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 |
942,074 |
G→T |
31.8% |
G116V (GGC→GTC) |
osmC → |
osmotically inducible, stress‑inducible membrane protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 942,074 | 0 | G | T | 31.8%
| 83.9
/ 41.9
| 69 | G116V (GGC→GTC) | osmC | osmotically inducible, stress‑inducible membrane protein |
| Reads supporting (aligned to +/- strand): ref base G (30/17); new base T (14/8); total (44/25) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.66e-01 |
TTTGCGATTACGAAAATCGCACTGAAGAGTGAAGTTGCGGTGCCGGGTATTGATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATGCCCGGTCTCTCAGGTACTGAAAGCGGAAAT > minE/942004‑942131
|
tttGCGATTACGAAAATCGCACTGAAGAGTGAAGTT‑‑GGTGCCGGGTATTGATGCCTCTACCTTTGACgg > 1:2861333/1‑69 (MQ=255)
cGATTACGAAAATCGCACTGAAGAGTGAAGTTGCGGTGCCGGGTATTGATGCCTCTACCTTTGACGGc < 1:1615940/68‑1 (MQ=255)
gagTGAAGTTGCGGTGCCGGGTATTGATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAg < 1:2549573/68‑1 (MQ=255)
gagTGAAGTTGCGGTGCCGGGTATTGATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAg < 1:2577642/68‑1 (MQ=255)
gagTGAAGTTGCGGTGCCGGGTATTGATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAg < 1:1686853/68‑1 (MQ=255)
gagTGAAGTTGCGGTGCCGGGTATTGATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAg < 1:1046865/68‑1 (MQ=255)
gagTGAAGTTGCGGTGCCGGGTATTGATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAg < 1:417730/68‑1 (MQ=255)
gagTGAAGTTGCGGTGCCGGGTATTGATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAg < 1:1126523/68‑1 (MQ=255)
gagTGAAGTTGCGGTGCCGGGTATTGATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAg < 1:3244411/68‑1 (MQ=255)
gagTGAAGTTGCGGTGCCGGGTATTGATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAg < 1:3233528/68‑1 (MQ=255)
gagTGAAGTTGCGGTGCCGGGTATTGATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAg < 1:1570973/68‑1 (MQ=255)
gagTGAAGTGGCGGTGCCGGGTATTGATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAg < 1:115243/68‑1 (MQ=255)
tGAAGTTGCGGTGCCGGGTATTGATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATg > 1:2166612/1‑69 (MQ=255)
tGAAGTTGCGGTGCCGGGTATTGATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATg > 1:2652564/1‑69 (MQ=255)
tGAAGTTGCGGTGCCGGGTATTGATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATg > 1:2846349/1‑69 (MQ=255)
tGAAGTTGCGGTGCCGGGTATTGATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATg > 1:288943/1‑69 (MQ=255)
tGAAGTTGCGGTGCCGGGTATTGATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATg > 1:517631/1‑69 (MQ=255)
tGAAGTTGCGGTGCCGGGTATTGATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATg > 1:1039784/1‑69 (MQ=255)
cgAAGTTGCGGTGCCGGGTATTGATGCCTCCACCTTTGACGTCATTATCCAGAAAGCAAAAGCAg < 1:282641/64‑1 (MQ=255)
cgAAGTTGCGGTGCCGGGTATTGATGCCTCCACCTTTGACGTCATTATCCAGAAAGCAAAAGCAg < 1:2675746/64‑1 (MQ=255)
cgAAGTTGCGGTGCCGGGTATTGATGCCTCCACCTTTGACGTCATTATCCAGAAAGCAAAAGCAg < 1:752162/64‑1 (MQ=255)
cgAAGTTGCGGTGCCGGGTATTGATGCCTCCACCTTTGACGTCATTATCCAGAAAGCAAAAGCAg < 1:962412/64‑1 (MQ=255)
cgAAGTTGCGGTGCCGGGTATTGATGCCTCCACCTTTGACGTCATTATCCAGAAAGCAAAAGCAg < 1:2260118/64‑1 (MQ=255)
cgAAGTTGCGGTGCCGGGTATTGATGCCTCCACCTTTGACGTCATTATCCAGAAAGCAAAAGCAg < 1:1029490/64‑1 (MQ=255)
cgAAGTTGCGGTGCCGGGTATTGATGCCTCCACCTTTGACGTCATTATCCAGAAAGCAAAAGCAg < 1:1010657/64‑1 (MQ=255)
cgAAGTTGCGGTGCCGGGTATTGATGCCTCCACCTTTGACGTCATTATCCAGAAAGCAAAAGCAg < 1:1616622/64‑1 (MQ=255)
aaGTTGCGGTGCCGGGTATTGATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATGcc > 1:144570/1‑69 (MQ=255)
aaGTTGCGGTGCCGGGTATTGATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATGcc > 1:1111204/1‑69 (MQ=255)
aaGTTGCGGTGCCGGGTATTGATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATGcc > 1:3076243/1‑69 (MQ=255)
aaGTTGCGGTGCCGGGTATTGATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATGcc > 1:1491820/1‑69 (MQ=255)
aaGTTGCGGTGCCGGGTATTGATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATGcc > 1:2349940/1‑69 (MQ=255)
aaGTTGCGGTGCCGGGTATTGATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATGcc > 1:2011076/1‑69 (MQ=255)
gTTGCGGTGCCGGGTATTGATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATGCCCg < 1:88688/69‑1 (MQ=255)
gTTGCGGTGCCGGGTATTGATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATGCCCg < 1:2746963/69‑1 (MQ=255)
ttGCGGTGCCGGGTATTGATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATGCCCg < 1:1997914/68‑1 (MQ=255)
gCCGGGTATTGATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATGCCCGGTCTCTCa > 1:3247765/1‑69 (MQ=255)
gCCGGGTATTGATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATGCCCGGTCTCTCa > 1:1554039/1‑69 (MQ=255)
gATGCCTGTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATGCCCGGTCTCTCAGGTACTGaaa > 1:2107983/1‑69 (MQ=255)
gATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATGCCCGGTCTCTCAGGTACTGaaa > 1:2299671/1‑69 (MQ=255)
gATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATGCCCGGTCTCTCAGGTACTGaaa > 1:2065727/1‑69 (MQ=255)
gATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATGCCCGGTCTCTCAGGTACTGaaa > 1:3402224/1‑69 (MQ=255)
gATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATGCCCGGTCTCTCAGGTACTGaaa > 1:2970330/1‑69 (MQ=255)
gATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATGCCCGGTCTCTCAGGTACTGaaa > 1:2613825/1‑69 (MQ=255)
gATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATGCCCGGTCTCTCAGGTACTGaaa > 1:2154319/1‑69 (MQ=255)
gCCTCTACCTTTGACGGCATAATCCAGaaagcaaaagca > 1:2273610/1‑39 (MQ=255)
gCCTCTACCTTTGACGGCATAATCCAGAAAGCATAAGCAGGATGCCCGGTCTCTCAGGTACTGAAAGc > 1:14000/1‑68 (MQ=255)
gCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATGCCCGGTCTCTCAGGTACTGaaa > 1:192252/1‑66 (MQ=255)
gCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATGCCCGGTCTCTCAGGTACTGAAAGc > 1:1628393/1‑68 (MQ=255)
gCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATGCCCGGTCTCTCAGGTACTGAAAGc > 1:2891870/1‑68 (MQ=255)
gCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATGCCCGGTCTCTCAGGTACTGAAAGc > 1:1043949/1‑68 (MQ=255)
gCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATGCCCGGTCTCTCAGGTACTGAAAGc > 1:3000943/1‑68 (MQ=255)
gCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATGCCCGGTCTCTCAGGTACTGAAAGc > 1:3226815/1‑68 (MQ=255)
tctACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATGCCCGGTCTCTCAGGTACTGAAAGCGGa < 1:796414/68‑1 (MQ=255)
ctACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATGCCCGGTCTCTCAGGTACTGAAAGCGGaa > 1:2392442/1‑68 (MQ=255)
ccTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATGCCCGGTCTCTCAGGTACTGAAAGCGGAAAt < 1:2246348/67‑1 (MQ=255)
ccTTTGACGGCATAATACAGAAAGCAAAAGCAGGATGCCCGGTCTCTCAGGTACTGAAAGCGGAAAt < 1:74027/67‑1 (MQ=255)
tGACGTCATTATCCAGAAAGCAAAAGCAGGATGCCCGGTTTCTCAgg > 1:1143033/1‑47 (MQ=255)
tGACGTCATTATCCAGAAAGCAAAAGCAGGATGCCCGGTTTCTCAGGt > 1:1997681/1‑48 (MQ=255)
tGACGTCATTATCCAGAAAGCAAAAGCAGGATGCCCGGTTTCTCAGGt > 1:2544812/1‑48 (MQ=255)
tGACGTCATTATCCAGAAAGCAAAAGCAGGATGCCCGGTTTCTCAGGt > 1:2484610/1‑48 (MQ=255)
tGACGTCATTATCCAGAAAGCAAAAGCAGGATGCCCGGTTTCTCAGGt > 1:409635/1‑48 (MQ=255)
tGACGTCATTATCCAGAAAGCAAAAGCAGGATGCCCGGTTTCTCAGGt > 1:1126371/1‑48 (MQ=255)
tGACGTCATTATCCAGAAAGCAAAAGCAGGATGCCCGGTTTCTCAGGt > 1:1263710/1‑48 (MQ=255)
tGACGTCATTATCCAGAAAGCAAAAGCAGGATGCCCGGTTTCTCAGGt > 1:1738066/1‑48 (MQ=255)
tGACGTCATTATCCAGAAAGCAAAAGCAGGATGCCCGGTTTCTCAGGt > 1:2955928/1‑48 (MQ=255)
tGACGTCATTATCCAGAAAGCAAAAGCAGGATGCCCGGTTTCTCAGGt > 1:777412/1‑48 (MQ=255)
tGACGTCATTATCCAGAAAGCAAAAGCAGGATGCCCGGTTTCTCAGGt > 1:294075/1‑48 (MQ=255)
tGACGTCATTATCCAGAAAGCAAAAGCAGGATGCCCGGTTTCTCAGGt > 1:2583818/1‑48 (MQ=255)
tGACGTCATTATCCAGAAAGCAAAAGCAGGATGCCCGGTTTCTCAGGt > 1:958563/1‑48 (MQ=255)
tGACGTCATTATCCAGAAAGCAAAAGCAGGATGCCCGGTTTCTCAGGt > 1:1979962/1‑48 (MQ=255)
|
TTTGCGATTACGAAAATCGCACTGAAGAGTGAAGTTGCGGTGCCGGGTATTGATGCCTCTACCTTTGACGGCATAATCCAGAAAGCAAAAGCAGGATGCCCGGTCTCTCAGGTACTGAAAGCGGAAAT > minE/942004‑942131
|
| 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
