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 F1 I0 R2
|
251 |
90.0 |
5200563 |
86.9% |
4519289 |
59.2 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
minE |
775,607 |
C→A |
9.4% |
D410E (GAC→GAA) |
icd → |
isocitrate dehydrogenase, specific for NADP+ |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 775,607 | 0 | C | A | 9.4%
| 242.5
/ 7.6
| 74 | D410E (GAC→GAA) | icd | isocitrate dehydrogenase, specific for NADP+ |
| Reads supporting (aligned to +/- strand): ref base C (30/37); new base A (4/3); total (34/40) |
| Fisher's exact test for biased strand distribution p-value = 6.96e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 8.35e-01 |
CCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGG > minE/775540‑775656
|
ccGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGAcgcg < 1:2662816/71‑1 (MQ=255)
cGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGa < 1:1492228/71‑1 (MQ=255)
aCTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAAc < 1:2220263/71‑1 (MQ=255)
ttCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAAc < 1:200760/69‑1 (MQ=255)
cGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGaaaa > 1:1036730/1‑66 (MQ=255)
cGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGaaaa > 1:2324348/1‑66 (MQ=255)
cGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGaaaa > 1:615486/1‑66 (MQ=255)
cGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGaaaa > 1:4670839/1‑66 (MQ=255)
cGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGaaaa > 1:920139/1‑66 (MQ=255)
cGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGaaaa > 1:4307537/1‑66 (MQ=255)
cGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGaaaa > 1:3838587/1‑66 (MQ=255)
cGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTAAGAGTTTGGTGACGCGATCATCGaaaa > 1:702098/1‑66 (MQ=255)
gAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGt < 1:2675509/70‑1 (MQ=255)
gAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGt < 1:530199/70‑1 (MQ=255)
gAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGt < 1:234235/70‑1 (MQ=255)
gAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGAGATCATCGAAAACATGt < 1:1174415/70‑1 (MQ=255)
aGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGt < 1:2489055/69‑1 (MQ=255)
atggatggCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGat > 1:2257935/1‑47 (MQ=255)
atggatggCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGat > 1:1189648/1‑47 (MQ=255)
atggatggCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGat > 1:3074056/1‑47 (MQ=255)
ggatggCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGtt > 1:2294506/1‑71 (MQ=255)
ggatggCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGtt > 1:1093829/1‑71 (MQ=255)
ggatggCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGtt > 1:4302522/1‑71 (MQ=255)
ggatggCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGtt > 1:3367555/1‑71 (MQ=255)
ggatggCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGtt > 1:4380685/1‑71 (MQ=255)
ggaaggCGCTAAGCTGCTGAAATGTTCAGAGTTTGGTGAAGCGATCATCGaaaa < 1:3802820/54‑1 (MQ=255)
ggaaggCGCTAAGCTGCTGAAATGTTCAGAGTTTGGTGAAGCGATCATCGaaaa < 1:3796755/54‑1 (MQ=255)
gatggCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGcc < 1:5063702/64‑1 (MQ=255)
gatggCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGcc < 1:4664684/64‑1 (MQ=255)
atggCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGcc < 1:4066564/63‑1 (MQ=255)
aaggCGCTAAGCTTCTGAAATGTTCAGAGTTTGGTGAAGCGATCATCGAAAACa > 1:3348691/3‑54 (MQ=255)
aaggCGCTAAGCTGCTGAAATGTTCAGAGTTTGGTGAAGCGATCATCGAAAACa > 1:3927844/3‑54 (MQ=255)
aaggCGCTAAGCTGCTGAAATGTTCAGAGTTTGGTGAAGCGATCATCGAAAACa > 1:812079/3‑54 (MQ=255)
aaggCGCTAAGCTGCTGAAATGTTCAGAGTTTGGTGAAGCGATCATCGAAAACa > 1:4743693/3‑54 (MQ=255)
gcgcTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTa < 1:3009855/71‑1 (MQ=255)
cgcTAAGCTGCTGAAATGTTCAGAGTTTGGTGAAGCGATCATCGaaaa < 1:2074765/48‑1 (MQ=39)
cTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAAt > 1:4467167/1‑71 (MQ=255)
aaCTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAAtt > 1:4449925/1‑69 (MQ=255)
aaCTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAAtt < 1:4193328/69‑1 (MQ=255)
aCTGCTGAAATGTTCAGAGTTTGGTGACGCGATCCTCGaaa < 1:3557/41‑1 (MQ=255)
aCTGCTGAAATGTTCAGAGTTTGGTGACGCGATCCTCGaaa < 1:668113/41‑1 (MQ=255)
aCTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGaaa < 1:5092064/41‑1 (MQ=255)
aCTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGaaa < 1:989341/41‑1 (MQ=255)
aCTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGaaa < 1:4806127/41‑1 (MQ=255)
aCTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGaaa < 1:3963061/41‑1 (MQ=255)
aCTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGaaa < 1:1259462/41‑1 (MQ=255)
aCTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGaaa < 1:1595957/41‑1 (MQ=255)
aCTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGaaa < 1:3043059/41‑1 (MQ=255)
aCTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGaaa < 1:3154665/41‑1 (MQ=255)
ctgctgAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAAc > 1:417380/1‑42 (MQ=255)
ctgctgAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAAc > 1:4547021/1‑42 (MQ=255)
ctgctgAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAAc > 1:4534787/1‑42 (MQ=255)
ctgctgAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAAtt > 1:3731637/1‑67 (MQ=255)
ctgctgAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATttatt < 1:4392002/71‑1 (MQ=255)
ctgctgAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATttatt < 1:1291345/71‑1 (MQ=255)
ctgctgAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATttatt < 1:4315564/71‑1 (MQ=255)
ctgctgAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATttatt < 1:4827184/71‑1 (MQ=255)
ctgctgAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATttatt < 1:2838440/71‑1 (MQ=255)
ctgctgAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATtta > 1:3208381/1‑69 (MQ=255)
ctgctgAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATtta > 1:2457560/1‑69 (MQ=255)
gctgAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATttatta > 1:3424364/1‑70 (MQ=255)
gctgAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATtta > 1:2042733/1‑67 (MQ=255)
gctgAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTaa > 1:104190/1‑71 (MQ=255)
ctgAAATGTTCAGAGTTTGGTGACTCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAAc > 1:3621496/1‑71 (MQ=255)
ctgAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGt < 1:4735479/43‑1 (MQ=255)
ctgAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGt < 1:1512069/43‑1 (MQ=255)
ctgAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGt < 1:1314019/43‑1 (MQ=255)
ctgAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGt < 1:3176522/43‑1 (MQ=255)
tgAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAAtt > 1:345075/1‑63 (MQ=255)
aaaTGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAAtt < 1:2700924/61‑1 (MQ=255)
aaaTGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAAtt < 1:4535902/61‑1 (MQ=255)
aaaTGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAAtt < 1:4135935/61‑1 (MQ=255)
aaaTGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACgg < 1:4528419/70‑1 (MQ=255)
ttCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATtta > 1:1257367/1‑58 (MQ=255)
tttGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATttatt < 1:2276199/53‑1 (MQ=255)
|
CCGTAACCTATGACTTCGAGCGTCTGATGGATGGCGCTAAACTGCTGAAATGTTCAGAGTTTGGTGACGCGATCATCGAAAACATGTAATGCCGTAGTTTGTTAAATTTATTAACGG > minE/775540‑775656
|
| 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
