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 |
1,566,518 |
G→T |
72.5% |
L90L (CTG→CTT) |
yfeO → |
predicted ion channel protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,566,518 | 0 | G | T | 72.5%
| 43.2
/ 21.5
| 40 | L90L (CTG→CTT) | yfeO | predicted ion channel protein |
| Reads supporting (aligned to +/- strand): ref base G (7/4); new base T (18/11); total (25/15) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 7.38e-01 |
GGGGTTGGTTATCCGTTTCAGCCAGGGTCATGCCGGACCAGACCCCGCCTGTGAACCGCTGATCGGCGCACCGGTTCCGCCCTCTGCGCTACCTGGACTTATCGTAGCA > minE/1566458‑1566566
|
ggggTTGGTTATCCGTTTCAGCCAGGGTCATGCCGGACCAGACCCCGCCTGTGAACCGCTGATCGgcgc > 1:187484/1‑69 (MQ=255)
gttggttATCCGTTTCAGCCAGGGTCATGCCGGACCAGACCCCGCCTGTGAACCGCTGATCGGCGCAcc > 1:1470530/1‑69 (MQ=255)
gttggttATCCGTTTCAGCCAGGGTCATGCCGGACCAGACCCCGCCTGTGAACCGCTGATCGGCGCAcc > 1:1217746/1‑69 (MQ=255)
gttggttATCCGTTTCAGCCAGGGTCATGCCGGACCAGACCCCGCCTGTGAACCGCTGATCGGCGCAcc > 1:246528/1‑69 (MQ=255)
gttggttATCCGTTTCAGCCAGGGTCATGCCGGACCAGACCCCGCCTGTGAACCGCTGATCGGCGCAcc > 1:1859532/1‑69 (MQ=255)
ggttATCCGTTTCAGCCAGGGTCATGCCGGACCAGATCCCGCCTGTGAACCGCTTATCGGCGCACCgat < 1:1231517/69‑3 (MQ=255)
ggttATCCGTTTCAGCCAGGGTCATGCCGGACCAGATCCCGCCTGTGAACCGCTTATCGGCGCACCgat < 1:3308381/69‑3 (MQ=255)
ggttATCCGTTTCAGCCAGGGTCATGCCGGACCAGATCCCGCCTGTGAACCGCTTATCGGCGCACCgat < 1:320511/69‑3 (MQ=255)
ggttATCCGTTTCAGCCAGGGTCATGCCGGACCAGATCCCGCCTGTGAACCGCTTATCGGCGCACCgat < 1:404531/69‑3 (MQ=255)
ggttATCCGTTTCAGCCAGGGTCATGCCGGACCAGATCCCGCCTGTGAACCGCTTATCGGCGCACCgat < 1:2757073/69‑3 (MQ=255)
ggttATCCGTTTCAGCCAGGGTCATGCCGGACCAGATCCCGCCTGTGAACCGCTTATCGGCGCACCgat < 1:2705389/69‑3 (MQ=255)
ggttATCCGTTTCAGCCAGGGTCATGCCGGACCAGATCCCGCCTGTGAACCGCTTATCGGCGCACCgat < 1:2328132/69‑3 (MQ=255)
ggttATCCGTTTCAGCCAGGGTCATGCCGGACCAGATCCCGCCTGTGAACCGCTTATCGGCGCACCgat < 1:1991202/69‑3 (MQ=255)
ggttATCCGTTTCAGCCAGGGTCATGCCGGACCAGATCCCGCCTGTGAACCGCTTATCGGCGCACCgat < 1:1771499/69‑3 (MQ=255)
ggttATCCGTTTCAGCCAGGGTCATGCCGGACCAGATCCCGCCTGTGAACCGCTTATCGGCGCACCgat < 1:1765757/69‑3 (MQ=255)
ggttATCCGTTTCAGCCAGGGTCATGCCGGACCAGATCCCGCCTGTGAACCGCTTATCGGCGCACCgat < 1:1407204/69‑3 (MQ=255)
aTCCGTTTCAGCCAGGGTCATGCCGGACCAGATCCCGCCTGTGAACCGCTTATCGGCGCACCGATTCCg > 1:1918265/1‑69 (MQ=255)
aTCCGTTTCAGCCAGGGTCATGCCGGACCAGATCCCGCCTGTGAACCGCTTATCGGCGCACCGATTCCg > 1:2028885/1‑69 (MQ=255)
aTCCGTTTCAGCCAGGGTCATGCCGGACCAGATCCCGCCTGTGAACCGCTTATCGGCGCACCGATTCCg > 1:2279659/1‑69 (MQ=255)
aTCCGTTTCAGCCAGGGTCATGCCGGACCAGATCCCGCCTGTGAACCGCTTATCGGCGCACCGATTCCg > 1:2286124/1‑69 (MQ=255)
aTCCGTTTCAGCCAGGGTCATGCCGGACCAGATCCCGCCTGTGAACCGCTTATCGGCGCACCGATTCCg > 1:2299191/1‑69 (MQ=255)
aTCCGTTTCAGCCAGGGTCATGCCGGACCAGATCCCGCCTGTGAACCGCTTATCGGCGCACCGATTCCg > 1:477499/1‑69 (MQ=255)
aTCCGTTTCAGCCAGGGTCATGCCGGACCAGATCCCGCCTGTGAACCGCTTATCGGCGCACCGATTCCg > 1:504947/1‑69 (MQ=255)
aTCCGTTTCAGCCAGGGTCATGCCGGACCAGATCCCGCCTGTGAACCGCTTATCGGCGCACCGATTCCg > 1:2698243/1‑69 (MQ=255)
aTCCGTTTCAGCCAGGGTCATGCCGGACCAGATCCCGCCTGTGAACCGCTTATCGGCGCACCGATTCCg > 1:308161/1‑69 (MQ=255)
aTCCGTTTCAGCCAGGGTCATGCCGGACCAGATCCCGCCTGTGAACCGCTTATCGGCGCACCGATTCCg > 1:3391899/1‑69 (MQ=255)
aTCCGTTTCAGCCAGGGTCATGCCGGACCAGATCCCGCCTGTGAACCGCTTATCGGCGCACCGATTCCg > 1:1324305/1‑69 (MQ=255)
ccAGGGTCATGCCGGACCAGACCCCGCCTGTGAACCGCTGATCGGCGCACCGGTTCCGCCCTCTGCGCt < 1:801913/69‑1 (MQ=255)
ccAGGGTCATGCCGGACCAGACCCCGCCTGTGAACCGCTGATCGGCGCACCGGTTCCGCCCTCTGCGCt < 1:247947/69‑1 (MQ=255)
ccAGGGGCATGCCGGACCAGACCCCGCCTGTGAACCGCTGATCGGCGCACCGGTTCCGCCCTCTGCGCt < 1:928169/69‑1 (MQ=255)
tCATGCCGGACCAGACCCCGCCTGTGAACCGCTGATCGGCGCACCGGTTCCGCCCTCTGCGCTACCTgg > 1:587722/1‑69 (MQ=255)
tCATGCCGGACCAGACCCCGCCTGTGAACCGCTGATCGGCGCACCGGTTCCGCCCTCTGCGCTACCTgg > 1:138858/1‑69 (MQ=255)
gCCGGACCAGACCCCGCCTGTGAACCGCTGATCGGCGCACCGGTTCCGCCCTCTGCGCTACCTGGACtt < 1:3415428/69‑1 (MQ=255)
atcccGCCTGTGACCCGCTTATCGGCGCACCGATTCCGCCCTCTGCGCTACCAGGACTTATCGTAGc > 1:1774654/3‑67 (MQ=255)
atcccGCCTGTGAACCGCTTATCGGCGCACCGATTCCGCCCTCTGCGCTACCAGGACTTATCGTAGc > 1:1810186/3‑67 (MQ=255)
atcccGCCTGTGAACCGCTTATCGGCGCACCGATTCCGCCCTCTGCGCTACCAGGACTTATCGTAGCa > 1:3096220/3‑68 (MQ=255)
atcccGCCTGTGAACCGCTTATCGGCGCACCGATTCCGCCCTCTGCGCTACCAGGACTTATCGTAGCa > 1:364293/3‑68 (MQ=255)
atcccGCCTGTGAACCGCTTATCGGCGCACCGATTCCGCCCTCTGCGCTACCAGGACTTATCGTAGCa > 1:3035786/3‑68 (MQ=255)
atcccGCCTGTGAACCGCTTATCGGCGCACCGATTCCGCCCTCTGCGCTACCAGGACTTATCGTAGCa > 1:412936/3‑68 (MQ=255)
atcccGCCTGTGAACCGCTTATCGGCGCACCGATTCCGCCCTCTGCGCTACCAGGACTTATCGTAGCa > 1:667311/3‑68 (MQ=255)
|
GGGGTTGGTTATCCGTTTCAGCCAGGGTCATGCCGGACCAGACCCCGCCTGTGAACCGCTGATCGGCGCACCGGTTCCGCCCTCTGCGCTACCTGGACTTATCGTAGCA > minE/1566458‑1566566
|
| 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
