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 |
2,139,470 |
G→A |
58.1% |
D546D (GAC→GAT) |
infB ← |
fused protein chain initiation factor 2, IF2 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,139,470 | 0 | G | A | 58.1%
| 21.5
/ 54.5
| 74 | D546D (GAC→GAT) | infB | fused protein chain initiation factor 2, IF2 |
| Reads supporting (aligned to +/- strand): ref base G (6/25); new base A (13/30); total (19/55) |
| Fisher's exact test for biased strand distribution p-value = 4.19e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CATACCTTTACGTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTC > minE/2139416‑2139529
|
cATACCTTTACGTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATc < 1:2405090/69‑1 (MQ=255)
cATACCTTTACGTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATc < 1:642440/69‑1 (MQ=255)
cATACCTTTACGTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATc < 1:1500168/69‑1 (MQ=255)
cATACCTTTACGTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATc < 1:3086056/69‑1 (MQ=255)
cATACCTTTACGTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATc < 1:3027149/69‑1 (MQ=255)
cATACCTTTACGTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCAt < 1:545384/68‑1 (MQ=255)
cATACCTTTACGTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCAt < 1:24358/68‑1 (MQ=255)
cATACCTTTACGTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCAt < 1:2340034/68‑1 (MQ=255)
cATACCTTTACGTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCAt < 1:2238373/68‑1 (MQ=255)
cATACCTTTACGTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCAt < 1:2146302/68‑1 (MQ=255)
cATACCTTTACGTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCAt < 1:2025024/68‑1 (MQ=255)
cATACCTTTACGTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCAt < 1:2949073/68‑1 (MQ=255)
cATACCTTTACGTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCAt < 1:1892968/68‑1 (MQ=255)
cATACCTTTACGTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCAt < 1:1819630/68‑1 (MQ=255)
cATACCTTTACGTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCAt < 1:1729242/68‑1 (MQ=255)
cATACCTTTACGTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCAt < 1:3083853/68‑1 (MQ=255)
cATACCTTTACGTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCAt < 1:492093/68‑1 (MQ=255)
cATACCTTTACGTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCAt < 1:3418183/68‑1 (MQ=255)
cATACCTTTACGTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGAATCCAGCAGTTCAt < 1:615467/68‑1 (MQ=255)
cATACCTTTACGTACAGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATc < 1:512725/69‑1 (MQ=255)
ccTTTACGTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGAt > 1:3047362/1‑68 (MQ=255)
ccTTTACGTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATa > 1:3305435/1‑69 (MQ=255)
cGTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCAt < 1:2876640/58‑1 (MQ=255)
gTACCGCTTTCAGCTCCAGTACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCATCAATACCGGTa < 1:707039/68‑1 (MQ=255)
gTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCATCAATACCGGTa < 1:1049474/68‑1 (MQ=255)
gTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCATCAATACCGGTa < 1:2866393/68‑1 (MQ=255)
gTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCATCAATACCGGTa < 1:313428/68‑1 (MQ=255)
gTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCATCAATACCGGTa < 1:2458758/68‑1 (MQ=255)
gTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCATCAATACCGGTa < 1:380722/68‑1 (MQ=255)
gTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCATCAATACCGGTa < 1:40694/68‑1 (MQ=255)
gTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCATCAATACCGGTa < 1:3011418/68‑1 (MQ=255)
gTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCATCAATACCGGTa < 1:572305/68‑1 (MQ=255)
gTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCATCAATACCGGTa < 1:1312670/68‑1 (MQ=255)
gTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCATCAATACCGGTa < 1:1599542/68‑1 (MQ=255)
gTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCATCAATACCGGTa < 1:791962/68‑1 (MQ=255)
gTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCATCAATACCGGTa < 1:174762/68‑1 (MQ=255)
tACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCATCAATACCGGTa < 1:1634696/67‑1 (MQ=255)
aCCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATc < 1:1934783/56‑1 (MQ=255)
cGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCgg < 1:1567664/62‑1 (MQ=255)
cGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCgg < 1:120192/62‑1 (MQ=255)
cGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCgg < 1:3083444/62‑1 (MQ=255)
cGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCgg < 1:3248910/62‑1 (MQ=255)
cGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCgg < 1:3007097/62‑1 (MQ=255)
cGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCgg < 1:194449/62‑1 (MQ=255)
cGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCgg < 1:155941/62‑1 (MQ=255)
cGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCgg < 1:2099723/62‑1 (MQ=255)
cGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCgg < 1:2568221/62‑1 (MQ=255)
gCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCgg < 1:670976/61‑1 (MQ=255)
gCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCGGTACCCGCt > 1:1471742/1‑69 (MQ=255)
gCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCGGTACCCGCt > 1:1980930/1‑69 (MQ=255)
tttCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCAt < 1:180394/50‑1 (MQ=255)
ttCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCGGTACCCGCttt > 1:706850/1‑68 (MQ=255)
ttCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCGGTACCCGCttt > 1:856666/1‑68 (MQ=255)
aGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCGGTACCCGCTTTCg < 1:950598/67‑1 (MQ=255)
aGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCGGTACCCGCTTTCg < 1:1568392/67‑1 (MQ=255)
ttCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCgg < 1:637686/44‑1 (MQ=255)
cagcagGATAGCATCCAGCAGTTCATCAATACCGGTACCCGCTTTTGCAGATACGTGTACGAACTgg > 1:580478/1‑67 (MQ=255)
cagcagGATAGCATCCAGCAGTTCATCAATACCGGTACCCGCTTTTGCAGATACGTGTACGAACTGGc > 1:3318041/1‑68 (MQ=255)
cagcagGATAGCATCCAGCAGTTCATCAATACCGGTACCCGCTTTTGCAGATACGTGTACGAACTGGCt > 1:792330/1‑69 (MQ=255)
cagcagGATAGCATCCAGCAGTTCATCAATACCGGTACCCGCTTTTGCAGATACGTGTACGAACTGGCt > 1:2887950/1‑69 (MQ=255)
cagcagGATAGCATCCAGCAGTTCATCAATACCGGTACCCGCTTTTGCAGATACGTGTACGAACTGGCt > 1:571249/1‑69 (MQ=255)
cagcagGATAGCATCCAGCAGTTCATCAATACCGGTACCCGCTTTTGCAGATACGTGTACGAACTGGCt > 1:3179133/1‑69 (MQ=255)
cagcagGATAGCATCCAGCAGTTCATCAATACCGGTACCCGCTTTTGCAGATACGTGTACGAACTGGCt > 1:2383937/1‑69 (MQ=255)
cagcagGATAGCATCCAGCAGTTCATCAATACCGGTACCCGCTTTTGCAGATACGTGTACGAACTGGCt > 1:2348868/1‑69 (MQ=255)
cagcagGATAGCATCCAGCAGTTCATCAATACCGGTACCCGCTTTTGCAGATACGTGTACGAACTGGCt > 1:2196697/1‑69 (MQ=255)
cagcagGATAGCATCCAGCAGTTCATCAATACCGGTACCCGCTTTTGCAGATACGTGTACGAACTGGCt > 1:1822065/1‑69 (MQ=255)
cagcagGATAGCATCCAGCAGTTCATCAATACCGGTACCCGCTTTTGCAGATACGTGTACGAACTGGCt > 1:1740267/1‑69 (MQ=255)
cagcagGATAGCATCCAGCAGTTCATCAATACCGGTACCCGCTTTTGCAGATACGTGTACGAACTGGCt > 1:1536157/1‑69 (MQ=255)
cagcagGATAGCATCCAGCAGTTCATCAATACCGGTACCCGCTTTTGCAGATACGTGTACGAACTGGCt > 1:1529497/1‑69 (MQ=255)
cagGATAGCGTCCAGCAGTTCATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTc < 1:3248211/69‑1 (MQ=255)
cagGATAGCGTCCAGCAGTTCATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTc < 1:873639/69‑1 (MQ=255)
cagGATAGCGTCCAGCAGTTCATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTc < 1:942385/69‑1 (MQ=255)
cagGATAGCGTCCAGCAGTTCATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTc < 1:1216469/69‑1 (MQ=255)
cagGATAGCGTCCAGCAGTTCATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTc < 1:970476/69‑1 (MQ=255)
|
CATACCTTTACGTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTC > minE/2139416‑2139529
|
| 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
