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 |
|
A6 F21 I0 R1
|
2169 |
63.0 |
3952800 |
76.2% |
3012033 |
62.4 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
1,015,631 |
G→A |
24.4% |
Y146Y (TAC→TAT) |
fumA ← |
aerobic Class I fumarate hydratase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,015,631 | 0 | G | A | 24.4%
| 70.9
/ 20.2
| 41 | Y146Y (TAC→TAT) | fumA | aerobic Class I fumarate hydratase |
| Reads supporting (aligned to +/- strand): ref base G (13/18); new base A (5/5); total (18/23) |
| Fisher's exact test for biased strand distribution p-value = 7.24e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATCGATCTGCGCTGGCAGATTGGTGCCGGTATTCACTTCTTTATACATATCCAGCGGCGCGTTTTGCGAGTAGCGCAGATTATCTTCGATATAAGTGTTATAGACACCGCGCGCCAGCGCCGCTTCATCACCACCA > minE/1015562‑1015697
|
atcgatcTGCGCTGGCAGATTGGTGCCGGTATTCACTTCTTTATACATATCCAGCGGCGCGTTTTGCGAGt < 1:1360564/71‑1 (MQ=255)
tcgatcTGCGCTGGCAGATTGGTGCCGGTATTCACTTCTTTATACATATCCAGCGGCGCGTTTTGCGAGTa < 1:3520849/71‑1 (MQ=255)
cgatcTGCGCTGGCAGATTGGTGCCGGTATTCACTTCTTTATACATATCCAGCGGCGCGTTTTGCGAGTAg > 1:474873/1‑71 (MQ=255)
cTGCGCTGGCAGATTGGTGCCGGTATTCACTTCTTTATACATATCCAGCGGCGCGTTTTGCGAGTAgcg > 1:3163368/1‑69 (MQ=255)
cgcTGGCAGATTGGTGCCGGTATTCACTTCTTTATACATATCCAGCGGCGCGTTTTGCGAGTAgc < 1:3886365/65‑1 (MQ=255)
cgcTGGCAGATTGGTGCCGGTATTCACTTCTTTATACATATCCAGCGGCGCGTTTTGCGAGTAGCGCAGa < 1:3519554/70‑1 (MQ=255)
cgcTGGCAGATTGGTGCCGGTATTCACTTCTTTATACATATCCAGCGGCGCGTTTTGCGAGTAGCGCAGa < 1:3515551/70‑1 (MQ=255)
tGGCAGATTGGTGCCGGTATTCACTTCTTTATACATATCCAGCGGCGCGTTTTGCGAGTAGCGCAGATTa < 1:976736/70‑1 (MQ=255)
gCAGATTGGTGCCGGTATTCACTTCTTTATACATATCCAGCGGCGCGTTTTGCGAGTAGCGCAGATTATCt > 1:1024815/1‑71 (MQ=255)
aGATTGGTGCCGGTATTCACTTCTTTATACATATCCAGCGGCGCGTTTTGCGAGTAGCGCAGATTATCTTc > 1:1783645/1‑71 (MQ=255)
tagTGCCGGTGTTGACCTCTTTGTAGATGTCCAGCGCCGCATTCTGTGAATAGCGCAGGTTATCTTCGata > 1:2766314/3‑71 (MQ=255)
tagTGCCGGTGTTGACCTCTTTGTACATGTCCAGCGCCGCATTCTGTGAATAGCGCAGGTTATCTTCGata > 1:1925298/3‑71 (MQ=255)
gTGCCGGTGTTGACCTCTTTGTACATGTCCAGCGCCGCATTCTGTGAATAGCGCAGGTTATCTTCGatat < 1:1847255/70‑1 (MQ=255)
gTGCCGGTGTTGACCTCTTTGTACATGTCCAGCGCCGCATTCTGTGAATAGCGCAGGTTATCTTCGatat < 1:3170624/70‑1 (MQ=255)
gTGCCGGTATTCACTTCTTTATACATATCCAGCGGCGCGTTTTGCGAGt < 1:773594/49‑1 (MQ=255)
ccGGTGTTGACCTCTTTGTACATGTCCAGCGCCGCATTCTGTGAATAGCGCAGGTTATCTTCGAtatagg > 1:1684446/1‑68 (MQ=255)
cGGTATTCACTTCTTTATACATATCCAGCGGCGCGTTTTGCGAGTAGCGCAGATTATCTTc < 1:3922098/61‑1 (MQ=255)
aTTCACTTCTTTATACATATCCAGCGGCGCGTTTTGCGAGTAGCGCAGATTa < 1:3442951/52‑1 (MQ=255)
ttCACTTCTTTATACATATCCAGCGGCGCGTTTTGCGAGTAGCGCAGATTATCTTCGATATAAGTGTtata < 1:1956898/71‑1 (MQ=255)
cACTTCTTTATACATATCCAGCGGCGCGTTTTGCGAGTAGCGCAGATTATCTTCg > 1:3130321/1‑55 (MQ=255)
cttcttTATACATATCCAGCGGCGCGTTTTGCGAGTAGCGCAGATTATCTTCGATATAAGTGTTATAg > 1:306349/1‑68 (MQ=255)
ttcttTATACATATCCAGCGGCGCGTTTTGCGAGTAGCGCAGAt > 1:3238234/1‑44 (MQ=255)
tcttTGTACATGTCCAGCGCCGCATTCTGTGAATAGCGCAGGTTATCTTCGATATAGGTGTTATAGACGcc > 1:1308063/1‑71 (MQ=255)
tcttTGTACATGTCCAGCGCCGCATTCTGTGAATAGCGCAGGTTATCTTCGATATAGGTGTTATAGACGcc > 1:3695163/1‑71 (MQ=255)
tcttTATACATATCCAGCGGCGCGTTTTGCGAGTAGCGCAGATTATCTTCGatat < 1:3002265/55‑1 (MQ=255)
tcttTATACATATCCAGCGGCGCGTTTTGCGAGTAGCGCAGATTATCTTCGATATAAGTGTTATAGACAcc > 1:1078024/1‑71 (MQ=255)
tttATACATATCCAGCGGCGCGTTTTGCGAGTAGCGCAGATTa > 1:2820143/1‑43 (MQ=255)
tgtaCATGTCCAGCGCCGCATTCTGTGAATAGCGCAGGTTATCTTCGATATAGGTGTTATAGACGcct < 1:228787/66‑2 (MQ=255)
cATATCCAGCGGTGCGTTTTGCGAGTAGCGCAGATTATCTTCGATATAAGTGTTATAGACACCGCGCGCCa < 1:3592687/71‑1 (MQ=255)
cATATCCAGCGGCGCGTTTTGCGAGTAGCGCAGATTATCTTCGATATAAGTGTTATAGACACCGCGCGCCa < 1:1279535/71‑1 (MQ=255)
atatCCAGCGGCGCGTTTTGCGAGTAGCGCAGATTATCTTCGATATAAg < 1:762288/49‑1 (MQ=255)
tatCCAGCGGCGCGTTTTGCGAGTAGCGCAGATTATCTTCGATATAAGTGTTATAGACACCGCGCGCCAgc < 1:3927639/71‑1 (MQ=255)
atCCAGCGGCGCGTTTTGCGAGTAGCGCAGATTATCTTCGa > 1:2702300/1‑41 (MQ=255)
tCCAGCGCCGCATTCTGTGAATAGCGCAGGTTATCTTCGATATAGGTGTTATAGACGcctt < 1:184665/61‑3 (MQ=255)
gcgcGTTTTGCGAGTAGCGCAGATTATCTTCGATATAAGTGTTATAGACACCGCGCGCCAGCGCCGCTtc < 1:1202475/70‑1 (MQ=255)
cgcaTTCTGTGAATAGCGCAGGTTATCTTCGATATAGGTGTTATAg < 1:3494254/46‑1 (MQ=255)
gcgTTTTGCGAGTAGCGCAGATTATCTTCGATATAAGTGTtata < 1:1139577/44‑1 (MQ=255)
tttGCGAGTAGCGCAGATTATCTTCGATATAAGTGTTATAg > 1:912376/1‑41 (MQ=255)
tttGCGAGTAGCGCAGATTATCTTCGATATAAGTGTTATAGACACCGCGCGCCAg > 1:745678/1‑55 (MQ=255)
gCGAGTAGCGCAGATTATCTTCGATATAAGTGTTATAGACACCGCGCGCCAGCGCCGCTTCATcaccacca > 1:3236232/1‑71 (MQ=255)
gCGAGTAGCGCAGATTATCTTCGATATAAGTGTTATAGACACCGCGCGCCAGCGCCGCTTCATcaccac < 1:3645300/69‑1 (MQ=255)
|
ATCGATCTGCGCTGGCAGATTGGTGCCGGTATTCACTTCTTTATACATATCCAGCGGCGCGTTTTGCGAGTAGCGCAGATTATCTTCGATATAAGTGTTATAGACACCGCGCGCCAGCGCCGCTTCATCACCACCA > minE/1015562‑1015697
|
| 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
