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 |
2,183,240 |
G→A |
46.1% |
E1172E (GAG→GAA) |
gltB → |
glutamate synthase, large subunit |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,183,240 | 0 | G | A | 46.1%
| 8.4
/ 52.4
| 65 | E1172E (GAG→GAA) | gltB | glutamate synthase, large subunit |
| Reads supporting (aligned to +/- strand): ref base G (13/22); new base A (11/19); total (24/41) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CAGGATGACAAACTGCGTAAGAACCACTATCACGGCCTGCCATTCAAGGTGACGAATTACTTTGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGA > minE/2183175‑2183304
|
cAGGATGACAAACTGCGTAAGAACCACTATCACGGCCTGCCATTCAAGGTGACGAATTACTTTGAGttt < 1:938810/69‑1 (MQ=255)
cAGGATGACAAACTGCGTAAGAACCACTATCACGGCCTGCCATTCAAGGTGACGAATTACTTTGAGttt < 1:3416095/69‑1 (MQ=255)
tGCGTAAGAACCACTATCACGGCCTGCCATTCAAGGTGACGAATTACTTTGAGTTTATCGCCCGTGaaa < 1:3107955/69‑1 (MQ=255)
aCCACTATCACGGCCTGCCATTCAAGGTGACGAATTACTTTGAGTTTATCGCCCGTGAAACCCGCGAg > 1:2086867/1‑68 (MQ=255)
aCCACTATCACGGCCTGCCATTCAAGGTGACGAATTACTTTGAGTTTATCGCCCGTGAAACCCGCGAg > 1:251866/1‑68 (MQ=255)
aCCACTATCACGGCCTGCCATTCAAGGTGACGAATTACTTTGAGTTTATCGCCCGTGAAACCCGCGAg > 1:2562227/1‑68 (MQ=255)
aCCACTATCACGGCCTGCCATTCAAGGTGACGAATTACTTTGAGTTTATCGCCCGTGAAACCCGCGAg > 1:275429/1‑68 (MQ=255)
aCCACTATCACGGCCTGCCATTCAAGGTGACGAATTACTTTGAGTTTATCGCCCGTGAAACCCGCGAg > 1:1454877/1‑68 (MQ=255)
cACTATCACGGCCTGCCATTCAAGGTTACGAATTACTTTGAGTTTATCGCCCGTGAAACCCGCGAGCt < 1:330542/68‑1 (MQ=255)
cACTATCACGGCCTGCCATTCAAGGTGACGAATTACTTTGAGTTTATCGCCCGTGAAACCCGCGAGCt < 1:181779/68‑1 (MQ=255)
cACTATCACGGCCTGCCATTCAAGGTGACGAATTACTTTGAGTTTATCGCCCGTGAAACCCGCGAGCt < 1:1384676/68‑1 (MQ=255)
cACTATCACGGCCTGCCATTCAAGGTGACGAATTACTTTGAGTTTATCGCCCGTGAAACCCGCGAGCt < 1:2272918/68‑1 (MQ=255)
aCTATCACGGCCTGCCATTCAAGGTGACGAATTACTTTGAGTTTATCGCCCGTGAAACCCGCGAGCTGa > 1:1403252/1‑69 (MQ=255)
aCTATCACGGCCTGCCATTCAAGGTAACGAATTACTTTGAGTTTATCGCCCGTGAAACCCGCGAGCTGa > 1:1749127/1‑69 (MQ=255)
cTATCACGGCCTGCCATTCAAGGTGACGAATTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGAt > 1:2964245/1‑69 (MQ=255)
cTATCACGGCCTGCCATTCAAGGTGACGAATTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGAt > 1:2902941/1‑69 (MQ=255)
cTATCACGGCCTGCCATTCAAGGTGACGAATTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGAt > 1:425398/1‑69 (MQ=255)
cTATCACGGCCTGCCATTCAAGGTGACGAATTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGAt > 1:831913/1‑69 (MQ=255)
cTATCACGGCCTGCCATTCAAGGTGACGAATTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGAt > 1:2116110/1‑69 (MQ=255)
cTATCACGGCCTGCCATTCAAGGTGACGAATTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGAt > 1:951117/1‑69 (MQ=255)
cTATCACGGCCTGCCATTCAAGGTGACGAATTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGAt > 1:1083758/1‑69 (MQ=255)
cTATCACGGCCTGCCATTCAAGGTGACGAATTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGAt > 1:1283896/1‑69 (MQ=255)
cTATCACGGCCTGCCATTCAAGGTGACGAATTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGAt > 1:1407531/1‑69 (MQ=255)
cTATCACGGCCTGCCATTCAAGGTGACGAATTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGAt > 1:1336597/1‑69 (MQ=255)
cTATCACGGCCTGCCATTCAAGGTGACGAATTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGAt > 1:1359752/1‑69 (MQ=255)
cAAGGTGACGAATTACTTTGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTaa > 1:2095017/1‑68 (MQ=255)
cAAGGTGACGAATTACTTTGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAac > 1:2127412/1‑69 (MQ=255)
cAAGGTGACGAATTACTTTGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAac > 1:858721/1‑69 (MQ=255)
cAAGGTGACGAATTACTTTGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAac > 1:1817550/1‑69 (MQ=255)
cAAGGTGACGAATTACTTTGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAac > 1:2616827/1‑69 (MQ=255)
aaTTACTTTGAATTTATCGCCCGTGAAACCTGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg < 1:2700259/69‑1 (MQ=255)
aaTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg < 1:3169364/69‑1 (MQ=255)
aaTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg < 1:1624871/69‑1 (MQ=255)
aaTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg < 1:3302912/69‑1 (MQ=255)
aaTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg < 1:2874393/69‑1 (MQ=255)
aaTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg < 1:2763931/69‑1 (MQ=255)
aaTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg < 1:2607554/69‑1 (MQ=255)
aaTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg < 1:2568197/69‑1 (MQ=255)
aaTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg < 1:1849582/69‑1 (MQ=255)
aaTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg < 1:531840/69‑1 (MQ=255)
aaTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg < 1:623867/69‑1 (MQ=255)
aaTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg < 1:2407961/69‑1 (MQ=255)
aaTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg < 1:777590/69‑1 (MQ=255)
aaTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg < 1:2272949/69‑1 (MQ=255)
aaTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg < 1:1062326/69‑1 (MQ=255)
aaTTACTTTGAATTTATCGCCCGTAAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg < 1:2114303/69‑1 (MQ=255)
aTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg < 1:3205149/68‑1 (MQ=255)
aTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg < 1:213027/68‑1 (MQ=255)
aTTACTTTGAATTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTGGGCGTAACACGTCtggtg < 1:610816/68‑1 (MQ=255)
tttGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCt < 1:1568929/68‑1 (MQ=255)
tttGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCt < 1:2027774/68‑1 (MQ=255)
tttGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCt < 1:82702/68‑1 (MQ=255)
ttGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTg < 1:1917901/68‑1 (MQ=255)
ttGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTg < 1:2504694/68‑1 (MQ=255)
ttGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTg < 1:1818415/68‑1 (MQ=255)
ttGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTg < 1:2417586/68‑1 (MQ=255)
ttGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTg < 1:695210/68‑1 (MQ=255)
ttGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTg < 1:231637/68‑1 (MQ=255)
ttGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTg < 1:78273/68‑1 (MQ=255)
ttGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTg < 1:28719/68‑1 (MQ=255)
ttGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTg < 1:2882245/68‑1 (MQ=255)
ttGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTg < 1:886269/68‑1 (MQ=255)
ttGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTg < 1:2125916/68‑1 (MQ=255)
ttGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTg < 1:3114333/68‑1 (MQ=255)
ttGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGa > 1:1962934/1‑69 (MQ=255)
|
CAGGATGACAAACTGCGTAAGAACCACTATCACGGCCTGCCATTCAAGGTGACGAATTACTTTGAGTTTATCGCCCGTGAAACCCGCGAGCTGATGGCACAGCTTGGCGTAACACGTCTGGTGGATCTGA > minE/2183175‑2183304
|
| 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
