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 |
2,779,382 |
C→T |
100% |
T119T (ACC→ACT) |
metH → |
homocysteine‑N5‑methyltetrahydrofolate transmethylase, B12‑dependent |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 2,779,382 | 0 | C | T | 100.0%
| 26.0
/ NA
| 13 | T119T (ACC→ACT) | metH | homocysteine‑N5‑methyltetrahydrofolate transmethylase, B12‑dependent |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (0/13); total (0/13) |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
TCCCTGTCGGCGGAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCTACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTAT > minE/2779317‑2779450
|
tCCCTGTCGGCGGAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACcgcg > 1:444320/1‑69 (MQ=255)
tCCCTGTCGGCGGAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACcgcg > 1:2525318/1‑69 (MQ=255)
tCCCTGTCGGCGGAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACcgcg > 1:2682262/1‑69 (MQ=255)
tCCCTGTCGGCGGAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACcgcg > 1:3005824/1‑69 (MQ=255)
tCCCTGTCGGCGGAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACcgcg > 1:3027703/1‑69 (MQ=255)
ccTGTCGGCGGAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACcgcgcg > 1:78965/1‑69 (MQ=255)
ggcggAAATCAACTTTGCGGCTGCGAAACTGGCGCGCGCCTGTGCTGACGAGTGGACTGCCCGCACg < 1:3100227/67‑1 (MQ=255)
ggcggAAATCAACTTTGCGGCGGCGAAACTGGCGCGCGCCTGTGCTGACGAGTGGACTGCCCGCACg < 1:877355/67‑1 (MQ=255)
ggcggAAATCAACTTTGCGGCGGCGAAACTGGCGCGCGCCTGTGCTGACGAGTGGACTGCCCGCACg < 1:1071217/67‑1 (MQ=255)
ggcggAAATCAACTTTGCGGCGGCGAAACTGGCGCGCGCCTGTGCTGACGAGTGGACTGCCCGCACg < 1:451267/67‑1 (MQ=255)
ggcggAAATCAACTTTGCGGCGGCGAAACTGGCGCGCGCCTGTGCTGACGAGTGGACTGCCCGCACg < 1:3263527/67‑1 (MQ=255)
ggcggAAATCAACTTTGCGGCGGCGAAACTGGCGCGCGCCTGTGCTGACGAGTGGACTGCCCGCACg < 1:1951731/67‑1 (MQ=255)
ggcggAAATCAACTTTGCGGCGGCGAAACTGGCGCGCGCCTGTGCTGACGAGTGGACTGCCCGCACg < 1:1248205/67‑1 (MQ=255)
tCAACTTTGCGGCGGCGAAACTGGCGCGCGCCTGTGCTGACGAGTGTACTGCCCGCACg < 1:3283854/59‑1 (MQ=255)
gcgcgcCTGTGCTGACGAGTGGACTGCCCGCACGCCGGAGAAACCGCGCTACGTTGCCGGTGTtctc < 1:2725562/67‑1 (MQ=255)
gcgcgcCTGTGCTGACGAGTGGACTGCCCGCACGCCGGAGAAACCGCGCTACGTTGCCGGTGTtctc < 1:346335/67‑1 (MQ=255)
gcgcgcCTGTGCTGACGAGTGGACTGCCCGCACGCCGGAGAAACCGCGCTACGTTGCCGGTGTtctc < 1:1898652/67‑1 (MQ=255)
gcgcgcCTGTGCTGACGAGTGGACTGCCCGCACGCCGGAGAAACCGCGCTACGTTGCCGGTGTtctc < 1:726593/67‑1 (MQ=255)
gcgcgcCTGTGCTGACGAGTGGACTGCCCGCACGCCGGAGAAACCGCGCTACGTTGCCGGTGTtctc < 1:1854301/67‑1 (MQ=255)
cgcgcgCACGCCAGAGAAACCGCGCTACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTAt < 1:313884/69‑1 (MQ=255)
cgcgcgCACGCCAGAGAAACCGCGCTACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTAt < 1:2146970/69‑1 (MQ=255)
|
TCCCTGTCGGCGGAAATCAACTTTGCGGCGGCGAAACTGGCGCGAGCTTGTGCTGACGAGTGGACCGCGCGCACGCCAGAGAAACCGCGCTACGTTGCCGGTGTTCTCGGCCCGACCAACCGCACGGCGTCTAT > minE/2779317‑2779450
|
| 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
