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 |
1,784,663 |
C→T |
46.1% |
R61R (CGC→CGT) |
recN → |
recombination and repair protein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | minE | 1,784,663 | 0 | C | T | 46.1%
| 2.2
/ 29.5
| 39 | R61R (CGC→CGT) | recN | recombination and repair protein |
| Reads supporting (aligned to +/- strand): ref base C (8/13); new base T (12/6); total (20/19) |
| Fisher's exact test for biased strand distribution p-value = 1.11e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ATAGATGCCCTCGGTCTTTGTCTCGGTGGTCGCGCTGAAGCCGACATGGTGCGTACCGGCGCTGCTCGCGCTGACCTGTGCGCCCGTTTTTCTCTGAAAGATACGCCAGCGGCTCTGCGCTG > minE/1784595‑1784716
|
aTAGATGCCCTCGGTCTTTGTCTCGGTGGTCGCGCTGAAGCCGACATGGTGCGTACCGGCGCTGCTcgc > 1:3408462/1‑69 (MQ=255)
tAGATGCCCTCGGTCTTTGTCTCGGTGGTCGCGCTGAAGCCGACATGGTGCGTACCGGCGCTGCTcgcg > 1:3189758/1‑69 (MQ=255)
cTTTGTCTCGGTGGTCGCGCTGAAGCCGACATGGTGCGTACCGGCGCTGCTCGCGCTGACCTGTGCGcc > 1:1210108/1‑69 (MQ=255)
tGTCTCGGTGGTCGCGCTGAAGCCGACATGGTGCGTAGCGGCGCTGCTCGCGCTGACCTGTGCGCCCGt > 1:2236047/1‑69 (MQ=255)
tGTCTCGGTGGTCGCGCTGAAGCCGACATGGTGCGTACCGGCGCTGCTCGCGCTGACCTGTGCGCCCGt > 1:3115030/1‑69 (MQ=255)
tGTCTCGGTGGTCGCGCTGAAGCCGACATGGTGCGTACCGGCGCTGCTCGCGCTGACCTGTGCGCCCGt > 1:3191433/1‑69 (MQ=255)
tGTCTCGGTGGTCGCGCTGAAGCCGACATGGTGCGTACCGGCGCTGCTCGCGCTGACCTGTGCGCCCGt > 1:787604/1‑69 (MQ=255)
tGTCTCGGTGGTCGCGCTGAAGCCGACATGGTGCGTACCGGCGCTGCTCGCGCTGACCTGTGCGCCCGt > 1:1204141/1‑69 (MQ=255)
tGTCTCGGTGGTCGCGCTGAAGCCGACATGGTGCGTACCGGCGCTGCTCGCGCTGACCTGTGCGCCCGt > 1:2842824/1‑69 (MQ=255)
ctcGGTGGTCGCGCTGAAGCCGACATGGTGCGTACCGGCGCTGCTCGCGCTGACCTGTGCGCCCGtttt > 1:1350142/1‑69 (MQ=255)
tggtCGCGCTGAAGCCGACATGGTGCGTACCGGCGCTGCTCGCGCTGACCTGTGCGCCCGTTTTtct < 1:2687242/67‑1 (MQ=255)
tggtCGCGCTGAAGCCGACATGGTGCGTACCGGCGCTGCTCGCGCTGACCTGTGCGCCCGTTTTtct < 1:700271/67‑1 (MQ=255)
tggtCGCGCTGAAGCCGACATGGTGCGTACCGGCGCTGCTCGCGCTGACCTGTGCGCCCGTTTTtct < 1:1254086/67‑1 (MQ=255)
tggtCGCGCTGAAGCCGACATGGTGCGTACCGGCGCTGCTCGCGCTGACCTGTGCGCCCGTTTTtct < 1:599181/67‑1 (MQ=255)
gcTGAAGCCGACATGGTGCGTACCGGCGCTGCTCGCGCTGACCTGTGCGCCCGTTTTTCTCTGAAAGa < 1:270239/68‑1 (MQ=255)
gcTGAAGCCGACATGGTGCGTACCGGCGCTGCTCGCGCTGACCTGTGCGCCCGTTTTTCTCTGAAAGa < 1:2334057/68‑1 (MQ=255)
gcTGAAGCCGACATGGTGCGTACCGGCGCTGCTCGCGCTGACCTGTGCGCCCGTTTTTCTCTGAAAGa < 1:3106304/68‑1 (MQ=255)
gcTGAAGCCGACATGGTGCGTACCGGCGCTGCTCGCGCTGACCTGTGCGCCCGTTTTTCTCTGAAAGa < 1:1447034/68‑1 (MQ=255)
gcTGAAGCCGACATGGTGCGTACCGGCGCTGCTCGCGCTGACCTGTGCGCCCGTTTTTCTCTGAAAGa < 1:1117874/68‑1 (MQ=255)
gcTGAAGCAGACATGGTGCGTACCGGCGCTGCTCGCGCTGACCTGTGCGCCCGTTTTTCTCTGAAAGa < 1:979544/68‑1 (MQ=255)
aaGCCGACATGGTGCGTACCGGCGCTGCTCGTGCCGACCTGTGCGCCCGTTTTTCTCTg < 1:2061531/59‑1 (MQ=255)
aaGCCGACATGGTGCGTACCGGCGCTGCTCGTGCCGACCTGTGCGCCCGTTTTTCTCTg < 1:558919/59‑1 (MQ=255)
aaGCCGACATGGTGCGTACCGGCGCTGCTCGTGCCGACCTGTGCGCCCGTTTTTCTCTg < 1:1930049/59‑1 (MQ=255)
aaGCCGACATGGTGCGTACCGGCGCTGCTCGTGCCGACCTGTGCGCCCGTTTTTCTCTg < 1:809984/59‑1 (MQ=255)
aaGCCGACATGGTGCGTACCGGCGCTCCTCGTGCCGACCTGTGCGCCCGTTTTTCTCTg < 1:991031/59‑1 (MQ=255)
tGCGTACCGGCGCTGCTCGTGCCGACCTGTGCGCCCGTTTTTCTCTg < 1:534887/47‑1 (MQ=39)
gCGTACCGGCGCTGCTCGCGCTGACCTGTGCGCCCGTTTTTCTCTGAAAGATACGCCAGCGGCTCTgc < 1:2357288/68‑1 (MQ=255)
gCGTACCGGCGCTGCTCGCGCTGACCTGTGCGCCCGTTTTTCTCTGAAAGATACGCCAGCGGCTCTgc < 1:1190964/68‑1 (MQ=255)
cGTACCGGCGCTGCTCGCGCTGACCTGTGCGCCCGTTTTTCTCTGAAAGATACGCCAGCGGCTCTgc < 1:2282749/67‑1 (MQ=255)
tACCGGCGCTGCTCGTGCCGACCTGTGCGCCCGTTTTTCTCTGAAAGATACGCCAGc > 1:1986173/1‑57 (MQ=255)
tACCGGCGCTGCTCGTGCCGACCTGTGCGCCCGTTTTTCTCTGAAAGATACGCCAGCGGCCCTgcgtt > 1:2630208/1‑66 (MQ=255)
tACCGGCGCTGCTCGTGCCGACCTGTGCGCCCGTTTTTCTCTGAAAGATACGCCAGCGGCCCTgcgtt > 1:1973951/1‑66 (MQ=255)
tACCGGCGCTGCTCGTGCCGACCTGTGCGCCCGTTTTTCTCTGAAAGATACGCCAGCGGCCCTgcgtt > 1:1157619/1‑66 (MQ=255)
tACCGGCGCTGCTCGTGCCGACCTGTGCGCCCGTTTTTCTCTGAAAGATACGCCAGCGGCCCTgcgt > 1:1395840/1‑66 (MQ=255)
tACCGGCGCTGCTCGTGCCGACCTGTGCGCCCGTTTTTCTCTGAAAGATACGCCAGCGGCCCTGCgttg > 1:3034394/1‑69 (MQ=255)
tACCGGCGCTGCTCGTGCCGACCTGTGCGCCCGTTTTTCTCTGAAAGATACGCCAGCGGCCCTGCgttg > 1:298527/1‑69 (MQ=255)
tACCGGCGCTGCTCGTGCCGACCTGTGCGCCCGTTTTTCTCTGAAAGATACGCCAGCGGCCCTGCgttg > 1:3425969/1‑69 (MQ=255)
tACCGGCGCTGCTCGTGCCGACCTGTGCGCCCGTTTTTCTCTGAAAGATACGCCAGCGGCCCTGCgttg > 1:401723/1‑69 (MQ=255)
tACCGGCGCTGCTCGTGCCGACCTGTGCGCCCGTTTTTCTCTGAAAGATACGCCAGCGGCCCTGCgttg > 1:503065/1‑69 (MQ=255)
tACCGGCGCTGCTCGTGCCGACCTGTGCGCCCGTTTTTCTCTGAAAGATACGCCAGCGGCCCTGCgttg > 1:1743723/1‑69 (MQ=255)
tACCGGCGCTGCTCGTGCCGACCTGTGCGCCCGTTTTTCTCTGAAAGATACGCCAGCGGCCCTGCgttg > 1:1500421/1‑69 (MQ=255)
|
ATAGATGCCCTCGGTCTTTGTCTCGGTGGTCGCGCTGAAGCCGACATGGTGCGTACCGGCGCTGCTCGCGCTGACCTGTGCGCCCGTTTTTCTCTGAAAGATACGCCAGCGGCTCTGCGCTG > minE/1784595‑1784716
|
| 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
