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 |
2,601,372 |
A→G |
40.6% |
Q341Q (CAA→CAG) |
prlC → |
oligopeptidase A |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,601,372 | 0 | A | G | 40.6%
| 21.7
/ 44.3
| 64 | Q341Q (CAA→CAG) | prlC | oligopeptidase A |
| Reads supporting (aligned to +/- strand): ref base A (28/10); new base G (12/14); total (40/24) |
| Fisher's exact test for biased strand distribution p-value = 3.61e-02 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.18e-01 |
TTGCCAAAGCCGAATTTGGCGTCGATGAGTTGCAGCCGTGGGATATCGCTTACTACAGCGAAAAACAAAAACAGCACCTCTACAGCATCAGTGACGAACAGCTGCGTCCGTACTTCCCGGAA > minE/2601305‑2601426
|
ttGCCAAAGCCGAATTTGGCGTCGATGAGTTGCAGCCGTGGGATATCGCTTACTACAGCGaaaaacaaa < 1:1219168/69‑1 (MQ=255)
ttGCCAAAGCCGAATTTGGCGTCGATGAGTTGCAGCCGTGGGATATCGCTTACTACAGCGaaaaacaaa < 1:1986448/69‑1 (MQ=255)
gCCAAAGCCGAATTTGGCGTCGATGAGTTGCAGCCGTGGGATATCGCTTACTACAGCGaaaaacaaa > 1:1205804/1‑67 (MQ=255)
gCCAAAGCCGAATTTGGCGTCGATGAGTTGCAGCCGTGGGATATCGCTTACTACAGCGaaaaacaaa > 1:3420056/1‑67 (MQ=255)
gCCAAAGCCGAATTTGGCGTCGATGAGTTGCAGCCGTGGGATATCGCTTACTACAGCGaaaaacaaa > 1:270951/1‑67 (MQ=255)
gCCAAAGCCGAATTTGGCGTCGATGAGTTGCAGCCGTGGGATATCGCTTACTACAGCGaaaaacaa > 1:1289367/1‑66 (MQ=255)
aaaGCCGAATTTGGCGTCGATGAGTTGCAGCCGTGGGATATCGCTTACTACAGCGAAAAACAAAAACAg < 1:2330993/69‑1 (MQ=255)
aaaGCCGAATTTGGCGTCGATGAGTTGCAGCCGTGGGATATCGCTTACTACAGCGAAAAACAAAAACAg < 1:2535038/69‑1 (MQ=255)
gTCGATGAGTTGCAGCCGTGGGATATCGCTTACTACAGCGAAAAACAAAAACAGCACCTCTACAGCATc < 1:3356145/69‑1 (MQ=255)
gTCGATGAGTTGCAGCCGTGGGATATCGCTTACTACAGCGAAAAACAAAAACAGCACCTCTACAGCATc < 1:2650800/69‑1 (MQ=255)
gTCGATGAGTTGCAGCCGTGGGATATCGCTTACTACAGCGAAAAACAAAAACAGCACCTCTACAGCATc < 1:418675/69‑1 (MQ=255)
gTCGATGAGTTGCAGCCGTGGGATATCGCTTACTACAGCGAAAAACAAAAACAGCACCTCTACAGCATc < 1:656240/69‑1 (MQ=255)
gTCGATGAGTTGCAGCCGTGGGATATCGCTTACTACAGCGAAAAACAAAAACAGCACCTCTACAGCATc < 1:2830903/69‑1 (MQ=255)
gTCGATGAGTTGCAGCCGTGGGATATCGCTTACTACAGCGAAAAACAAAAACAGCACCTCTACAGCATc < 1:2926715/69‑1 (MQ=255)
gTCGATGAGTTACAACCGTGGGATATCGCTTACTACAGCGAAAAACAGAAACAGCACCTCTACAGCAt < 1:2720271/68‑1 (MQ=255)
gTCGATGAGTTACAACCGTGGGATATCGCTTACTACAGCGAAAAACAGAAACAGCACCTCTACAGCAt < 1:3098895/68‑1 (MQ=255)
gTCGATGAGTTACAACCGTGGGATATCGCTTACTACAGCGAAAAACAGAAACAGCACCTCTACAGCAt < 1:1965755/68‑1 (MQ=255)
gTCGATGAGTTACAACCGTGGGATATCGCTTACTACAGCGAAAAACAGAAACAGCACCTCTACAGCAt < 1:2011993/68‑1 (MQ=255)
gTCGATGAGTTACAACCGTGGGATATCGCTTACTACAGCGAAAAACAGAAACAGCACCTCTACAGCAt < 1:1131083/68‑1 (MQ=255)
gTCGATGAGTTACAACCGTGGGATATCGCTTACTACAGCGAAAAACAGAAACAGCACCTCTACAGCAt < 1:264382/68‑1 (MQ=255)
gTCGATGAGTTACAACCGTGGGATATCGCTTACTACAGCGAAAAACAGAAACAGCACCTCTACAGCAt < 1:239376/68‑1 (MQ=255)
gTCGATGAGTTACAACCGTGGGATATCGCTTACTACAGCGAAAAACAGAAACAGCACCTCTACAGCAt < 1:1165911/68‑1 (MQ=255)
gTCGATGAGTTACAACCGTGGGATATCGCTTACTACAGCGAAAAACAGAAACAGCACCTCTACAGCAt < 1:857767/68‑1 (MQ=255)
gTCGATGAGTTACAACCGTGGGATATCGCTTACTACAGCGAAAAACAGAAACAGCACCTCTACAGCAt < 1:1342423/68‑1 (MQ=255)
gTCGATGAGTTACAACCGTGGGATATCGCTTACTACAGCGAAAAACAGAAACAGCACCTCTACAGCAt < 1:610645/68‑1 (MQ=255)
gTCGATGAGTTACAACCGTGGGATATCGCTTACTACAGCGAAAAACAGAAACAGCACCTCTACAGCAt < 1:728344/68‑1 (MQ=255)
gTCGATGAGTTACAACCGTGGGATATCGCTTACTACAGCGAAAAACAGAAACAGCACCTCTACAGCAt < 1:1366775/68‑1 (MQ=255)
gTCGATGAGTTACAACCGTGGGATATCGCTTACTACAGCGAAAAACAGAAACAGCACCTACACAGCAt < 1:1137733/68‑1 (MQ=255)
tatCGCTTACTACAGCGAAAAACAAAAACAGCACCTCTACAGCATCAGTGACGAACAGCTGCGTCCGTa < 1:2274308/69‑1 (MQ=255)
tatCGCTTACTACAGCGAAAAACAAAAACAGCACCTCTACAGCATCAGTGACGAACAGCTGCGTCCGTa < 1:1664394/69‑1 (MQ=255)
tCGCTTACTACAGCGAAAAACAAAAACAGCACCTCTACAGCATCAGTGACg > 1:3253308/1‑51 (MQ=255)
tCGCTTACTACAGCGAAAAACAAAAACAGCACCTCTACAGCATCAGTGACg > 1:2442823/1‑51 (MQ=255)
tCGCTTACTACAGCGAAAAACAAAAACAGCACCTCTACAGCATCAGTGACg > 1:1269691/1‑51 (MQ=255)
tCGCTTACTACAGCGAAAAACAAAAACAGCACCTCTACAGCATCAGTGACg > 1:589283/1‑51 (MQ=255)
tCGCTTACAACAGCGAAAAACAAAAACAGCACCTCTACAGCATCAGTGACg > 1:2266897/1‑51 (MQ=255)
gattACTACAGCGAAAAACAAAAACAGCACCTCTACAGCATCAGTGACGAACAGCTGCGTCCGTACtt > 1:172613/3‑68 (MQ=255)
gCTTACTACAGCGAAAAACAAAAACAGCACCTCTACAGCATCAGt > 1:1790148/1‑45 (MQ=255)
gCTTACTACAGCGAAAAACAAAAACAGCACCTCTACAGCATCAGTGACGAACAGCTGCGTCCGTACtt > 1:3060057/1‑68 (MQ=255)
gCTTACTACAGCGAAAAACAAAAACAGCACCTCTACAGCATCAGTGACGAACAGCTGCGTCCGTACtt > 1:1841755/1‑68 (MQ=255)
gCTTACTACAGCGAAAAACAAAAACAGCACCTCTACAGCATCAGTGACGAACAGCTGCGTCCGTACTTc > 1:601948/1‑69 (MQ=255)
gCTTACTACAGCGAAAAACAAAAACAGCACCTCTACAGCATCAGTGACGAACAGCTGCGTCCGTACTTc > 1:3121073/1‑69 (MQ=255)
gCTTACTACAGCGAAAAACAAAAACAGCACCTCTACAGCATCAGTGACGAACAGCTGCGTCCGTACTTc > 1:991172/1‑69 (MQ=255)
gCTTACTACAGCGAAAAACAAAAACAGCACCTCTACAGCATCAGTGACGAACAGCTGCGTCCGTACTTc > 1:1740937/1‑69 (MQ=255)
gCTTACTACAGCGAAAAACAAAAACAGCACCTCTACAGCATCAGTGACGAACAGCTGCGTCCGTACTTc > 1:1799758/1‑69 (MQ=255)
actacAGCGAAAAACAGAAACAGCACCTCTACAGCATCAGCGATGAAc > 1:1844111/1‑48 (MQ=38)
actacAGCGAAAAACAGAAACAGCACCTCTACAGCATCAGCGATGAACAACTGCGTCCGTACTTCCCg > 1:1593690/1‑68 (MQ=255)
actacAGCGAAAAACAGAAACAGCACCTCTACAGCATCAGCGATGAACAACTGCGTCCGTACTTCCCg > 1:1547692/1‑68 (MQ=255)
actacAGCGAAAAACAGAAACAGCACCTCTACAGCATCAGCGATGAACAACTGCGTCCGTACTTCCCg > 1:1369130/1‑68 (MQ=255)
actacAGCGAAAAACAGAAACAGCACCTCTACAGCATCAGCGATGAACAACTGCGTCCGTACTTCCCg > 1:3097433/1‑68 (MQ=255)
actacAGCGAAAAACAGAAACAGCACCTCTACAGCATCAGCGATGAACAACTGCGTCCGTACTTCCCg > 1:487586/1‑68 (MQ=255)
actacAGCGAAAAACAGAAACAGCACCTCTACAGCATCAGCGATGAACAACTGCGTCCGTACTTCCCg > 1:1948693/1‑68 (MQ=255)
actacAGCGAAAAACAGAAACAGCACCTCTACAGCATCAGCGATGAACAACTGCGTCCGTACTTCCCg > 1:2762908/1‑68 (MQ=255)
actacAGCGAAAAACAGAAACAGCACCTCTACAGCATCAGCGATGAACAACTGCGTCCGTACTTCCCg > 1:2165388/1‑68 (MQ=255)
actacAGCGAAAAACAGAAACAGCACCTCTACAGCATCAGCGATGAACAACTGCGTCCGTACTTCCCg > 1:2185909/1‑68 (MQ=255)
actacAGCGAAAAACAGAAACAGCACCTCTACAGCATCAGCGATGAACAACTGCGTCCGTACTTCCCg > 1:2272660/1‑68 (MQ=255)
actacAGCGAAAAACAGAAACAGCACCTCTACAGCATCAGCGATGAACAACTGCGTCCGTACTTCCCg > 1:2319263/1‑68 (MQ=255)
acAGCGAAAAACAACAACAGCACCTCTACAGCATCAGTGACg > 1:1789537/1‑42 (MQ=255)
acAGCGAAAAACAAAAACAGCACCTCTACAGCATCAGt > 1:2625086/1‑38 (MQ=255)
acAGCGAAAAACAAAAACAGCACCTCTACAGCATCAGTGACGa > 1:1994049/1‑43 (MQ=255)
acAGCGAAAAACAAAAACAGCACCTCTACAGCATCAGTGACGa > 1:2275809/1‑43 (MQ=255)
acAGCGAAAAACAAAAACAGCACCTCTACAGCATCAGTGACGa > 1:1673849/1‑43 (MQ=255)
acAGCGAAAAACAAAAACAGCACCTCTACAGCATCAGTGACGAACAGCTGCGTCCGTACTTCCCGGaa > 1:1308265/1‑68 (MQ=255)
acAGCGAAAAACAAAAACAGCACCTCTACAGCATCAGTGACGAACAGCTGCGTCCGTACTTCCCGGaa > 1:1077624/1‑68 (MQ=255)
acAGCGAAAAACAAAAACAGCACCTCTACAGCATCAGTGACGAACAGCTGCGTCCGTACTTCCCGGaa > 1:2356719/1‑68 (MQ=255)
acAGCGAAAAACAAAAACAGCACCTCTACAGCATCAGTGACGAACAGCTGCGTCCGTACTTCCCGGaa > 1:1651804/1‑68 (MQ=255)
acAGCGAAAAACAAAAACAGCACCTCTACAGCATCAGTGACGAACAGCTGCGTCCGTACTTCCCGGaa > 1:165716/1‑68 (MQ=255)
acAGCGAAAAACAAAAACAGCACCTCTACAGCATCAGTGACGAACAGCTGCGTCCGTACTTCCCGGaa > 1:3370148/1‑68 (MQ=255)
acAGCGAAAAACAAAAACAGCACCTCTACAGCATCAGTGACGAACAGCTGCGTCCGTACTTCCCGGaa > 1:1852826/1‑68 (MQ=255)
acAGCGAAAAACAAAAACAGCACCTCTACAGCATCAGTGACGAACAGCTGCGTCCGTACTTCCCGGaa > 1:1941860/1‑68 (MQ=255)
acAGCGAAAAACAAAAACAGCACCTCTACAGCATCAGTGACGAACAGCTGCGTCCGTACTTCCCGGaa > 1:2497870/1‑68 (MQ=255)
|
TTGCCAAAGCCGAATTTGGCGTCGATGAGTTGCAGCCGTGGGATATCGCTTACTACAGCGAAAAACAAAAACAGCACCTCTACAGCATCAGTGACGAACAGCTGCGTCCGTACTTCCCGGAA > minE/2601305‑2601426
|
| 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
