTTAACAGTGGTTCGTGCGCGTGCGGAAAAACTggg > 1:2939539/1‑65 (MQ=255)
gAAGTGATGCAGGAGTCTATTCAGGCGGCGTTAACAGTGGTTCGTGCGCGTGCGGAAAAACTggg > 1:764517/1‑65 (MQ=255)
gAAGTGATGCAGGAGTCTATTCAGGCGGCGTTAACAGTGGTTCGTGCGCGTGCGGAAAAACTggg > 1:546090/1‑65 (MQ=255)
gAAGTGATGCAGGAGTCTATTCAGGCGGCGTTAACAGTGGTTCGTGCGCGTGCGGAAAAACTggg > 1:880730/1‑65 (MQ=255)
gAAGTGATGCAGGAGTCTATTCAGGCGGCGTTAACAGTGGTTCGTGCGCGTGCGGAAAAACTggg > 1:1670946/1‑65 (MQ=255)
gAAGTGATGCAGGAGTCTATTCAGGCGGCGTTAACAGTGGTTCGTGCGCGTGCGGAAAAACTggg > 1:1148358/1‑65 (MQ=255)
gATGCAGGAGTCCATTCAGGCGGCGTTAACGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAAcc > 1:732517/1‑68 (MQ=255)
aTGCAGGAGTCCATTCAGGCGGCGTTAACGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCt > 1:3241194/1‑69 (MQ=255)
aTGCAGGAGTCCATTCAGGCGGCGTTAACGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCt > 1:3382738/1‑69 (MQ=255)
aTGCAGGAGTCCATTCAGGCGGCGTTAACGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCt > 1:27390/1‑69 (MQ=255)
aTGCAGGAGTCCATTCAGGCGGCGTTAACGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCt > 1:1551901/1‑69 (MQ=255)
gTCCATTCAGGCGGCGTTAACGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGAttttt > 1:1534370/1‑68 (MQ=255)
gTCCATTCAGGCGGCGTTAACGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGAttttt > 1:2201664/1‑68 (MQ=255)
gcggcgTTAACGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGt < 1:1141961/69‑1 (MQ=255)
gcggcgTTAACGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGt < 1:2770340/69‑1 (MQ=255)
gcggcgTTAACGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGt < 1:782128/69‑1 (MQ=255)
gcggcgTTAACGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGt < 1:458002/69‑1 (MQ=255)
gcggcgTTAACAGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGt < 1:183888/69‑1 (MQ=255)
gcggcgTTAACAGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGt < 1:1364912/69‑1 (MQ=255)
gcggcgTTAACAGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGt < 1:1525682/69‑1 (MQ=255)
gcggcgTTAACAGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGt < 1:3420420/69‑1 (MQ=255)
gcggcgTTAACAGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGt < 1:2108357/69‑1 (MQ=255)
gcggcgTTAACAGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGt < 1:1042109/69‑1 (MQ=255)
gcggcgTTAACAGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGt < 1:233016/69‑1 (MQ=255)
gcggcgTTAACAGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGt < 1:3097220/69‑1 (MQ=255)
cggcgTTAACGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGt < 1:3182216/68‑1 (MQ=255)
cggcgTTAACGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGTg < 1:670724/69‑1 (MQ=255)
cggcgTTAACGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGTg < 1:1465356/69‑1 (MQ=255)
cggcgTTAACGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGTg < 1:757650/69‑1 (MQ=255)
cggcgTTAACGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGTg < 1:744014/69‑1 (MQ=255)
cggcgTTAACGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGTg < 1:719500/69‑1 (MQ=255)
cggcgTTAACGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGTg < 1:3155109/69‑1 (MQ=255)
cggcgTTAACGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGTg < 1:572252/69‑1 (MQ=255)
cggcgTTAACGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGTg < 1:1783958/69‑1 (MQ=255)
aaCGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGTGCCAtcca > 1:2198268/1‑69 (MQ=255)
aaCGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGTGACAtcca > 1:1733049/1‑69 (MQ=255)
aaCGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGTGACAtcca > 1:730344/1‑69 (MQ=255)
aaCGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGTGACAtcca > 1:2675253/1‑69 (MQ=255)
aaCGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGTGACAtcca > 1:3123679/1‑69 (MQ=255)
aaCGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGTGACAtcca < 1:2378701/69‑1 (MQ=255)
aaCGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGTGACAtcca > 1:280676/1‑69 (MQ=255)
aaCGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGTGACAtcca > 1:2195499/1‑69 (MQ=255)
aaCGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGTGACAtcca > 1:3189261/1‑69 (MQ=255)
aaCGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGTGACAtcca > 1:244045/1‑69 (MQ=255)
aaCGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGTGACAtcca < 1:2694300/69‑1 (MQ=255)
|
AAGGCAAACTGACCTATACCGGTTCGCTCGGCGAAGTGATGCAGGAGTCCATTCAGGCGGCGTTAACGGTGGTTCGTGCGCGTGCGGAAAAACTGGGGATCAACCCTGATTTTTACGAAAAACGTGACATCCA > minE/289218‑289350
|
| 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
