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 |
|
A1 F3 I0 R2
|
260 |
44.3 |
3360226 |
90.5% |
3041004 |
64.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
4,155,146:1 |
+A |
23.4% |
coding (783/870 nt) |
prkB ← |
predicted phosphoribulokinase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 4,155,146 | 1 | . | A | 23.4%
| 105.9
/ 45.5
| 47 | coding (783/870 nt) | prkB | predicted phosphoribulokinase |
| Reads supporting (aligned to +/- strand): ref base . (9/27); new base A (5/6); total (14/33) |
| Fisher's exact test for biased strand distribution p-value = 2.63e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 6.26e-01 |
AATCGTTGCACCAGCGGCAGCATAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGTATTGATGTGGGAAATGAATGAGCCTTGCAACATCGCCAGCAGCCAGGGGAAAT > W3110S.gb/4155084‑4155207
|
aaTCGTTGCACCAGCGGCAGCATAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACg < 1:2200207/70‑1 (MQ=255)
aaTCGTTGCACCAGCGGCAGCATAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACg < 1:1781522/70‑1 (MQ=255)
aaTCGTTGCACCAGCGGCAGCATAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACg < 1:1305306/70‑1 (MQ=255)
gTTGCACCAGCGGCAGCATAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACCAACTAACGTAtt < 1:2611828/71‑1 (MQ=255)
gTTGCACCAGCGGCAGCATAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACCAACTAACGTAtt < 1:1147243/71‑1 (MQ=255)
gTTGCACCAGCGGCAGCATAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACCAACTAACGTAtt < 1:3115468/71‑1 (MQ=255)
gTTGCACCAGCGGCAGCATAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACCAACTAACGTAtt < 1:3149094/71‑1 (MQ=255)
gTTGCACCAGCGGCAGCATAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGTAtt < 1:1070145/70‑1 (MQ=255)
gTTGCACCAGCGGCAGCATAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGTAtt < 1:280912/70‑1 (MQ=255)
gTTGCACCAGCGGCAGCATAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGTAtt < 1:3050156/70‑1 (MQ=255)
gTTGCACCAGCGGCAGCATAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGTAtt < 1:1237777/70‑1 (MQ=255)
gTTGCACCAGCGGCAGCATAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGTAtt < 1:483325/70‑1 (MQ=255)
gTTGCACCAGCGGCAGCATAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGTAtt < 1:1177152/70‑1 (MQ=255)
gTTGCACCAGCGGCAGCATAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGTAtt < 1:800172/70‑1 (MQ=255)
gTTGCACCAGCGGCAGCATAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGTAtt < 1:957039/70‑1 (MQ=255)
ttGCACCAGCGGCAGCATAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACCAACTAACGTAtt < 1:45124/70‑1 (MQ=255)
ttGCACCAGCGGCAGCATAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACCAACTAACGTAtt < 1:218085/70‑1 (MQ=255)
ttGCACCAGCGGCAGCATAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGTAtt < 1:1946945/69‑1 (MQ=255)
gcagcaTAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGTATTGATGTTGGAaatt < 1:2437199/71‑2 (MQ=255)
gcagcaTAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGTATTGATGTGTGAaatg < 1:1916034/71‑1 (MQ=255)
gcagcaTAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGTATTGATGTGGGAaatg < 1:3263087/71‑1 (MQ=255)
gcagcaTAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGTATTGATGTGGGAaatg < 1:3026114/71‑1 (MQ=255)
gcagcaTAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGTATTGATGTGGGAaatg < 1:512471/71‑1 (MQ=255)
gcagcaTAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGTATTGATGTGGGAaatg < 1:2453003/71‑1 (MQ=255)
gcagcaTAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGTATTGATGTGGGAaatg < 1:251856/71‑1 (MQ=255)
gcagcaTAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGTATTGATGTGGGAaatg < 1:1296804/71‑1 (MQ=255)
gcagcaTAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGTATTGATGTGGGAaatg < 1:1388452/71‑1 (MQ=255)
cagcaTAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGt < 1:3030038/54‑1 (MQ=255)
cagcaTAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGt < 1:1150544/54‑1 (MQ=255)
cagcaTAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGt < 1:2756926/54‑1 (MQ=255)
cagcaTAATTAATTCCATTGCCAGACCCATTTTGCCGCCAGGTACC‑ACTAACGt < 1:3305102/54‑1 (MQ=255)
aTAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGTATTGATGTGGGAaatgaat > 1:374258/1‑69 (MQ=255)
aattCCATTGCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGTATTGATGTGGGAAATGAATGAGCCTTg > 1:2653473/1‑71 (MQ=255)
aattCCATTGCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGTATTGATGTGGGAAATGAATGAGACTTg > 1:1262876/1‑71 (MQ=255)
attCCATTGCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGTATTGATGTGGGAAATGAATGAGCCTTGc < 1:199251/71‑1 (MQ=255)
ttacATTGCCAGACCCATTTTGCCGCCCGGTACCAACTAACGTATTGATGTGGGAAATGAATGAGCCTTg > 1:11614/4‑70 (MQ=255)
ttCCATTGCCAGACCCATTTTGCCGCCCGGTACCAACTAGCGTATTGATGTGGGAAATGAATGAGCCTTg > 1:3020148/1‑70 (MQ=255)
ttCCATTGCCAGACCCATTTTGCCGCCCGGTACCAACTAACGTATTGATGTGGGAAATGAATGAGCCTTg > 1:1205760/1‑70 (MQ=255)
ttCCATTGCCAGACCCATTTTGCCGCCCGGTACCAACTAACGTATTGATGTGGGAAATGAATGAGCCTTg > 1:1385478/1‑70 (MQ=255)
cATTGCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGTATTGATGTGGGAAATGAATGAGCCTTGCAACa < 1:2188058/71‑1 (MQ=255)
gCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGTATTGATGTGGGAAATGAATGAGCCTTGCAACATCGc > 1:623210/1‑71 (MQ=255)
gCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGTATTGATGTGGGAAATGAATGAGCCTTGCAACATCGc > 1:1073862/1‑71 (MQ=255)
gCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGTATTGATGTGGGAAATGAATGAGCCTTGCAACATCGc > 1:3147952/1‑71 (MQ=255)
gCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGTATTGATGTGGGAAATGAATGAGCCTTGCAACATCGc > 1:2004712/1‑71 (MQ=255)
gCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGTATTGATGTGGGAAATGAATGAGCCTTGCAACATCGc > 1:2917868/1‑71 (MQ=255)
gCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGTATTGATGTGGGAAATGAATGAGCCTTGCAACATCGc > 1:2305346/1‑71 (MQ=255)
cccGGTACCAACTAACGTATTGATGTGGGAAATGAATGAGCCTTGCAACATCGCCAGCAGCCAGGGGAAAt > 1:3007594/1‑71 (MQ=255)
|
AATCGTTGCACCAGCGGCAGCATAATTAATTCCATTGCCAGACCCATTTTGCCGCCCGGTACC‑ACTAACGTATTGATGTGGGAAATGAATGAGCCTTGCAACATCGCCAGCAGCCAGGGGAAAT > W3110S.gb/4155084‑4155207
|
| 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
