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 |
2,401,943 |
A→G |
31.2% |
N128N (AAT→AAC) |
xerC ← |
site‑specific tyrosine recombinase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,401,943 | 0 | A | G | 31.2%
| 68.2
/ 39.5
| 80 | N128N (AAT→AAC) | xerC | site‑specific tyrosine recombinase |
| Reads supporting (aligned to +/- strand): ref base A (7/48); new base G (2/23); total (9/71) |
| Fisher's exact test for biased strand distribution p-value = 7.12e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.03e-01 |
AAAGACGCAGACCCGCGCCGTACATCACTTCCAGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCATATCGTCGACGTCGATGTTTTTCGGCA > minE/2401879‑2401998
|
aaaGACGCAGACCCGCGCCGTACATCACTTCCAGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGa < 1:2727970/69‑1 (MQ=255)
aaaGACGCAGACCCGCGCCGTACATCACTTCCAGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGa < 1:2860462/69‑1 (MQ=255)
aaGACGCAGACCCGCGCCGTACATCACTTCCAGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGa < 1:2899252/68‑1 (MQ=255)
aGACCCGCGCCGTACATCACTTCCAGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAata < 1:2066586/69‑1 (MQ=255)
aGACCCGCGCCGTACATCACTTCCAGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAata < 1:575009/69‑1 (MQ=255)
aGACCCGCGCCGTACATCACTTCCAGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAata < 1:716583/69‑1 (MQ=255)
gACCCGCGCCGTACATCACTTCCAGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGa < 1:264465/60‑1 (MQ=255)
cccGCGCCGTACATCACTTCCAGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATcc < 1:873463/69‑1 (MQ=255)
cccGCGCCGTACATCACTTCCAGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATcc < 1:3397887/69‑1 (MQ=255)
cccGCGCCGTACATCACTTCCAGCATTGCACGGTCGCGTACAGCGAAGGGATCATTGATATCAATATcc < 1:2704612/69‑1 (MQ=255)
tACATCACTTCCAGCATTGCACGGTCGCGTAGAGCGAGGGGATCATTGATATc > 1:735111/1‑53 (MQ=255)
tACATCACTTCCAGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATc > 1:1389035/1‑53 (MQ=255)
aCATCACTTCCAGCATTGCACGGTCGCGTACAGCGAGGGGATCa > 1:860320/1‑44 (MQ=255)
cACTTCCAGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCat < 1:558451/69‑1 (MQ=255)
cACTTCCAGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCat < 1:3319117/69‑1 (MQ=255)
cACTTCCAGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCat < 1:3330411/69‑1 (MQ=255)
cACTTCCAGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCat < 1:117692/69‑1 (MQ=255)
cACTTCCAGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCat < 1:1196829/69‑1 (MQ=255)
aCTTCCAGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCATCAGCCGATTCata < 1:3113142/69‑1 (MQ=255)
aCTTCCAGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCata < 1:1171565/69‑1 (MQ=255)
aCTTCCAGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCata < 1:255689/69‑1 (MQ=255)
aCTTCCAGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCata < 1:263712/69‑1 (MQ=255)
aCTTCCAGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCata < 1:1031034/69‑1 (MQ=255)
aCTTCCAGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCata < 1:1132720/69‑1 (MQ=255)
aCTTCCAGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCata < 1:1141571/69‑1 (MQ=255)
aCTTCCAGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCata < 1:1161094/69‑1 (MQ=255)
aCTTCCAGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCata < 1:1986483/69‑1 (MQ=255)
aCTTCCAGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCata < 1:1430639/69‑1 (MQ=255)
aCTTCCAGCAATGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCata < 1:1335783/69‑1 (MQ=255)
cTTCCAGCATTGCACGGTCGCGTACAGCGAGGTGATCATTGATATCAATATCCAGCAGCCGATTCat < 1:116398/67‑1 (MQ=255)
cTTCCAGCATTGCACGGTCGCGTACAGCGAGGGGATCGTTGATATCAATATCCAGCAGCCGATTCatat > 1:2045813/1‑69 (MQ=255)
cTTCCAGCATTGCACGGTCGCGTACAGCGAGGGGATCGTTGATATCAATATCCAGCAGCCGATTCatat > 1:2587915/1‑69 (MQ=255)
aGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCATAtcgtc < 1:3080564/68‑1 (MQ=255)
aGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCATAtcgtc < 1:421105/68‑1 (MQ=255)
aGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCATAtcgtc < 1:3162830/68‑1 (MQ=255)
aGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCATAtcgtc < 1:2676499/68‑1 (MQ=255)
aGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCATAtcgtc < 1:233790/68‑1 (MQ=255)
aGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCATAtcgtc < 1:519839/68‑1 (MQ=255)
aGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCATAtcgtc < 1:3435139/68‑1 (MQ=255)
aGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCATAtcgtc < 1:2400859/68‑1 (MQ=255)
aGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCATAtcgtc < 1:2363378/68‑1 (MQ=255)
aGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCATAtcgtc < 1:16206/68‑1 (MQ=255)
aGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCATAtcgtc < 1:2232678/68‑1 (MQ=255)
aGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCATAtcgtc < 1:164955/68‑1 (MQ=255)
gCACGGTCGCGTACAGCGAGGGGATCGTTGATATCAATATCCAGCAGCCGATTc < 1:2041331/54‑1 (MQ=255)
gCACGGTCGCGTACAGCGAGGGGATCGTTGATATCAATATCCAGCAGCCGATTc < 1:1064346/54‑1 (MQ=255)
gCACGGTCGCGTACAGCGAGGGGATCGTTGATATCAATATCCAGCAGCCGATTc < 1:524361/54‑1 (MQ=255)
gCACGGTCGCGTACAGCGAGGGGATCGTTGATATCAATATCCAGCAGCCGATTc < 1:1464444/54‑1 (MQ=255)
gCACGGTCGCGTACAGCGAGGGGATCGTTGATATCAATATCCAGCAGCCGATTc < 1:517273/54‑1 (MQ=255)
gCACGGTCGCGTACAGCGAGGGGATCGTTGATATCAATATCCAGCAGCCGATTc < 1:1471010/54‑1 (MQ=255)
gCACGGTCGCGTACAGCGAGGGGATCGTTGATATCAATATCCAGCAGCCGATTc < 1:1575708/54‑1 (MQ=255)
gCACGGTCGCGTACAGCGAGGGGATCGTTGATATCAATATCCAGCAGCCGATTc < 1:3283104/54‑1 (MQ=255)
gCACGGTCGCGTACAGCGAGGGGATCGTTGATATCAATATCCAGCAGCCGATTc < 1:3239048/54‑1 (MQ=255)
gCACGGTCGCGTACAGCGAGGGGATCGTTGATATCAATATCCAGCAGCCGATTc < 1:3238917/54‑1 (MQ=255)
gCACGGTCGCGTACAGCGAGGGGATCGTTGATATCAATATCCAGCAGCCGATTc < 1:1739326/54‑1 (MQ=255)
gCACGGTCGCGTACAGCGAGGGGATCGTTGATATCAATATCCAGCAGCCGATTc < 1:669855/54‑1 (MQ=255)
gCACGGTCGCGTACAGCGAGGGGATCGTTGATATCAATATCCAGCAGCCGATTc < 1:625571/54‑1 (MQ=255)
gCACGGTCGCGTACAGCGAGGGGATCGTTGATATCAATATCCAGCAGCCGATTc < 1:3016737/54‑1 (MQ=255)
gCACGGTCGCGTACAGCGAGGGGATCGTTGATATCAATATCCAGCAGCCGATTc < 1:2976418/54‑1 (MQ=255)
gCACGGTCGCGTACAGCGAGGGGATCGTTGATATCAATATCCAGCAGCCGATTc < 1:2970596/54‑1 (MQ=255)
gCACGGTCGCGTACAGCGAGGGGATCGTTGATATCAATATCCAGCAGCCGATTc < 1:2082523/54‑1 (MQ=255)
gCACGGTCGCGTACAGCGAGGGGATCGTTGATATCAATATCCAGCAGCCGATTc < 1:2846833/54‑1 (MQ=255)
gCACGGTCGCGTACAGCGAGGGGATCGTTGATATCAATATCCAGCAGCCGATTc < 1:2258056/54‑1 (MQ=255)
gCACGGTCGCGTACAGCGAGGGGATCGTTGATATCAATATCCAGCAGCCGATTc < 1:2292233/54‑1 (MQ=255)
gCACGGTCGCGTACAGCGAGGGGATCGTTGATATCAATATCCAGCAGCCGATTc < 1:58655/54‑1 (MQ=255)
gCACGGTCGCGTACAGCGAGGGGATCATTGATATc > 1:22897/1‑35 (MQ=255)
gCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGAtt > 1:1692787/1‑53 (MQ=255)
gCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGAtt > 1:166192/1‑53 (MQ=255)
gCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGAtt > 1:2589829/1‑53 (MQ=255)
gCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCATATcgtcgacgtc > 1:718295/1‑68 (MQ=255)
gCACGGTCGCGCACAGCGAGGGGATCGTTGATATCAATATCCAGCAGCCGATTc < 1:2435765/54‑1 (MQ=39)
cACGGTCGCGTACAGCGAGGGGATCGTTGATATCAATATCCAGCAGCCGATTc < 1:3037960/53‑1 (MQ=255)
tCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCat < 1:1425852/50‑1 (MQ=255)
gTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCat < 1:201315/46‑1 (MQ=255)
cAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCATATCGTCGACGTCGATGTTTTTCGGCa < 1:721251/69‑1 (MQ=255)
cAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCATATCGTCGACGTCGATGTTTTTCGGCa < 1:90262/69‑1 (MQ=255)
cAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCATATCGTCGACGTCGATGTTTTTCGGCa < 1:2570851/69‑1 (MQ=255)
cAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCATATCGTCGACGTCGATGTTTTTCGGCa < 1:2045645/69‑1 (MQ=255)
cAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCATATCGTCGACGTCGATGTTTTTCGGCa < 1:2033420/69‑1 (MQ=255)
cAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCATATCGTCGACGTCGATGTTTTTCGGCa < 1:1435830/69‑1 (MQ=255)
gATCATTGATATCAATATCCAGCAGCCGATTCata < 1:1104525/35‑1 (MQ=255)
|
AAAGACGCAGACCCGCGCCGTACATCACTTCCAGCATTGCACGGTCGCGTACAGCGAGGGGATCATTGATATCAATATCCAGCAGCCGATTCATATCGTCGACGTCGATGTTTTTCGGCA > minE/2401879‑2401998
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
