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 |
2,139,485 |
G→A |
35.3% |
I541I (ATC→ATT) |
infB ← |
fused protein chain initiation factor 2, IF2 |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,139,485 | 0 | G | A | 35.3%
| 55.7
/ 44.3
| 79 | I541I (ATC→ATT) | infB | fused protein chain initiation factor 2, IF2 |
| Reads supporting (aligned to +/- strand): ref base G (19/32); new base A (14/14); total (33/46) |
| Fisher's exact test for biased strand distribution p-value = 3.42e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CCTTTACGTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTCACCGCCCCACTCTTCCGGCAG > minE/2139420‑2139550
|
ccTTTACGTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGAt > 1:3047362/1‑68 (MQ=255)
ccTTTACGTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATa > 1:3305435/1‑69 (MQ=255)
gTACCGCTTTCAGCTCCAGTACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCATCAATACCGGTa < 1:707039/68‑1 (MQ=255)
gTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCATCAATACCGGTa < 1:791962/68‑1 (MQ=255)
gTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCATCAATACCGGTa < 1:2458758/68‑1 (MQ=255)
gTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCATCAATACCGGTa < 1:572305/68‑1 (MQ=255)
gTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCATCAATACCGGTa < 1:40694/68‑1 (MQ=255)
gTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCATCAATACCGGTa < 1:2866393/68‑1 (MQ=255)
gTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCATCAATACCGGTa < 1:3011418/68‑1 (MQ=255)
gTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCATCAATACCGGTa < 1:174762/68‑1 (MQ=255)
gTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCATCAATACCGGTa < 1:313428/68‑1 (MQ=255)
gTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCATCAATACCGGTa < 1:1599542/68‑1 (MQ=255)
gTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCATCAATACCGGTa < 1:380722/68‑1 (MQ=255)
gTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCATCAATACCGGTa < 1:1312670/68‑1 (MQ=255)
gTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCATCAATACCGGTa < 1:1049474/68‑1 (MQ=255)
tACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCATCCAGCAGTTCATCAATACCGGTa < 1:1634696/67‑1 (MQ=255)
cGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCgg < 1:1567664/62‑1 (MQ=255)
cGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCgg < 1:155941/62‑1 (MQ=255)
cGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCgg < 1:3083444/62‑1 (MQ=255)
cGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCgg < 1:3248910/62‑1 (MQ=255)
cGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCgg < 1:194449/62‑1 (MQ=255)
cGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCgg < 1:2568221/62‑1 (MQ=255)
cGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCgg < 1:120192/62‑1 (MQ=255)
cGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCgg < 1:3007097/62‑1 (MQ=255)
cGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCgg < 1:2099723/62‑1 (MQ=255)
gCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCgg < 1:670976/61‑1 (MQ=255)
gCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCGGTACCCGCt > 1:1471742/1‑69 (MQ=255)
gCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCGGTACCCGCt > 1:1980930/1‑69 (MQ=255)
ttCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCGGTACCCGCttt > 1:856666/1‑68 (MQ=255)
ttCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCGGTACCCGCttt > 1:706850/1‑68 (MQ=255)
aGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCGGTACCCGCTTTCg < 1:1568392/67‑1 (MQ=255)
aGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCGGTACCCGCTTTCg < 1:950598/67‑1 (MQ=255)
ttCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCgg < 1:637686/44‑1 (MQ=255)
cagcagGATAGCATCCAGCAGTTCATCAATACCGGTACCCGCTTTTGCAGATACGTGTACGAACTgg > 1:580478/1‑67 (MQ=255)
cagcagGATAGCATCCAGCAGTTCATCAATACCGGTACCCGCTTTTGCAGATACGTGTACGAACTGGc > 1:3318041/1‑68 (MQ=255)
cagcagGATAGCATCCAGCAGTTCATCAATACCGGTACCCGCTTTTGCAGATACGTGTACGAACTGGCt > 1:2383937/1‑69 (MQ=255)
cagcagGATAGCATCCAGCAGTTCATCAATACCGGTACCCGCTTTTGCAGATACGTGTACGAACTGGCt > 1:1529497/1‑69 (MQ=255)
cagcagGATAGCATCCAGCAGTTCATCAATACCGGTACCCGCTTTTGCAGATACGTGTACGAACTGGCt > 1:1536157/1‑69 (MQ=255)
cagcagGATAGCATCCAGCAGTTCATCAATACCGGTACCCGCTTTTGCAGATACGTGTACGAACTGGCt > 1:3179133/1‑69 (MQ=255)
cagcagGATAGCATCCAGCAGTTCATCAATACCGGTACCCGCTTTTGCAGATACGTGTACGAACTGGCt > 1:1740267/1‑69 (MQ=255)
cagcagGATAGCATCCAGCAGTTCATCAATACCGGTACCCGCTTTTGCAGATACGTGTACGAACTGGCt > 1:1822065/1‑69 (MQ=255)
cagcagGATAGCATCCAGCAGTTCATCAATACCGGTACCCGCTTTTGCAGATACGTGTACGAACTGGCt > 1:792330/1‑69 (MQ=255)
cagcagGATAGCATCCAGCAGTTCATCAATACCGGTACCCGCTTTTGCAGATACGTGTACGAACTGGCt > 1:2887950/1‑69 (MQ=255)
cagcagGATAGCATCCAGCAGTTCATCAATACCGGTACCCGCTTTTGCAGATACGTGTACGAACTGGCt > 1:571249/1‑69 (MQ=255)
cagcagGATAGCATCCAGCAGTTCATCAATACCGGTACCCGCTTTTGCAGATACGTGTACGAACTGGCt > 1:2196697/1‑69 (MQ=255)
cagcagGATAGCATCCAGCAGTTCATCAATACCGGTACCCGCTTTTGCAGATACGTGTACGAACTGGCt > 1:2348868/1‑69 (MQ=255)
cagGATAGCGTCCAGCAGTTCATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTc < 1:942385/69‑1 (MQ=255)
cagGATAGCGTCCAGCAGTTCATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTc < 1:970476/69‑1 (MQ=255)
cagGATAGCGTCCAGCAGTTCATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTc < 1:3248211/69‑1 (MQ=255)
cagGATAGCGTCCAGCAGTTCATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTc < 1:873639/69‑1 (MQ=255)
cagGATAGCGTCCAGCAGTTCATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTc < 1:1216469/69‑1 (MQ=255)
tCCAGCAGTTCATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTCACCTCCCCAc < 1:7927/69‑1 (MQ=255)
tCCAGCAGTTCATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTCACCGCCCCAc < 1:621142/69‑1 (MQ=255)
tCCAGCAGTTCATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTCACCGCCCCAc < 1:105333/69‑1 (MQ=255)
tCCAGCAGTTCATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTCACCGCCCCAc < 1:2864560/69‑1 (MQ=255)
tCCAGCAGTTCATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTCACCGCCCCAc < 1:79391/69‑1 (MQ=255)
tCCAGCAGTTCATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTCACCGCCCCAc < 1:2128405/69‑1 (MQ=255)
tCCAGCAGTTCATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTCACCGCCCCAc < 1:962867/69‑1 (MQ=255)
tCCAGCAGTTCATCGATACAGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTCACCGCCCCAc < 1:752179/69‑1 (MQ=255)
cagcagTTCATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTc > 1:369260/1‑57 (MQ=255)
cagcagTTCATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTc > 1:2570785/1‑57 (MQ=255)
cagcagTTCATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTc > 1:2081503/1‑57 (MQ=255)
cATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTc > 1:702544/1‑49 (MQ=255)
cATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTc > 1:978482/1‑49 (MQ=255)
cATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTc > 1:376783/1‑49 (MQ=255)
cATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTc > 1:3388946/1‑49 (MQ=255)
cATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTc > 1:3190124/1‑49 (MQ=255)
cATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTc > 1:2946090/1‑49 (MQ=255)
cATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTc > 1:2475791/1‑49 (MQ=255)
cATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTc > 1:198754/1‑49 (MQ=255)
cATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTCACCGCCCCACTCTTCCGGc > 1:27755/1‑68 (MQ=255)
cATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTCACCGCCCCACTCTTCCGGc > 1:180734/1‑68 (MQ=255)
cATCAATACCGGTACCAGCTTTCGCAGATACGTGTACGAACTGGCTTTc > 1:1632884/1‑49 (MQ=39)
tCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTCACCGCCCCACTCTTCCGGCAg < 1:580714/68‑1 (MQ=255)
tCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTCACCGCCCCACTCTTCCGGCAg < 1:2907632/68‑1 (MQ=255)
tCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTCACCGCCCCACTCTTCCGGCAg < 1:2578427/68‑1 (MQ=255)
tCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTCACCGCCCCACTCTTCCGGCAg < 1:1985149/68‑1 (MQ=255)
tCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTCACCGCCCCACTCTTCCGGCAg < 1:1222482/68‑1 (MQ=255)
tCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTCACCGCCCCACTCATCCGGCAg < 1:3111268/68‑1 (MQ=255)
|
CCTTTACGTACCGCTTTCAGCTCCAGAACTTCCGCCTGCAGCAGGATAGCGTCCAGCAGTTCATCGATACCGGTACCCGCTTTCGCAGATACGTGTACGAACTGGCTTTCACCGCCCCACTCTTCCGGCAG > minE/2139420‑2139550
|
| 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
