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 |
1,202,586 |
G→A |
51.4% |
A82T (GCC→ACC) |
yoaD → |
predicted phosphodiesterase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,202,586 | 0 | G | A | 51.4%
| ‑5.1
/ 62.0
| 68 | A82T (GCC→ACC) | yoaD | predicted phosphodiesterase |
| Reads supporting (aligned to +/- strand): ref base G (8/25); new base A (9/26); total (17/51) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.95e-01 |
ACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTAAACAGGCGGCAAAACTCCAAACTGTGCGATC > minE/1202522‑1202635
|
aCTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCa < 1:972433/69‑1 (MQ=255)
aCTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCa < 1:2679783/69‑1 (MQ=255)
aCTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCa < 1:2679460/69‑1 (MQ=255)
aCTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCa < 1:267266/69‑1 (MQ=255)
aCTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCa < 1:2595282/69‑1 (MQ=255)
aCTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCa < 1:2448008/69‑1 (MQ=255)
aCTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCa < 1:2155684/69‑1 (MQ=255)
aCTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGGCTGCCCTGCTCTGTCGCCCa < 1:3339850/69‑1 (MQ=255)
tCCCCTACAGGCAGTTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGc < 1:312436/68‑1 (MQ=255)
tCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGc < 1:3244347/68‑1 (MQ=255)
tCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGc < 1:2225623/68‑1 (MQ=255)
tCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGc < 1:2007374/68‑1 (MQ=255)
ccTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCAt < 1:3309051/68‑1 (MQ=255)
ccTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCAt < 1:3210649/68‑1 (MQ=255)
ggcaggTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTa < 1:1039395/68‑1 (MQ=255)
ggcaggTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTa < 1:1541011/68‑1 (MQ=255)
caggTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGc < 1:1454050/57‑1 (MQ=255)
aggTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTTCTCTGTCGCCCATTTGc < 1:1970313/56‑1 (MQ=255)
tAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTAAACAggc > 1:323994/1‑69 (MQ=255)
tAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTAAACAggc > 1:1813993/1‑69 (MQ=255)
tAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTAAACAggc > 1:607559/1‑69 (MQ=255)
aGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTAAACAggc > 1:2370722/1‑68 (MQ=255)
aGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTAAACAggc > 1:1367640/1‑68 (MQ=255)
aGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTAAACAggc > 1:1503345/1‑68 (MQ=255)
aGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTAAACAggc > 1:2017409/1‑68 (MQ=255)
aaGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTAAACAGGCGGCaa < 1:621840/69‑1 (MQ=255)
aaGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTAAACAGGCGGCaa < 1:1377379/69‑1 (MQ=255)
aaGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTAAACAGGCGGCaa < 1:2634786/69‑1 (MQ=255)
aaGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTAAACAGGCGGCaa < 1:2697380/69‑1 (MQ=255)
cTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTAAACAGGCGGCAAAAc > 1:2787484/1‑68 (MQ=255)
ttGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGTCTGCAAAACTc < 1:1901326/69‑1 (MQ=255)
ttGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAAccc < 1:1372970/69‑3 (MQ=255)
ttGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTc < 1:3097307/69‑1 (MQ=255)
ttGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTc < 1:3227414/69‑1 (MQ=255)
ttGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTc < 1:3158035/69‑1 (MQ=255)
ttGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTc < 1:323362/69‑1 (MQ=255)
ttGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTc < 1:1438002/69‑1 (MQ=255)
ttGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTc < 1:2885389/69‑1 (MQ=255)
ttGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTc < 1:1220755/69‑1 (MQ=255)
ttGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTc < 1:3432097/69‑1 (MQ=255)
ttGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTc < 1:417772/69‑1 (MQ=255)
ttGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTc < 1:645866/69‑1 (MQ=255)
ttGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTc < 1:835322/69‑1 (MQ=255)
ttGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTc < 1:953058/69‑1 (MQ=255)
ttGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTc < 1:980682/69‑1 (MQ=255)
ttGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTc < 1:3026839/69‑1 (MQ=255)
ttGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTc < 1:2960414/69‑1 (MQ=255)
ttGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTc < 1:2958477/69‑1 (MQ=255)
ttGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTc < 1:1691619/69‑1 (MQ=255)
ttGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTc < 1:1596793/69‑1 (MQ=255)
ttGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTc < 1:2258055/69‑1 (MQ=255)
ttGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTc < 1:2356869/69‑1 (MQ=255)
ttGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTc < 1:1501624/69‑1 (MQ=255)
ttGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTc < 1:2652269/69‑1 (MQ=255)
ttGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTc < 1:2589281/69‑1 (MQ=255)
tGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTc < 1:158955/68‑1 (MQ=255)
gCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTcc > 1:847771/1‑68 (MQ=255)
gCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTcc > 1:2439774/1‑68 (MQ=255)
gCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTCCa > 1:181076/1‑69 (MQ=255)
gCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTCCa > 1:3233924/1‑69 (MQ=255)
gCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTCCa > 1:2778633/1‑69 (MQ=255)
gCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTCCa > 1:2848548/1‑69 (MQ=255)
gCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTCCa > 1:3151184/1‑69 (MQ=255)
gCTTCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTCCa > 1:3008970/1‑69 (MQ=255)
gCTCCCGCTGATTGGTCTGCCCTGCTCTGTCACCCATTTGCCATTACGTAAACAGGCTGCAAAACTCCa > 1:146271/1‑69 (MQ=255)
ttCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCTTTTGc < 1:1032168/39‑1 (MQ=255)
ccGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCAATACGTAAACAGGCGGCaa < 1:1661192/58‑1 (MQ=255)
ggTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTAAACAGGCGGCAAAACTCCAAACTGTGCGATc < 1:271174/68‑1 (MQ=255)
|
ACTGCTTCCCCTACAGGCAGGTAGCGAAGTCTTGCTTCCGCTGATTGGTCTGCCCTGCTCTGTCGCCCATTTGCCATTACGTAAACAGGCGGCAAAACTCCAAACTGTGCGATC > minE/1202522‑1202635
|
| 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
