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 F8 I0 R2
|
422 |
46.8 |
3726540 |
94.7% |
3529033 |
61.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
W3110S.gb |
2,313,823 |
T→C |
76.8% |
E349G (GAA→GGA) |
yojL ← |
predicted thiamine biosynthesis lipoprotein |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | W3110S.gb | 2,313,823 | 0 | T | C | 76.8%
| 82.9
/ 22.9
| 43 | E349G (GAA→GGA) | yojL | predicted thiamine biosynthesis lipoprotein |
| Reads supporting (aligned to +/- strand): ref base T (6/4); new base C (16/17); total (22/21) |
| Fisher's exact test for biased strand distribution p-value = 7.21e-01 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.86e-01 |
TTAAGGATAGCCTTTAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTTCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGTTTTAAAGCTATCGCC > W3110S.gb/2313754‑2313878
|
ttAAGGATAGACTTTAGGCTGCCCGGTCACCATCACGCAAAAACCAACACTCTTGCGCTTTAAttttttt > 1:3448602/1‑70 (MQ=255)
aaGGATAGCCTTTAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGc > 1:2234785/1‑71 (MQ=255)
aaGGATAGCCTTTAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGc > 1:2468088/1‑71 (MQ=255)
aGCCTTTAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGAc > 1:2889394/1‑69 (MQ=255)
tAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGc > 1:2162630/1‑71 (MQ=255)
tAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGc > 1:2331529/1‑71 (MQ=255)
tAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGc > 1:266785/1‑71 (MQ=255)
cccGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTaa < 1:3182544/70‑1 (MQ=255)
cccGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTaa < 1:10478/70‑1 (MQ=255)
cccGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTaa < 1:195629/70‑1 (MQ=255)
cccGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTa < 1:1561072/69‑1 (MQ=255)
ccGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAAc < 1:3298038/71‑1 (MQ=255)
ggTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACtg < 1:2606158/71‑1 (MQ=255)
aCCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTTCGCTGACAAGGAAGCTTTTAAACTgtggt < 1:990253/71‑1 (MQ=255)
aTCACGCAAAAACCAACAATCTTGCTCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTgtggt < 1:1567801/68‑1 (MQ=255)
aTCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTgtggt < 1:582597/68‑1 (MQ=255)
tCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAgg < 1:3725306/49‑1 (MQ=255)
tCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAgg < 1:139005/49‑1 (MQ=255)
cACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACAt > 1:2700431/1‑71 (MQ=255)
cACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACAt > 1:1580197/1‑71 (MQ=255)
aCGCAAAAACCAACAATCTTGCGCTTTAATTTTTTTCGCTGACAAGGAAGCt > 1:3556041/1‑52 (MQ=255)
aCGCAAAAACCAACAATCTTGCGCTTTAATTTTTTTCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATc > 1:756667/1‑71 (MQ=255)
aCGCAAAAACCAACAATCTTGCGCTTTAATTTTTTTCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATc > 1:956518/1‑71 (MQ=255)
aCGCAAAAACCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGa > 1:853275/1‑67 (MQ=255)
aaaaCCAACAATCTTGCGCTTTAATTTTTTTCGCTGACAAGGAAGCTTTTAAACTgtggtg < 1:2718590/61‑1 (MQ=255)
aaaaCCAACAATCTTGCGCTTTAATTTTTTTCGCTGACAAGGAAGCTTTTAAACTgtggtg < 1:365739/61‑1 (MQ=255)
aaCCAACAATCTTGCTCTTTAATTTTTTTCGCTGACAAGGAAGCTTTTAAACTGTGGTGAc > 1:2885956/1‑61 (MQ=255)
aaCCAACAATCTTGCGCTTTAATTTTTTTCGCTGACAAGGAAGCTTTTAAACTGTGGTGAc > 1:897608/1‑61 (MQ=255)
aaCCAACAATCTTGCGCTTTAATTTTTTTCGCTGACAAGGAAGCTTTTAAACTGTGGTGAc > 1:938497/1‑61 (MQ=255)
aaCCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGttt > 1:59831/1‑71 (MQ=255)
aaCCAACAATCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGttt > 1:265804/1‑71 (MQ=255)
aaTCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGTTTTAAAGc > 1:3001553/1‑70 (MQ=255)
aaTCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGTTTTAAAGc > 1:3261877/1‑70 (MQ=255)
aaTCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGTTTTAAAGCt < 1:371098/71‑1 (MQ=255)
aaTCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGTTTTAAAGCt < 1:66551/71‑1 (MQ=255)
aTCTTGCGCTTTAATTTTTTTCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGTTTTAAAGCTa < 1:504004/71‑1 (MQ=255)
aTCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGTTTTAAAGCTa > 1:3092896/1‑71 (MQ=255)
tCTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTa < 1:2511026/40‑1 (MQ=255)
cTTGCGCTTTAATTTTTTCCGCTGACAAGGAAGCTTTTa < 1:1787572/39‑1 (MQ=255)
gcgcTTTAATTTTTTCCGCTGACAAGGAAGCTTTTaaa > 1:3262940/1‑38 (MQ=255)
gcgcTTTAATTTTTTCCGCTGACAAGGAAGCTTTTaaa > 1:11664/1‑38 (MQ=255)
cgcTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGTTTTAAAGCTATCGcc < 1:593434/70‑1 (MQ=255)
cgcTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGTTTTAAAGCTATCGcc < 1:269172/70‑1 (MQ=255)
cgcTTTAATTTTTTCCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGTTTTAAAGCTATCGcc < 1:264869/70‑1 (MQ=255)
|
TTAAGGATAGCCTTTAGGCTGCCCGGTCACCATCACGCAAAAACCAACAATCTTGCGCTTTAATTTTTTTCGCTGACAAGGAAGCTTTTAAACTGTGGTGACATCCAGGTTTTAAAGCTATCGCC > W3110S.gb/2313754‑2313878
|
| 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
