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 |
1,898,833 |
C→T |
60.7% |
Q222Q (CAG→CAA) |
recD ← |
exonuclease V (RecBCD complex), alpha chain |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,898,833 | 0 | C | T | 60.7%
| 25.2
/ 40.4
| 61 | Q222Q (CAG→CAA) | recD | exonuclease V (RecBCD complex), alpha chain |
| Reads supporting (aligned to +/- strand): ref base C (14/10); new base T (28/9); total (42/19) |
| Fisher's exact test for biased strand distribution p-value = 1.70e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.18e-01 |
GGTGCAAAGTGCTGGCATCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAACTGTCGCAAAGCCTTGCCGAGAGATTCGGTTAAGCGCGCGGCAGCTTTACCCGTTGGTGCA > minE/1898775‑1898893
|
ggTGCAAAGTGCTGGCATCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAACTGTCGCAAAg < 1:2753446/69‑1 (MQ=255)
ggTGCAAAGTGCTGGCATCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAACTGTCGCAAAg < 1:744643/69‑1 (MQ=255)
ggTGCAAAGTGCTGGCATCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAACTGTCGCAAAg < 1:2698583/69‑1 (MQ=255)
ggTGCAAAGTGCTGGCATCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAACTGTCGCAAAg < 1:2123207/69‑1 (MQ=255)
tGCAAAGTGCTGGCATCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAACTGTCTCAAAGc < 1:911/68‑1 (MQ=255)
tGCAAAGTGCTGGCATCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAACTGTCGCAAAGc < 1:3274919/68‑1 (MQ=255)
tGCAAAGTGCTGGCATCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAACTGTCGCAAAGc < 1:2954325/68‑1 (MQ=255)
tGCAAAGTGCTGGCATCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAACTGTCGCAAAGc < 1:668408/68‑1 (MQ=255)
tGCAAAGTGCTGGCATCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAACTGTCGCAAAGc < 1:660176/68‑1 (MQ=255)
tGCAAAGTGCTGGCATCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAACTGTCGCAAAGc < 1:174238/68‑1 (MQ=255)
gTGCTGGCATCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAACTGTCGCAAAGCCTTg > 1:1821496/1‑66 (MQ=255)
cTGGCATCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAACTGTCGCAAAGCCTTGcc > 1:1705326/1‑65 (MQ=255)
aTCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAACTGTCGCAAAGCCTTGCCGAGAGATTc > 1:1436245/1‑69 (MQ=255)
tcctCCGGAATGCGTTTCTTTTGTTCAT‑GGTCAGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTCg > 1:2784127/4‑68 (MQ=255)
tCTTCCGGAATGCGTTTCTTTTGTTCATCGGTGAGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTc > 1:2106968/1‑68 (MQ=255)
tCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTc > 1:2159918/1‑68 (MQ=255)
tCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTc > 1:219899/1‑68 (MQ=255)
tCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTc > 1:2556396/1‑68 (MQ=255)
tCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTc > 1:593703/1‑68 (MQ=255)
tCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTc > 1:35772/1‑68 (MQ=255)
tCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTc > 1:1766312/1‑68 (MQ=255)
tCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTc > 1:1874844/1‑68 (MQ=255)
tCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTc > 1:783627/1‑68 (MQ=255)
tCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTCg > 1:2564719/1‑69 (MQ=255)
tCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTCg > 1:107544/1‑69 (MQ=255)
tCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTCg > 1:3057903/1‑69 (MQ=255)
tCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTCg > 1:2974366/1‑69 (MQ=255)
tCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTCg > 1:115358/1‑69 (MQ=255)
tCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTCg > 1:2897097/1‑69 (MQ=255)
tCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTCg > 1:1165060/1‑69 (MQ=255)
tCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTCg > 1:1555350/1‑69 (MQ=255)
tCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTCg > 1:1943514/1‑69 (MQ=255)
tCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTCg > 1:1058904/1‑69 (MQ=255)
tCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTCg > 1:2437037/1‑69 (MQ=255)
tCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTCg > 1:2435756/1‑69 (MQ=255)
tCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTCg > 1:2387649/1‑69 (MQ=255)
tCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTCg > 1:845494/1‑69 (MQ=255)
tCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGAAATTGTCGCAAAGCCTTGCCGAGAGATTCg > 1:3080494/1‑69 (MQ=255)
ttCCGGAATGCGTTTCTTTTGTTCATCGGTTAGCGGTAACTGTCGCAAAGCCTTGCCGAGAGATTCgg > 1:135571/1‑68 (MQ=255)
ttCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAACTGTCGCAAAGCCTTGCCGAGAGATTCgg > 1:2365755/1‑68 (MQ=255)
ttCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAACTGTCGCAAAGCCTTGCCGAGAGATTCg > 1:658260/1‑67 (MQ=255)
tCTTTTGTTCATCGGTCAGCGGTAACTGTCGCAAAGCCTTGCCgagag > 1:2120042/1‑48 (MQ=255)
tCTTTTGTTCATCGGTCAGCGGTAACTGTCGCAAAGCCTTGCCGAGAGATTCGGTTaa > 1:2168670/1‑58 (MQ=255)
tCTTTTGTTCATCGGTCAGCGGTAACTGTCGCAAAGCCTTGCCGAGAGATTCGGTTAAGCGCGCGGCAg > 1:795182/1‑69 (MQ=255)
tCTTTTGTTCATCGGTCAGCGGTAACTGTCGCAAAGCCTTGCCGAGAGATTCGGTTAAGCGCGCGGCAg > 1:2443657/1‑69 (MQ=255)
tCTTTTGTTCATCGGTCAGCGGTAACTGTCGCAAAGCCTTGCCGAGAGATTCGGTTAAGCGCGCGGCAg > 1:2266127/1‑69 (MQ=255)
tCTTTTGTTCATCGGTCAGCGGTAACTGTCGCAAAGCCTTGCCGAGAGATTCGGTTAAGCGCGCGGCAg > 1:2230096/1‑69 (MQ=255)
tCTTTTGTTCATCGGTCAGCGGTAACTGTCGCAAAGCCTTGCCGAGAGATTCGGTTAAGCGCGCGGCAg > 1:1966511/1‑69 (MQ=255)
tCTTTTGTTCATCGGTCAGCGGTAACTGTCGCAAAGCCTTGCCGAGAGATTCGGTTAAGCGCGCGGCAg > 1:1141885/1‑69 (MQ=255)
tCGGTCAGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTCGGTTAAGCGCGCGGCAGCTTTACCCGtt > 1:257100/1‑69 (MQ=255)
tCGGTCAGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTCGGTTAAGCGCGCGGCAGCTTTACCCGtt > 1:213213/1‑69 (MQ=255)
tCGGTCAGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTCGGTTAAGCGCGCGGCAGCTTTACCCGtt > 1:914267/1‑69 (MQ=255)
aGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTCGGTTAAGCGCGCGGCAGCTTTACCCGTTGGTGCa < 1:3423337/69‑1 (MQ=255)
aGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTCGGTTAAGCGCGCGGCAGCTTTACCCGTTGGTGCa < 1:271726/69‑1 (MQ=255)
aGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTCGGTTAAGCGCGCGGCAGCTTTACCCGTTGGTGCa < 1:509073/69‑1 (MQ=255)
aGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTCGGTTAAGCGCGCGGCAGCTTTACCCGTTGGTGCa < 1:2704542/69‑1 (MQ=255)
aGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTCGGTTAAGCGCGCGGCAGCTTTACCCGTTGGTGCa < 1:2314643/69‑1 (MQ=255)
aGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTCGGTTAAGCGCGCGGCAGCTTTACCCGTTGGTGCa < 1:714867/69‑1 (MQ=255)
aGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTCGGTTAAGCGCGCGGCAGCTTTACCCGTTGGTGCa < 1:718865/69‑1 (MQ=255)
aGCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTCGGTTAAGCGCGCGGCAGCTTTACCCGTTGGTGCa < 1:2044983/69‑1 (MQ=255)
gCGGTAATTGTCGCAAAGCCTTGCCGAGAGATTCGGTTAAGCGCGCGGCAGCTTTACCCGTTGGTGCa < 1:3380302/68‑1 (MQ=255)
|
GGTGCAAAGTGCTGGCATCTTCCGGAATGCGTTTCTTTTGTTCATCGGTCAGCGGTAACTGTCGCAAAGCCTTGCCGAGAGATTCGGTTAAGCGCGCGGCAGCTTTACCCGTTGGTGCA > minE/1898775‑1898893
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
