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 |
3,459,753 |
T→C |
I472T (ATA→ACA) |
gspE → |
Type II secretion system protein GspE |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | NC_000913 | 3,459,753 | 0 | T | C | 100.0%
| 170.5
/ NA
| 49 | I472T (ATA→ACA) | gspE | Type II secretion system protein GspE |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (21/28); total (21/28) |
ATGTGGATGAACAAGCACTGGAGCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGATAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACGCTGGAGAGCGAAGCATGAATTATCGCTA > NC_000913/3459675‑3459830
|
aTGTGGATGAACAAGCACTGGAGCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACaa < 1:658843/81‑1 (MQ=255)
aTGTGGATGAACAAGCACTGGAGCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACaa < 2:658844/81‑1 (MQ=255)
tgGATGAACAAGCACTGGAGCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGc < 1:658845/80‑1 (MQ=255)
tgGATGAACAAGCACTGGAGCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCg < 1:658846/81‑1 (MQ=255)
gATGAACAAGCACTGGAGCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCgg < 2:658847/80‑1 (MQ=255)
aTGAACAAGCACTGGAGCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTg < 2:658848/81‑1 (MQ=255)
aaCAAGCACTGGAGCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGaca > 2:658891/1‑81 (MQ=255)
aaGCACTGGAGCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACAcct < 1:658849/81‑1 (MQ=255)
aaGCACTGGAGCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACAcct < 1:658850/81‑1 (MQ=255)
aGCACTGGAGCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACAcctc > 2:658915/1‑81 (MQ=255)
gCACTGGAGCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACAcctcc > 2:658903/1‑81 (MQ=255)
cTGGAGCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTgg < 2:658851/81‑1 (MQ=255)
ggAGCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGa > 2:658902/1‑81 (MQ=255)
ggAGCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGa > 2:658913/1‑81 (MQ=255)
gAGCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTggg < 2:658853/79‑1 (MQ=255)
gAGCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTggg < 2:658852/79‑1 (MQ=255)
gCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGAt > 1:658906/1‑79 (MQ=255)
gACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAgg > 1:658886/1‑81 (MQ=255)
gACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAgg > 1:658899/1‑81 (MQ=255)
cTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGtt < 2:658854/81‑1 (MQ=255)
tAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTa > 1:658921/1‑81 (MQ=255)
gTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATg > 1:658919/1‑81 (MQ=255)
tCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATgc < 1:658855/81‑1 (MQ=255)
cGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATgcgc < 2:658856/81‑1 (MQ=255)
caacaaCACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTc > 2:658918/1‑81 (MQ=255)
caacaaCACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTc > 2:658898/1‑81 (MQ=255)
aacaacACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCg > 1:658917/1‑81 (MQ=255)
caacaCAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGcc < 2:658857/81‑1 (MQ=255)
aacaCAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCa < 1:658858/81‑1 (MQ=255)
cacaAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGt > 2:658923/1‑81 (MQ=255)
aGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCa < 2:658859/81‑1 (MQ=255)
ggCCTTAATCAAAAATGGCCTGCAAAAAGTGGCAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCAc < 1:658860/81‑1 (MQ=255)
gCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACg < 2:658861/81‑1 (MQ=255)
ccTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACGc < 1:658862/81‑1 (MQ=255)
tAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACGCTg > 1:658929/1‑80 (MQ=255)
aaTCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACGCTg > 2:658911/1‑79 (MQ=255)
aaaaaTGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACGCTGGagag < 1:658863/80‑1 (MQ=255)
aaTGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACGCTGGAGAGCGaa < 1:658864/81‑1 (MQ=255)
ggCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACGCTGGAGAGCGAAGCa > 1:658910/1‑81 (MQ=255)
cAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACGCTGGAGAGCGAAGCATGAAtt < 2:658865/81‑1 (MQ=255)
cAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACGCTGGAGAGCGAAGCATGAAt > 2:658905/1‑80 (MQ=255)
aaaaaGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACGCTGGAGAGCGAAGCATGAATta < 1:658866/81‑1 (MQ=255)
aaaaaGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACGCTGGAGAGCGAAGCATGAATta > 2:658925/1‑81 (MQ=255)
aaaGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACGCTGGAGAGCGAAGCATGAATtatc > 2:658887/1‑81 (MQ=255)
aaaGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACGCTGGAGAGCGAAGCATGAATtatc < 2:658867/81‑1 (MQ=255)
aGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACGCTGGAGAGCGAAGCATGAATtatcgc < 2:658868/81‑1 (MQ=255)
gTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACGCTGGAGAGCGAAGCATGAATtatcgct < 2:658869/81‑1 (MQ=255)
gTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACGCTGGAGAGCGAAGCATGAATtatcgc > 2:658916/1‑80 (MQ=255)
tGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACGCTGGAGAGCGAAGCATGAATtatcgcta < 1:658870/81‑1 (MQ=255)
|
ATGTGGATGAACAAGCACTGGAGCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGATAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACGCTGGAGAGCGAAGCATGAATTATCGCTA > NC_000913/3459675‑3459830
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 35 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
