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 |
|
A5 F21 I0 R1
|
148 |
22.8 |
1772010 |
97.0% |
1718849 |
61.3 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
3,806,473 |
G→A |
47.1% |
P198P (CCG→CCA) |
yicI → |
predicted alpha‑glucosidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 3,806,473 | 0 | G | A | 47.1%
| ‑1.4
/ 20.1
| 17 | P198P (CCG→CCA) | yicI | predicted alpha‑glucosidase |
| Reads supporting (aligned to +/- strand): ref base G (3/6); new base A (3/5); total (6/11) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
CAGACGGTAGAGACCTGGAACCGGGACGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCGTTCTACATGACTAACCGTGGTTATGGGGTACTGGTCAATCATCCCCAGTGTGTCTCTTTTGAAG > W3110S.gb/3806408‑3806537
|
cAGACGGTAGAGACCTGGAACCGGGACGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCATTCTa < 1:835062/71‑1 (MQ=255)
cAGACGGTAGAGACCTGGAACCGGGACGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCATTCTa > 1:508910/1‑71 (MQ=255)
aCGGTAGAGACCTGGAACCGGGACGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCGTTCTACAt > 1:876847/1‑71 (MQ=255)
tAGAGACCTGGAACCGGGACGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCGTTCTACATGACt < 1:1623444/71‑1 (MQ=255)
agaCCTGGAACCGGGACGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCGTTCTACATGACTAAc < 1:1015016/71‑1 (MQ=255)
tGGAACCGGGACGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCATTCt < 1:563897/55‑1 (MQ=255)
ggAACCGGGACGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCGTTCTACATGACTAACCGTGGt > 1:641067/1‑71 (MQ=255)
aCGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCGTTCTACATGACTAACCGTGGTTATGGGGTa < 1:1489429/71‑1 (MQ=255)
gcACAAGTACTGAACAGGCGTATAAAAATATCCCGTTCTACATGACTAACCGTGGTTATGGGGTACTGGTc < 1:493051/71‑1 (MQ=255)
gcACAAGTACTGAACAGGCGTATAAAAATATCCCATTCTACATGACTAACCGTGGTTATGGGGTACTGGt > 1:475923/1‑70 (MQ=255)
cacaAGTACTGAACAGGCGTATAAAAATATCCCATTCTACATGACTAACCGTGGTTATGGGGTACTGGTCa < 1:928979/71‑1 (MQ=255)
acaAGTACTGAACAGGCGTATAAAAATATCCCATTCTACATGACTAACCGTGGTTATGGGGTACTGGTCaa > 1:758531/1‑71 (MQ=255)
tataAAAATATCCCATTCTACATGACTAACCGTGGTTATGGGGTACTGGTCAATCATCCCCAGTGTGtctc < 1:534096/71‑1 (MQ=255)
aaaaTATCCCGTTCTACATGACTAACCGTGGTTATGGGGTACTGGTCAATCATCCCCAGTGTGTCTCttt < 1:7495/70‑1 (MQ=255)
atatCCCATTCTACATGACTAACCGTGGTTATGGGGTACTGGt < 1:226180/43‑1 (MQ=255)
tatCCCGTTCTACATGACTAACCGTGGTTATGGGGTACTGGTCAATCATCCCCAGTGTGTCTCTTTTGaa > 1:566287/1‑70 (MQ=255)
tatCCCGTTCTACATGACTAACCGTGGTTATGGGGTACTGGTCAATCATCCCCAGTGTGTCTCTTTTGAAg < 1:620907/71‑1 (MQ=255)
|
CAGACGGTAGAGACCTGGAACCGGGACGGCGGCACAAGTACTGAACAGGCGTATAAAAATATCCCGTTCTACATGACTAACCGTGGTTATGGGGTACTGGTCAATCATCCCCAGTGTGTCTCTTTTGAAG > W3110S.gb/3806408‑3806537
|
| 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
