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 |
276,399 |
T→C |
53.4% |
G39G (GGA→GGG) |
cyoD ← |
cytochrome o ubiquinol oxidase subunit IV |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 276,399 | 0 | T | C | 53.4%
| 8.8
/ 62.3
| 75 | G39G (GGA→GGG) | cyoD | cytochrome o ubiquinol oxidase subunit IV |
| Reads supporting (aligned to +/- strand): ref base T (18/17); new base C (30/10); total (48/27) |
| Fisher's exact test for biased strand distribution p-value = 5.31e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
GCACCAGAACCTGTACCACTGCCATTGCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAGGATAAAGCCTGTCA > minE/276335‑276460
|
gCACCAGAACCTGTACCACTGCCATTGCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCt > 1:2734635/1‑68 (MQ=255)
gCACCAGAACCTGTACCACTGCCATTGCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCt > 1:2655000/1‑68 (MQ=255)
gCACCAGAACCTGTACCACTGCCATTGCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCt > 1:3208602/1‑68 (MQ=255)
ccAGAACCTGTACCACTGCCATTGCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCTGtc > 1:1808277/1‑68 (MQ=255)
ccAGAACCTGTACCACTGCCATTGCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCTGtc > 1:1636406/1‑68 (MQ=255)
ccAGAACCTGTACCACTGCCATTGCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCTGtc > 1:86200/1‑68 (MQ=255)
tcccATTGCCAGGATTGTTCCCAGAATTACGTCCGGAGAGGCAGCTCCTGTCATCACCATCCAGAACgg < 1:1120567/67‑1 (MQ=255)
tGCCATTGCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCTGTCATCACCATCCATAACgg < 1:2350410/69‑1 (MQ=255)
tGCCATTGCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCTGTCATCACCATCCAGAACgg < 1:70532/69‑1 (MQ=255)
tGCCATTGCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCTGTCATCACCATCCAGAACgg < 1:541959/69‑1 (MQ=255)
tGCCATTGCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCTGTCATCACCATCCAGAACgg < 1:3127611/69‑1 (MQ=255)
tGCCATTGCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCTGTCATCACCATCCAGAACgg < 1:2382931/69‑1 (MQ=255)
tGCCATTGCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCTGTCATCACCATCCAGAACgg < 1:909637/69‑1 (MQ=255)
gCCATTGCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCTGtc > 1:1338941/1‑51 (MQ=255)
gCCATTGCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCTGtc > 1:3328155/1‑51 (MQ=255)
gCCATTGCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCTGtc > 1:1583307/1‑51 (MQ=255)
gCCATTGCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCTGtc > 1:867325/1‑51 (MQ=255)
gCCATTGCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCTGt > 1:1022151/1‑50 (MQ=255)
gCCATTGCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCTGTCATCACCATCCAGAACGGa < 1:2382829/69‑1 (MQ=255)
gCCATTGCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCTGTCATCACCATCCAGAACGGa < 1:903774/69‑1 (MQ=255)
gCCATTGCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCTGTCATCACCATCCAGAACGGa < 1:1840326/69‑1 (MQ=255)
gCCATTGCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCTGTCATCACCATCCAGAACGGa < 1:126686/69‑1 (MQ=255)
gCCATTGCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCTGTCATCACCATCCAGAACGGa < 1:1621119/69‑1 (MQ=255)
gCCATTGCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCTGTCATCACCATCCAGAACGGa < 1:626487/69‑1 (MQ=255)
gCCATTGCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCTGTCATCACCATCCAGAACGGa < 1:2708635/69‑1 (MQ=255)
ccATTGCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCTGTCATCACCATCCAGAACGGa < 1:27233/68‑1 (MQ=255)
gCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCTGtc > 1:1661302/1‑45 (MQ=255)
gCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCTGTCATCACCATCCAGAACgg > 1:2575906/1‑62 (MQ=255)
gCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCTGTCATCACCATCCAGAACGGAATCAcc > 1:3419621/1‑69 (MQ=255)
gCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCTGTCATCACCATCCAGAACGGAATCAcc > 1:1089207/1‑69 (MQ=255)
gCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCTGTCATCACCATCCAGAACGGAATCAcc > 1:2636070/1‑69 (MQ=255)
gCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCTGTCATCACCATCCAGAACGGAATCAcc > 1:195024/1‑69 (MQ=255)
gCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCTGTCATCACCATCCAGAACGGAATCAcc > 1:1823938/1‑69 (MQ=255)
cAGAATTACGGCCGGAGAGGCAGCTCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCg < 1:816387/68‑1 (MQ=255)
ccGGAGAGGCAGCCCCTGTCATCACCATCCAGAACGGAATCa > 1:218287/1‑42 (MQ=255)
ccGGAGAGGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGt > 1:1368793/1‑46 (MQ=255)
ccGGAGAGGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAgg > 1:96836/1‑62 (MQ=255)
ccGGAGAGGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAgg > 1:2855937/1‑62 (MQ=255)
ccGGAGAGGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAgg > 1:3147481/1‑62 (MQ=255)
ccGGAGAGGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAgg > 1:854943/1‑62 (MQ=255)
ccGGAGAGGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAgg > 1:3389861/1‑62 (MQ=255)
ccGGAGAGGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAgg > 1:453422/1‑62 (MQ=255)
ccGGAGAGGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAgg > 1:465164/1‑62 (MQ=255)
ccGGAGAGGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAgg > 1:525227/1‑62 (MQ=255)
ccGGAGAGGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAgg > 1:1682272/1‑62 (MQ=255)
ccGGAGAGGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAgg > 1:2013220/1‑62 (MQ=255)
ccGGAGAGGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAgg > 1:2747997/1‑62 (MQ=255)
ccGGAGAGGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAgg > 1:2124505/1‑62 (MQ=255)
ccGGAGAGGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAgg > 1:1766632/1‑62 (MQ=255)
ccGGAGAGGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAgg > 1:2201190/1‑62 (MQ=255)
ccGGAGAGGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAgg > 1:226480/1‑62 (MQ=255)
ccGGAGAGGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAgg > 1:1435717/1‑62 (MQ=255)
ccGGAGAGGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAgg > 1:2340572/1‑62 (MQ=255)
ccGGAGAGGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAgg > 1:1139794/1‑62 (MQ=255)
ccGGAGAGGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAgg > 1:1087054/1‑62 (MQ=255)
ccGGAGAGGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATAGACAg > 1:3065345/1‑61 (MQ=255)
cGGAGAGGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAGGATAAAGcc > 1:434664/1‑69 (MQ=255)
cGGAGAGGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAGGATAAAGcc > 1:1278651/1‑69 (MQ=255)
cGGAGAGGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAGGATAAAGcc > 1:1227188/1‑69 (MQ=255)
cGGAGAGGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAGGATAAAGcc > 1:55077/1‑69 (MQ=255)
cGGAGAGGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAGGATAAAGcc > 1:1981522/1‑69 (MQ=255)
cGGAGAGGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAGGATAAAGcc > 1:419309/1‑69 (MQ=255)
cGGAGAGGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAGGATAAAGcc > 1:411417/1‑69 (MQ=255)
cGGAGAGGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAGGATAAAGc > 1:836827/1‑68 (MQ=255)
agagGCAGCTCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAGGATAAAGCCTGt < 1:2016061/69‑1 (MQ=255)
agGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAGGATAAAGCCTGTCa < 1:2101951/69‑1 (MQ=255)
agGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAGGATAAAGCCTGTCa < 1:3404555/69‑1 (MQ=255)
agGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAGGATAAAGCCTGTCa < 1:2318978/69‑1 (MQ=255)
agGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAGGATAAAGCCTGTCa < 1:152300/69‑1 (MQ=255)
agGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAGGATAAAGCCTGTCa < 1:2322743/69‑1 (MQ=255)
agGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAGGATAAAGCCTGTCa < 1:1320383/69‑1 (MQ=255)
agGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAGGATAAAGCCTGTCa < 1:3087224/69‑1 (MQ=255)
agGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAGGATAAAGCCTGTCa < 1:2954455/69‑1 (MQ=255)
agGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAGGATAAAGCCTGTCa < 1:2360527/69‑1 (MQ=255)
agGCAGCCCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAGGATAAAGCCTGTCa < 1:2780193/69‑1 (MQ=255)
|
GCACCAGAACCTGTACCACTGCCATTGCCAGGATTGTTCCCAGAATTACGGCCGGAGAGGCAGCTCCTGTCATCACCATCCAGAACGGAATCACCGTCAGAATGATCGACAGGATAAAGCCTGTCA > minE/276335‑276460
|
| 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
