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 I1 R1
|
690 |
31.8 |
1836723 |
97.1% |
1783458 |
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%
| 136.7
/ NA
| 39 | I472T (ATA→ACA) | gspE | Type II secretion system protein GspE |
| Reads supporting (aligned to +/- strand): ref base T (0/0); new base C (20/19); total (20/19) |
TGTGGATGAACAAGCACTGGAGCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGATAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACGCTGGAGAGCGAAGCATGAATTATCGCTA > NC_000913/3459676‑3459830
|
tgtgGATGAACAAGCACTGGAGCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAg > 1:594068/1‑81 (MQ=255)
tgGATGAACAAGCACTGGAGCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGc < 1:594034/80‑1 (MQ=255)
ggATGAACAAGCACTGGAGCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCgg > 2:594081/1‑81 (MQ=255)
gATGAACAAGCACTGGAGCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGt > 1:594090/1‑81 (MQ=255)
cAAGCACTGGAGCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACAcc > 1:594087/1‑81 (MQ=255)
aaGCACTGGAGCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACAcct > 2:594084/1‑81 (MQ=255)
aaGCACTGGAGCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACAcct > 2:594071/1‑81 (MQ=255)
aGCACTGGAGCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACAcctc > 2:594073/1‑81 (MQ=255)
gCACTGGAGCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACAcctcc < 1:594035/81‑1 (MQ=255)
gCACTGGAGCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACAcctcc > 1:594100/1‑81 (MQ=255)
aGCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGAt > 2:594092/1‑80 (MQ=255)
aGCGACTAGTCCGGCAACAACACAAAGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATg < 2:594035/81‑1 (MQ=255)
gCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGa < 1:594037/81‑1 (MQ=255)
cTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGtt < 1:594038/81‑1 (MQ=255)
aGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTAt > 2:594078/1‑81 (MQ=255)
ccGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATgcg > 1:594081/1‑81 (MQ=255)
cGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATgcgc > 1:594092/1‑81 (MQ=255)
cGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATgcgc > 1:594096/1‑81 (MQ=255)
ggCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGcgcg < 2:594038/81‑1 (MQ=255)
caacaaCACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTc < 1:594040/81‑1 (MQ=255)
aacaacACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCg > 2:594103/1‑81 (MQ=255)
caacaCAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGcc < 1:594041/81‑1 (MQ=255)
cacaAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGt > 2:594079/1‑81 (MQ=255)
aaGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGc > 2:594111/1‑80 (MQ=255)
aGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCa > 2:594093/1‑81 (MQ=255)
aGGCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCa < 2:594041/81‑1 (MQ=255)
gCCTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACg < 1:594043/81‑1 (MQ=255)
cTTAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACGCt < 1:594044/81‑1 (MQ=255)
tAATCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACGCTg > 2:594101/1‑80 (MQ=255)
aTCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACGCTGgag < 2:594044/81‑1 (MQ=255)
tCAAAAATGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACGCTGgaga < 1:594046/81‑1 (MQ=255)
aaaaTGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACGCTGGAGAGc > 2:594085/1‑80 (MQ=255)
aaaTGGCCTGCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACGCTGGAGAGCGa < 2:594046/81‑1 (MQ=255)
gCAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACGCTGGAGAGCGAAGCATGAAt > 1:594106/1‑81 (MQ=255)
cAAAAAGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACGCTGGAGAGCGAAGCATGAAtt < 2:594047/81‑1 (MQ=255)
aaaaGTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACGCTGGAGAGCGAAGCATGAATtat < 2:594048/81‑1 (MQ=255)
gTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACGCTGGAGAGCGAAGCATGAATtatcgct < 1:594050/81‑1 (MQ=255)
gTGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACGCTGGAGAGCGAAGCATGAATtatcgct < 1:594051/81‑1 (MQ=255)
tGACAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACGCTGGAGAGCGAAGCATGAATtatcgcta < 2:594051/81‑1 (MQ=255)
|
TGTGGATGAACAAGCACTGGAGCGACTAGTCCGGCAACAACACAAGGCCTTAATCAAAAATGGCCTGCAAAAAGTGATAAGCGGTGACACCTCCTGGGATGAGGTTATGCGCGTCGCCAGTGCCACGCTGGAGAGCGAAGCATGAATTATCGCTA > NC_000913/3459676‑3459830
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 34 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
