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 F1 I2 R1
|
765 |
46.1 |
2269152 |
93.8% |
2128464 |
105.7 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
1,211,652 |
C→T |
intergenic (+75/+28) |
icdC → / ← iraM |
pseudogene, isocitrate dehydrogenase C‑terminal gene fragment, idcC' is a 54 codon 3' gene fragment created during e14 prophage insertion/RpoS stabilzer during Mg starvation, anti‑RssB factor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 1,211,652 | 0 | C | T | 100.0%
| 47.9
/ NA
| 16 | intergenic (+75/+28) | icdC/iraM | pseudogene, isocitrate dehydrogenase C‑terminal gene fragment, idcC' is a 54 codon 3' gene fragment created during e14 prophage insertion/RpoS stabilzer during Mg starvation, anti‑RssB factor |
| Reads supporting (aligned to +/- strand): ref base C (0/0); new base T (8/8); total (8/8) |
GGCGCTAAGCTGCTGAAATGTTCAGAGTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGCAACTATTATGTAAACATTTATTTGTTATTTTGCTTTCTCCTG > NC_000913/1211521‑1211756
|
ggCGCTAAGCTGCTGAAATGTTCAGAGTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGTATATCGa > 2:991765/1‑139 (MQ=255)
gcgcTAAGCTGCTGAAATGTTCAGAGTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGTATATCGAg > 2:574711/1‑139 (MQ=255)
cTAAGCTGCTGAAATGTTCAGAGTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGTATATCGAGCat > 1:512494/1‑139 (MQ=255)
gTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGTATATCGAGCATATTTATATGAAGCCCATTACtt < 1:170342/139‑1 (MQ=255)
atcatcGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGTATATCGAGCATATTTATATGAAGCCCa > 1:424642/1‑120 (MQ=255)
atcatcGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGTATATCGAGCATATTTATATGAAGCCCa < 2:424642/120‑1 (MQ=255)
atcatcGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGTATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATggg < 2:34814/139‑1 (MQ=255)
atcatcGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGTATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATggg > 2:87332/1‑139 (MQ=255)
aaTCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGTATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGc < 1:574711/139‑1 (MQ=255)
tctctcCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGTATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGCaa < 1:261522/139‑1 (MQ=255)
ctcCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGTATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGCAACta < 1:87332/139‑1 (MQ=255)
ttAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGTATATCGAg > 1:1019117/1‑71 (MQ=255)
ttAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGTATATCGAg < 2:1019117/71‑1 (MQ=255)
tGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGTATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGCAACTATTATGTAAACatttatt > 2:103661/1‑139 (MQ=255)
cGCCCGTTGTTTTATTTATGTGGATATTATTAATAGTATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGCAACTATTATGTAAACATTTATTTGTTATTTTGCTTTCTcc > 1:1099970/1‑139 (MQ=255)
cccGTTGTTTTATTTATGTGGATATTATTAATAGTATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGCAACTATTATGTAAACATTTATTTGTTATTTTGCTTTCTCCTg < 1:241583/139‑1 (MQ=255)
|
GGCGCTAAGCTGCTGAAATGTTCAGAGTTTGGTGAAGCGATCATCGAAAACATGTAATCTCTCCATGTGTTAAATATTGAAACGGGCGTATAACACGCCCGTTGTTTTATTTATGTGGATATTATTAATAGCATATCGAGCATATTTATATGAAGCCCATTACTTGAGCCCATATGGGCATATTTTTATAATGCAACTATTATGTAAACATTTATTTGTTATTTTGCTTTCTCCTG > NC_000913/1211521‑1211756
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 27 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG < 40 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
