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
|
730 |
35.1 |
2107516 |
91.4% |
1926269 |
80.6 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
NC_000913 |
3,457,239 |
T→A |
V288D (GTT→GAT) |
gspD → |
Type II secretion system protein GspD |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,457,239 | 0 | T | A | 100.0%
| 106.0
/ NA
| 30 | V288D (GTT→GAT) | gspD | Type II secretion system protein GspD |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base A (13/17); total (13/17) |
AGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGAAATATGCTAAAGCCACGAATCTGGTGGAAGTGCTAACCGGTGTTTCCGAAAAGCTGAAAGATGAAAAAGGGAATGCGCGTAAGCCCTCCTCTTCTGGCGCGATGGATAACGTCGCCATT > NC_000913/3457161‑3457315
|
agagCGAGGAAGGAAATACCCGGGTTTATTACCTGAAATATGCTAAAGCCACGAATCTGGTGGAAGTGCTAACCGGTGatt > 2:658268/1‑81 (MQ=255)
gAGGAAGGAAATACCCGGGTTTATTACCTGAAATATGCTAAAGCCACGAATCTGGTGGAAGTGCTAACCGGTGATTCCGa > 2:658271/1‑80 (MQ=255)
aggaaggaAATACCCGGGTTTATTACCTGAAATATGCTAAAGCCACGAATCTGGTGGAAGTGCTAACCGGTGATTCCGaaa < 1:658228/81‑1 (MQ=255)
aggaaggaAATACCCGGGTTTATTACCTGAAATATGCTAAAGCCACGAATCTGGTGGAAGTGCTAACCGGTGATTCCGaa > 1:658279/1‑80 (MQ=255)
ggaaggaaATACCCGGGTTTATTACCTGAAATATGCTAAAGCCACGAATCTGGTGGAAGTGCTAACCGGTGATTCCGaaaa < 2:658229/81‑1 (MQ=255)
ggaaggaaATACCCGGGTTTATTACCTGAAATATGCTAAAGCCACGAATCTGGTGGAAGTGCTAACCGGTGATTCCGaa > 2:658273/1‑79 (MQ=255)
gaaggaaATACCCGGGTTTATTACCTGAAATATGCTAAAGCCACGAATCTGGTGGAAGTGCTAACCGGTGATTCCGAAAAg > 1:658262/1‑81 (MQ=255)
aggaaATACCCGGGTTTATTACCTGAAATATGCTAAAGCCACGAATCTGGTGGAAGTGCTAACCGGTGATTCCGAAAAGCt < 1:658230/81‑1 (MQ=255)
ggaaATACCCGGGTTTATTACCTGAAATATGCTAAAGCCACGAATCTGGTGGAAGTGCTAACCGGTGATTCCGAAAAGCt > 1:658263/1‑80 (MQ=255)
gaaATACCCGGGTTTATTACCTGAAATATGCTAAAGCCACGAATCTGGTGGAAGTGCTAACCGGTGATTCCGAAAAGCTg > 2:658277/1‑80 (MQ=255)
gaaATACCCGGGTTTATTACCTGAAATATGCTAAAGCCACGAATCTGGTGGAAGTGCTAACCGGTGATTCCGAAAAGCTg > 1:658281/1‑80 (MQ=255)
cGGGTTTATTACCTGAAATATGCTAAAGCCACGAATCTGGTGGAAGTGCTAACCGGTGATTCCGAAAAGCTGAAAGATGaa < 1:658231/81‑1 (MQ=255)
tattaCCTGAAATATGCTAAAGCCACGAATCTGGTGGAAGTGCTAACCGGTGATTCCGAAAAGCTGAAAGATGAAAAAgg > 2:658284/1‑80 (MQ=255)
attaCCTGAAATATGCTAAAGCCACGAATCTGGTGGAAGTGCTAACCGGTGATTCCGAAAAGCTGAAAGATGAAAAAggg < 2:658232/80‑1 (MQ=255)
ccTGAAATATGCTAAAGCCACGAATCTGGTGGAAGTGCTAACCGGTGATTCCGAAAAGCTGAAAGATGAAAAAGGGAATgc > 2:658272/1‑81 (MQ=255)
gAAATATGCTAAAGCCACGAATCTGGTGGAAGTGCTAACCGGTGATTCCGAAAAGCTGAAAGATGAAAAAGGGAATGcgcg > 1:658278/1‑81 (MQ=255)
aaaTATGCTAAAGCCACGAATCTGGTGGAAGTGCTAACCGGTGATTCCGAAAAGCTGAAAGATGAAAAAGGGAATgcgc < 2:658234/79‑1 (MQ=255)
aaaTATGCTAAAGCCACGAATCTGGTGGAAGTGCTAACCGGTGATTCCGAAAAGCTGAAAGATGAAAAAGGGAATGCGCGt < 2:658233/81‑1 (MQ=255)
aaaTATGCTAAAGCCACGAATCTGGTGGAAGTGCTAACCGGTGATTCCGAAAAGCTGAAAGATGAAAAAGGGAATGCGCGt < 1:658235/81‑1 (MQ=255)
tGCTAAAGCCACGAATCTGGTGGAAGTGCTAACCGGTGATTCCGAAAAGCTGAAAGATGAAAAAGGGAATGCGCGTAAGcc < 2:658236/81‑1 (MQ=255)
aaaGCCACGAATCTGGTGGAAGTGCTAACCGGTGATTCCGAAAAGCTGAAAGATGAAAAAGGGAATGCGCGTAAGCcctcc > 1:658286/1‑81 (MQ=255)
cACGAATCTGGTGGAAGTGCTAACCGGTGATTCCGAAAAGCTGAAAGATGAAAAAGGGAATGCGCGTAAGCCCTCCtcttc > 2:658237/1‑81 (MQ=255)
aCGAATCTGGTGGAAGTGCTAACCGGTGATTCCGAAAAGCTGAAAGATGAAAAAGGGAATGCGCGTAAGCCCTCCtcttct < 1:658238/81‑1 (MQ=255)
gtggAAGTGCTAACCGGTGATTCCGAAAAGCTGAAAGATGAAAAAGGGAATGCGCGTAAGCCCTCCTCTTCTGGCGCGa < 2:658239/79‑1 (MQ=255)
gtggAAGTGCTAACCGGTGATTCCGAAAAGCTGAAAGATGAAAAAGGGAATGCGCGTAAGCCCTCCTCTTCTGGCGCGATg < 1:658240/81‑1 (MQ=255)
tggAAGTGCTAACCGGTGATTCCGAAAAGCTGAAAGATGAAAAAGGGAATGCGCGTAAGCCCTCCTCTTCTGGCGCGATgg < 1:658241/81‑1 (MQ=255)
cTAACCGGTGATTCCGAAAAGCTGAAAGATGAAAAAGGGAATGCGCGTAAGCCCTCCTCTTCTGGCGCGATGGATAACGTc < 2:658242/81‑1 (MQ=255)
aaCCGGTGATTCCGAAAAGCTGAAAGATGAAAAAGGGAATGCGCGTAAGCCCTCCTCTTCTGGCGCGATGGATAACGTCGc > 2:658291/1‑81 (MQ=255)
aCCGGTGATTCCGAAAAGCTGAAAGATGAAAAAGGGAATGCGCGTAAGCCCTCCTCTTCTGGCGCGATGGATAACGTCGcc < 1:658243/81‑1 (MQ=255)
ggTGATTCCGAAAAGCTGAAAGATGAAAAAGGGAATGCGCGTAAGCCCTCCTCTTCTGGCGCGATGGATAACGTCGCCAtt < 2:658245/81‑1 (MQ=255)
ggTGATTCCGAAAAGCTGAAAGATGAAAAAGGGAATGCGCGTAAGCCCTCCTCTTCTGGCGCGATGGATAACGTCGCCAtt < 2:658244/81‑1 (MQ=255)
|
AGAGCGAGGAAGGAAATACCCGGGTTTATTACCTGAAATATGCTAAAGCCACGAATCTGGTGGAAGTGCTAACCGGTGTTTCCGAAAAGCTGAAAGATGAAAAAGGGAATGCGCGTAAGCCCTCCTCTTCTGGCGCGATGGATAACGTCGCCATT > NC_000913/3457161‑3457315
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
