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 F169 I0 R1
|
75 |
34.0 |
794130 |
95.7% |
759982 |
140.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
freq |
annotation |
gene |
description |
| RA |
USA300TCH1516_ALE |
1,624,673 |
T→A |
100% |
K192I (AAA→ATA) |
malL ← |
Oligo‑1,6‑glucosidase |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | USA300TCH1516_ALE | 1,624,673 | 0 | T | A | 100.0%
| 73.6
/ ‑6.5
| 26 | K192I (AAA→ATA) | malL | Oligo‑1,6‑glucosidase |
| Reads supporting (aligned to +/- strand): ref base T (0/0); major base A (12/13); minor base G (1/0); total (13/13) |
| Rejected as polymorphism: E-value score below prediction cutoff. |
| Rejected as polymorphism: Frequency below/above cutoff threshold. |
| Rejected as polymorphism: Variant not supported by required number of reads on each strand. |
TTTGTATACCTGGCTGATTCATATCTACATCAAATGCTGGGGCATATGTTTTACCCTCAGGTACAGGTAAGTCACCCGCTTCAAACGTCTTCTTAATATGCGTAATTGCATCTACTCTAAATCCATCAATGCCTTTATCAAACCACCAGTTCATCATTTCAAATACAGCATCTCTAACTTCCGGATTACCCCAATTCAAATCAGGTTGTTTTTTACTGAATAAATGGAAATAATATTGCTCAGTATTAGCATCATATTCCCATGTAGATCC > USA300TCH1516_ALE/1624539‑1624809
|
tttGTATACCTGGCCGATTCATATCTACATCAAATGCTGGGGCATATGTTTTACCCTCAGGTACAGGTAAGTCACCCGCTTCAAACGTCTTCTTAATATGCGTAATTGCATCTACTCTAAATCCATCAATGCCTATATCaa > 2:394738/1‑141 (MQ=255)
tGTATACCTGGCTGATTCATATCTACATCAAATGCTGGGGCATATGTTTTACCCTCAGGTACAGGTAAGTCACCCGCTTCAAACGTCTTATTAATATGCGTAATTGCATCTACTCTAAATCCATCAATGCCTATATCAAac > 1:247508/1‑141 (MQ=255)
tataCCTGGCTGATTCATATCTACATCAAATGCTGGGGCATATGTTTTACCCTCAGGTACAGGTAAGTCACCCGCTTCAAACGTCTTCTTAATATGCGTAATTGCGTCTACTCTAAATCCATCAATGCCTATATCAAaccc > 1:304006/1‑140 (MQ=255)
tataCCTGGCTGATTCATATCTACATCAAATGCTGGGGCATATGTTTTACCCTCAGGTACAGGTAAGTCACCCGCTTCAAACGTCTTCTTAATATGCGTAATTGCATCTACTCTAAATCCATCAATGCCTATATCAAacca < 1:264291/141‑1 (MQ=255)
ataCCTGGCTGATTCATATCTACATCAAATGCTGGGGCATATGTTTTTCCCTCAGGTACAGGTAAGTCACCCGCTTCAAACGTCTTCTTAATATGCGTAATTGCATCTACTCTAAATCCATCATTGCCTGTATCAAaccac > 2:255761/1‑141 (MQ=255)
cTGATTCATATCTACATCAAATGCTGGGGCATATGTTTTACCCTCAGGTACAGGTAAGTCACCCGCTTCAAACGTCTTCTTAATATGCGTAATTGCATCTACTCTAAATCCATCAATGCCTATATCAAACCACCAGTtcat > 2:297363/1‑141 (MQ=255)
aTTCATATCTACATCAAATGCTGGGGCATATGTTTTACCCTCAGGTACAGGTAAGTCACCCGCTTCAAACGTCTTCTTAATATGCGTAATTGCATCTACTCTAAATCCATCAATGCCTATATCAAACCACCAGTTcatcat > 1:79106/1‑141 (MQ=255)
tCTACATCAAATGCTGGGGCATATGTTTTACCCTCAGGTACAGGTAAGTCACCCGCTTCAAACGTCTTCTTAATATGCGTAATTGCATCTACTCTAAATCCATCAATGCCTATATCAAACCACCAGTTCATCATTTCAAAt < 1:161773/141‑1 (MQ=255)
aaaTGCTGGGGCATATGTTTTACCCTCAGGTACAGGTAAGTCACCCGCTTCAAACGTCTTCTTAATATGCGTAATTGCATCTACTCTAAATCCATCAATTCCTATATCAAACCACCAGTTCATCATTTCAAATACAGAAtc > 1:30468/1‑141 (MQ=255)
tGTTTTACCCTCAGGTACAGGTAAGTCACCCGCTTCAAACGTCTTCTTAATATGCGTAATTGCATCTACTCTAAATCCATCAATGCCTATATCAAACCACCAATTGATCATTTCAAATACAGCATCTCTAACTTCCGGAtt > 1:169967/1‑141 (MQ=255)
cccTCAGGTACAGGTAAGTCACCCGCTTCAAACGTCTTCTTAATATGCGTAATTGCATCTACTCTAAATCCATCAATGCCTATATCAAACCACCAGTTCATCATTTCAAATACAGCATCTCTAACTTCCGGATTACCCCaa > 2:293135/1‑141 (MQ=255)
ggtaAGTTACCCGCTTCAAACGTCTTCTTAATATGCGTAATTGCATCTACTCTAAATCCATCAATGCCTATATCAAACCACCAGTTCATCTTTGCAAATACAGCATCTCTAACTTCCGGATTACCCCAATTCAAATCAGgt < 1:352090/141‑1 (MQ=255)
taAGTCACCCGCTTCAAACGTCTTCTTAATATGCGTAATTGCATCTACTCTAAATCCATCAATGCCTATATCAAACCACCAGTTCATCATTTCAAATACAGCATCTCTAACTTCCGGATTACCCCAATTCAAATCAGgttg < 1:183672/141‑1 (MQ=255)
taAGTCACCCGCTTCAAACGTCTTCTTAATATGCGTAATTGCATCTACTCTAAAGCCATCAATGCCTATATCAAACCACCAGTTCATCATTTCAAATACAGCATCTCTAACTTCCGGATTACCCCAATTCAAATCAGgttg < 1:20705/141‑1 (MQ=255)
ccGCTTCAAACGTCTTCTTAATATGCGTAATTGCATCTACTCTAAATCCATCAATGCCTATATCAAACCACCAGTTCATCATTTCAAATACAGCATCTCTAACTTCCGGATTACCCCAATTCAAATCAGGTTGTTTTTTAc < 1:394738/141‑1 (MQ=255)
ttCAAACGTCTTCTTAATATGCGTAATTGCATCTACTCTAAATCCATCAATGCCTATATCAAACCACCAGTTCATCATTTCAAATACAGCATCTCTAACTTCCGGATTACCCCAATTCAAATCAGGTTGTTTTTTACTGaa < 1:233758/141‑1 (MQ=255)
ctCAAACGTCTTCTTAATATGCGTAATTGCATCTACTCTAAATCCATCAATGCCTATATCAAACCACCAGTTCATCATTTCAAATACAGCATCTCTAACTTCCGGATTACCCCAATTCAAATCAGGTTGTTTTTTACTGaa < 1:314418/140‑1 (MQ=255)
aaCGTCTTCTTAATATGCGTAATTGCATCTACTCTAAATCCATCAATGCCTATATCAAACCACCAGTTCATCATTTCAAATACAGCATCTCTAACTTCCGGATTACCCCAATTCAAATCAGGTTGTTTTTTACTGAATaca > 2:228148/1‑139 (MQ=255)
tcttctTAATATGCGTAATTGCATCTACTCTAAATCCATCAATGCCTATATCAAACCACCAGTTCATCATTTCAAATACAGCATCTCTAACTTCCGGATTACCCCAATTCAAATCAGGTTGTTTTTTACTGAATAAATGGa < 1:298486/141‑1 (MQ=255)
tcttctTAATATGCGTAATTGCATCTACTCTAAATCCATCAATGCCTATATCAAACCACCAGTTCATCATTTCAAATACAGCATCTCTAACTTCCGGATTACCCCAATTCAAATCAGGTTGTTTTTTACTGAATAAATGGa < 1:298480/141‑1 (MQ=255)
tAATATGCGTAATTGCATCTACTCTAAATCCATCAATGCCTATATCAAACCACCAGTTCATCATTTCAAATACAGCATCTCTAACTTCCGGATTACCCCAATTCAAATCAGGTTGTTTTTTACTGAATAAATGGAaataat < 1:297363/141‑1 (MQ=255)
tAATTGCATCTACTCTAAATCCATCACTGCCTATATCAAACCACCAGTTCATCATTTCAAATACAGCATCTCTAACTTCCGGATTACCCCAATTCAAATCAGGTTGTTTTTTACTGAATAAATGGAAATAATATTGCTCAg < 1:45521/141‑1 (MQ=255)
ttGCATCTACTCTAAATCCATCAATGCCTATATCAAACCACCAGTTCATCATTTCAAATACAGCATCTCTAACTTCCGGATTACCCCAATTCAAATCAGGTTGTTTTTTACTGAATAAATGGAAATAATATTGCCCAGTaa > 2:97374/1‑140 (MQ=255)
ctAAATCCATCAATGCCTATATCAAACCACCAGTTCATCATTTCAAATACAGCATCTCTAACTTCCGGATTACCCCAATTCAAATCAGGTTGTTTTTTACTGAATAAATGGAAATAATATTGCTCAGTATTAGCATCatat > 1:103732/1‑141 (MQ=255)
aTCACTGCCTATCTCACTCCCCCAGTTCCTCCTTTCACGTACTGAATTTCTTACTTACAAATTGGATCTAGTCAATTCATGTTGTTTTTTTCTGAATTAATGTAAATGATATTGCTCAGTATTAGCATCATATTCCCATGt < 2:229666/141‑1 (MQ=255)
gCCTATATCAAACCACCAGTTCATCATTTCAAATACAGCATCTCTAACTTCCGGATTACCCCAATTCAAATCAGGTTGTTTTTTACTGAATAAATGGAAATAATATTGCTCAGTATTAGCATCATATTCCCATGTAGATcc > 2:303412/1‑141 (MQ=255)
|
TTTGTATACCTGGCTGATTCATATCTACATCAAATGCTGGGGCATATGTTTTACCCTCAGGTACAGGTAAGTCACCCGCTTCAAACGTCTTCTTAATATGCGTAATTGCATCTACTCTAAATCCATCAATGCCTTTATCAAACCACCAGTTCATCATTTCAAATACAGCATCTCTAACTTCCGGATTACCCCAATTCAAATCAGGTTGTTTTTTACTGAATAAATGGAAATAATATTGCTCAGTATTAGCATCATATTCCCATGTAGATCC > USA300TCH1516_ALE/1624539‑1624809
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 12 ≤ ATCG/ATCG < 22 ≤ ATCG/ATCG < 37 ≤ ATCG/ATCG < 41 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
