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 |
|
A54 F1 I1 R1
|
16 |
53.7 |
3449390 |
96.4% |
3325211 |
75.9 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
4,202,096 |
G→A |
P155L (CCG→CTG) |
iclR ← |
DNA‑binding transcriptional repressor |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 4,202,096 | 0 | G | A | 96.2%
| 85.6
/ ‑3.7
| 26 | P155L (CCG→CTG) | iclR | DNA‑binding transcriptional repressor |
| Reads supporting (aligned to +/- strand): ref base G (1/0); new base A (19/6); total (20/6) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 9.73e-01 |
GCAGCAGCTTCGTCACCTGTTCTTCGCTCAGTTGGGCTAAAAAGGCTTTACCTGCACCGGAAGCGTGCATCGGCAATTTACCGCCGATAGGCGCGGACATTCGCATCAGATGCGTACACTGTACCTGGTCGATAAT > REL606/4202025‑4202160
|
gcagcaGCTTCGTCACCTGTTCTTCGCTCAGTTGGGCTAAAAAGGCTTTACCTGCACCGGAAGCGTGCATCAGCaa < 1:382956/76‑1 (MQ=255)
gcagcaGCTTCGTCACCTGTTCTTCGCTCAGTTGGGCTAAAAAGGCTTTACCTGCACCGGAAGCGTGCATCAGCaa < 2:339963/76‑1 (MQ=255)
cagcagCTTCGTCACCTGTTCTTCGCTCAGTTGGGCTAAAAAGGCTTTACCTGCACCGGAAGCGTGCATCAGCAAt > 1:213174/1‑76 (MQ=255)
cagcagCTTCGTCACCTGTTCTTCGCTCAGTTGGGCTAAAAAGGCTTTACCTGCACCGGAAGCGTGCATCAGCAAt > 2:385857/1‑76 (MQ=255)
cagcTTCGTCACCTGTTCTTCGCTCAGTTGGGCTAAAAAGGCTTTACCTGCACCGGAAGCGTGCATCAGCAATTTa < 2:560507/76‑1 (MQ=255)
cACCTGTTCTTCGCTCAGTTGGGCTAAAAAGGCTTTACCTGCACCGGAAGCGTGCATCAGCAATTTACCGCCGATa > 1:253438/1‑76 (MQ=255)
aCCTGTTCTTCGCTCAGTTGGGCTAAAAAGGCTTTACCTGCACCGGAAGCGTGCATCAGCAATTTACCGCCGATAg > 1:117514/1‑76 (MQ=255)
ccTGTTCTTCGCTCAGTTGGGCTAAAAAGGCTTTACCTGCACCGGAAGCGTGCATCAGCAATTTACCGCCGCTAgg > 2:707860/1‑76 (MQ=255)
ccTGTTCTTCGCTCAGGTGGGCTAAAAAGGCTTTACCTGCACCGGAAGCGGGCATCAGCAATTTACCGCCGATAgg < 2:1122427/76‑1 (MQ=255)
gTTCTTCGCTCAGTTGGGCTAAAAAGGCTTTACCTGCACCGGAAGCGTGCATCAGCAATTTACCGCCGATAGgcgc > 1:689626/1‑76 (MQ=255)
gTTCTTCGCTCAGTTGGGCTAAAAAGGCTTTACCTGCACCGGAAGCGTGCATCAGCAATTTACCGCCGATAGgcgc > 2:624454/1‑76 (MQ=255)
tcttcGCTCAGTTGGGCTAAAAAGGCTTTACCTGCACCGGAAGCGGGCATCAGCAATTTACCGCCGATAGGCGCgg < 2:1200811/76‑1 (MQ=255)
cttcGCTCAGTTGGGCTAAAAAGGCTTTACCTGCACCGGAAGCGTGCATCAGCAATTTACCGCCGATAGGCGCGGa > 1:1539404/1‑76 (MQ=255)
tcGCTCAGTTGGGCTAAAAAGGCTTTACCTGCACCGGAAGCGTGCATCAGCAATTTACCGCCGATAGGCGCGGACa > 2:907534/1‑76 (MQ=255)
gtggggCAAAAAAGGCTTTCCCTGCACCGGAAGCGTGCATCAGCAATTTACCGCCGATAGGCGCGGACATTCGCAt < 2:563653/73‑1 (MQ=255)
ggCTAAAAAGGCTTTACCTGCACCGGAAGCGTGCATCAGCAATTTACCGCCGATAGGCGCGGACATTCGCATCAGa > 2:883901/1‑76 (MQ=255)
tAAAAAGGCTTTACCTGCACCGGAAGCGTGCATCAGCAATTTACCGCCGATAGGCGCGGACATTCGCATCAGATGc > 2:1426075/1‑76 (MQ=255)
aaaGGCTTTACCTGCACCGGAAGCGTGCATCAGCAATTTACCGCCGATAGGCGCGGACATTCGCATCAGATGCGTa > 2:591519/1‑76 (MQ=255)
aaGGCTTTACCTGCACCGGAAGCGTGCATCAGCAATTTACCGCCGATAGGCGCGGACATTCGCATCAGATGCGTac > 1:459984/1‑76 (MQ=255)
gCTTTACCTGCACCGGAAGCGTGCATCAGCAATTTACCGCCGATAGGCGCGGACATTCGCATCAGATGCGTACACt > 2:1374831/1‑76 (MQ=255)
tttACCTGCACCGGAAGCGTGCATCAGCAATTTACCGCCGATAGGCGCGGACATTCGCATCAGATGCGTACACTGt > 2:727235/1‑76 (MQ=255)
tGCACCGGAAGCGTGCATCGGCAATTTACCGCCGATAGGCGCGGACAATCGCATCAGATGCCGCCACCGCACCTgg > 2:149674/1‑76 (MQ=255)
cgCACCGGAAGCGTGCATCAGCAATTTACCGCCGATAGGCGCGGACATTCGCATCAGATGCGTACACTGTACCTgg < 2:117514/75‑1 (MQ=255)
gCACCGGAAGCGTGCATCAGCAATTTACCGCCGATAGGCGCGGACATTCGCATCAGATGCGTACACTGTACCTGGt > 2:618795/1‑76 (MQ=255)
gCACCGGAAGCGTGCATCAGCAATTTAACGCCGATAGGCGCGGACATTCGCATCAGATGCGTACCCTGTACCTGGt > 2:405548/1‑76 (MQ=255)
cGGAAGCGTGCATCAGCAATTTCCCGCCGATAGGCGCGGACATTCGCATCAGATGCGTACACTGTACCTGGTCGat < 2:689625/76‑1 (MQ=255)
aaGCGTGCATCAGCAATTTACCGCCGATAGGCGCGGACATTCGCATCAGATGCGTACACTGTACCTGGTCGataat > 2:1065523/1‑76 (MQ=255)
aaGCGTGCATCAGCAATTTACCGCCGATAGGCGCGGACATTCGCATCAGATGCGTACACTGTACCTAGTCGataaa > 2:890098/1‑75 (MQ=255)
|
GCAGCAGCTTCGTCACCTGTTCTTCGCTCAGTTGGGCTAAAAAGGCTTTACCTGCACCGGAAGCGTGCATCGGCAATTTACCGCCGATAGGCGCGGACATTCGCATCAGATGCGTACACTGTACCTGGTCGATAAT > REL606/4202025‑4202160
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 20 ≤ ATCG/ATCG < 28 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
