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 |
|
A26 F1 I1 R1
|
14 |
45.0 |
2861610 |
96.8% |
2770038 |
76.0 |
Breseq alignment
BRESEQ :: Evidence
|
| evidence |
seq id |
position |
mutation |
annotation |
gene |
description |
| RA |
REL606 |
3,465,075 |
G→A |
S65L (TCG→TTG) |
ompR ← |
osmolarity response regulator |
|
| |
seq id |
position |
ref |
new |
freq |
score (cons/poly) |
reads |
annotation |
genes |
product |
| * | REL606 | 3,465,075 | 0 | G | A | 97.9%
| 175.0
/ NA
| 47 | S65L (TCG→TTG) | ompR | osmolarity response regulator |
| Reads supporting (aligned to +/- strand): ref base G (0/0); major base A (27/19); minor base T (1/0); total (28/19) |
| Fisher's exact test for biased strand distribution p-value = 1.00e+00 |
| Kolmogorov-Smirnov test that lower quality scores support variant p-value = 1.00e+00 |
ACTTCTTCCCCTTTCGCCGTCACCATAATGATCGGCATCGGGTTGCTCTGACTACGAAGACGTCGGCAAATCGACAAGCCATCTTCACCAGGTAACATTAAATCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGA > REL606/3465003‑3465146
|
aCTTCTTCCCCTTTCGCCGTCACCATAATGATCGGCATCGGGTTGCTCTGACTACGAAGACGTCGGCAAATCAACa < 1:1150351/76‑1 (MQ=255)
cttcttCCCCTTTCGCCGTCACCATAATGATCGGCATCGGGTTGCTCTGACTACGAAGACGTCGGCAAATcaacaa > 2:845334/1‑76 (MQ=255)
cttcttCCCCTTTCGCCGTCACCATAATGATCGGCATCGGGTTGCTCTGACTACGAAGACGTCGGCAAATcaacaa < 1:804126/76‑1 (MQ=255)
cttcttCCCCTTTCGCCGTCACCATAATGATCGGCATCGGGTTGCTCTGACTACGAAGACGTCGGCAAATcaacaa < 1:622284/76‑1 (MQ=255)
ttcttcCCCTTTCGCCGTCACCATAATGATCGGCATCGGGTTGCTCTGACTACGAAGACGTCGGCAAATCAACAAg > 2:569720/1‑76 (MQ=255)
cttcCCCTTTCGCCGTCACCATAATGATCGGCATCGGGTTGCTCTGACTACGAAGACGTCGGCAAATCAACAAGcc > 1:913959/1‑76 (MQ=255)
cttcCCCTTTCGCCGTCACCATAATGATCGGCATCGGGTTGCTCTGACTACGAAGACGTCGGCAAATCAACAAGcc > 2:1105900/1‑76 (MQ=255)
cccTTTCGCCGTCACCATAATGATCGGCATCGGGTTGCTCTGACTACGAAGACGTCGGCAAATCAACAAGCCATCt < 1:814456/76‑1 (MQ=255)
cccTTTCGCCGTCACCATAATGATCGGCATCGGGTTGCTCTGACTACGAAGACGTCGGCAAATCAACAAGCCATCt < 1:964483/76‑1 (MQ=255)
cTTTCGCCGTCACCATAATGATCGGCATCGGGTTGCTCTGACTACGAAGACGTCGGCAAATCAACAAGCCATCTTc > 2:735932/1‑76 (MQ=255)
ttgcGCCGTCACCATAATGATCGGCATCGGGTTGCTCTGACTACGAAGACGTCGGCAAATCAACAAGCCATCTTCa < 1:108807/73‑1 (MQ=255)
tCGCCGTCNCCATAATGATCGGCATCGGGTTGCTCTGACCACGAAGACGTCGGCAAATCAACAAGCCATCTTCAcc < 1:1249692/76‑1 (MQ=255)
tCGCCGTCACCATAATGATCGGCATCGGGTTGCTCTGACTACGAAGACGTCGGCAAATCAACAAGCCATCTTCAcc < 1:199975/76‑1 (MQ=255)
cGCCGTCACCATAATGATCGGCATCGGGTTGCTCTGACTACGAAGACGTCGGCAAATCAACAAGCTATCTTCACCa < 1:1318105/76‑1 (MQ=255)
gCCGTCACCATAATGATCGGCATCGGGTTGCTCTGACTACGAAGACGTCGGCAAATCAACAAGCCATCTTCACCAg < 1:367810/76‑1 (MQ=255)
gTCACCATAATGATCGGCATCGGGTTGCTTTGACTATGAAGACGTCGGCAAATCAACNAGCCATCTTCACCAGGTa < 1:1354247/76‑1 (MQ=255)
tCACCATAATGATCGGCATNGGGTTGCTCTGACTACGAAGACGTCGGCAAATCAACAAGCCATCTTCACCAGGTaa > 1:1335837/1‑76 (MQ=255)
ccATAATGATCGGCATCGGGTTGNTCTGANTACGAAGACGTCGGNAATTCATCAAGCCATCTTCACCAGGTAACAt > 2:183831/1‑76 (MQ=255)
aTAATGATCGGCATCGGGTTGCTCTGACTACGAAGACGTCGGCAAATCAACAAGCCATCTTCACCAGGTAACATTa > 2:154155/1‑76 (MQ=255)
aTAATGATCGGCATCGGGTTGCTCTGACTACGAAGACGTCGGCAAATCAACAAGCCATCTTCACCAGGTAACATTa < 1:687112/76‑1 (MQ=255)
tAATGATCGGCATCGGGTTGCTCTGACTACGAAGACGTCGGCAAATCAACAAGCCATCTTCACCAGGTAACATTaa > 2:502895/1‑76 (MQ=255)
gATCGGCATCGGGTTGCTCTGACTACGAAGCCGTCGGCAAATCAACAAGCCATCTTCACCAGGTAACATTAAATcc > 2:271189/1‑76 (MQ=255)
gtCGGCATCGGGTTGCTCTGACTACGAAGACGTCGGCAAATCAACAAGCCATCTTCACCAGGTAACATTAAATCCa < 2:96224/75‑1 (MQ=255)
tCGGCATCGGGTTGCTCTGACTACGAAGACGTCGGCAAATCAACAAGCCATCTTCACCAGGTAACATTAAATCCAg < 2:627837/76‑1 (MQ=255)
tCGGCATCGGGTTGCTCTGACTACGAAGACGTCGGCAAATCAACAAGCCATCTTCACCAGGTAACATTAAATCCAg > 2:159706/1‑76 (MQ=255)
cGGCATCGGGTTGCTCTGACTACGAAGACGTCGGCAAATCAACAAGCCATCTTCACCAGGTAACATTAAATCCAGt < 2:1042022/76‑1 (MQ=255)
gCATCGGGTTGCTCTGACTACGAAGACGTCGGCAAATCAACAAGCCATCTTCACCAGGTAACATTAAATCCAGTAc < 1:987725/76‑1 (MQ=255)
gCATCGGGTTGCTCTGACTACGAAGACGTCGGCAAATCAACAAGCCATCTTCACCAGGTAACATTAAATCCAGTAc < 1:374026/76‑1 (MQ=255)
aTCGGGTTGCTCTGACTACGAAGACGTCGGCAAATCAACAAGCCATCTTCACCAGGTAACATTAAATCCAGTACCa < 1:1191297/76‑1 (MQ=255)
tCGGGTTGCTCTGACTACGAAGACGTCGGCAAATCAACAAGCCATCTTCACCAGGTAACATTAAATCCAGTACCAt > 1:701109/1‑76 (MQ=255)
cGGGTTGCTCTGACTACGAAGACGTCGGCAAATCAACAAGCCATCTTCACCAGGTAACATTAAATCCAGTACCATa > 2:773191/1‑76 (MQ=255)
ggTTGCTCTGACTACGAAGACGTCGGCAAATCAACAAGCCATCTTCACCAGGTAACATTAAATCCAGTACCATAAg < 2:376404/76‑1 (MQ=255)
ggTTGCTCTGACTACGAAGACGTCGGCAAATCAACAAGCCATCTTCACCAGGTAACATCAAATCCAGTACCATAAg > 1:161460/1‑76 (MQ=255)
ttGCTCTGACTACGAAGACGTCGGCAAATCAACAAGCCATCTTCACCAGGTAACATTAAAACCAGTACCATAAGAt > 2:42888/1‑76 (MQ=255)
ctctGACTACGAAGACGTCGGCAAATCAACAAGCCATCTTCACCAGGTAACATTAAATCCAGTACCATAAGATGGa > 1:819265/1‑76 (MQ=255)
tctGAATACGGAGACATCGGCAAAGCANCAAGCCATCTTCGCCATGTANCATCGNATCGAGTACCATAAGATGGaa < 1:1384182/76‑1 (MQ=255)
tGACTACGAAGACGTCGGCAAATCAACAAGCCATCTTCACCAGGTAACATTAAATCCAGTACCATAAGATGGAAAg > 1:1120879/1‑76 (MQ=255)
cTACGAAGACGTCGGCAAATCAACAAGCCATCTTCACCAGGTAACATTAAATCCAGTACCATAAGATGGAAAGAtt > 2:1086058/1‑76 (MQ=255)
tACGNAGACGTCGGCAAATCAACCAGCCATCCTCACCAGNTAACATTAAATCCAGTACCATAAGATGGAAAGATTc < 1:171870/76‑1 (MQ=255)
tACGAAGACGTCGGCAAATCAACAAGCCATCTTCACCAGGTAACATTAAATCCAGTACCATAAGATGGAAAGATTc > 1:703688/1‑76 (MQ=255)
cGAAGACGTCGGCAAATCAACAAGCCATCTTCACCAGGTAACATTAAATCCAGTACCATAAGATGGAAAGATTCAc > 2:1134388/1‑76 (MQ=255)
gAAGACGTCGGCAAATCAACAAGCCATCTTCACCAGGTAACATTAAATCCAGTACCATAAGATGGAAAGATTCACg > 1:676719/1‑76 (MQ=255)
aaGACGTCGGCAAATCAACAAGCCATCTTCACCAGGTAACATTAAATCCAGTACCATAAGATGGAAAGATTCACGa > 2:175196/1‑76 (MQ=255)
aaGACGTCGGCAAATCAACAAGCCATCTTCACCAGGTAACATTAAATCCAGTACCATAAGATGGAAAGATTCACGa > 2:870464/1‑76 (MQ=255)
gTCGGCAAATCAACAAGCCATCTTCACCAGGTAACATTAAATCCAGTACCATAAGATGGAAAGATTCACGAGTcag > 2:235185/1‑76 (MQ=255)
cGGCAAATCTACAAGCCATCTTCACCAGGAAACATTAAATCCAGTACCATAAGATGGAAAGATTCACGAGTcagca > 2:1216156/1‑76 (MQ=255)
cGGCAAATCAACAAGCCATCTTCACCAGGTAACATTAAATCCAGTACCATAAGATGGAAAGATTCACGAGTcagca > 2:21788/1‑76 (MQ=255)
ggCAAATCAACAAGCCATCTTCACCAGGTAACATTAAATCCAGTACCATAAGATGGAAAGATTCACGAGTcagcag > 1:1202500/1‑76 (MQ=255)
cAAATCAACAAGCCATCTTCACCAGGTAACATTAAATCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGc > 2:137745/1‑76 (MQ=255)
cAAATCAACAAGCCATCTTCACCAGGTAACATTAAATCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGc > 2:1162142/1‑76 (MQ=255)
aaTCAACAAGCCATCTTCACCAGGTAACATTAAATCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGa < 1:1269430/76‑1 (MQ=255)
|
ACTTCTTCCCCTTTCGCCGTCACCATAATGATCGGCATCGGGTTGCTCTGACTACGAAGACGTCGGCAAATCGACAAGCCATCTTCACCAGGTAACATTAAATCCAGTACCATAAGATGGAAAGATTCACGAGTCAGCAGGCGA > REL606/3465003‑3465146
|
| Alignment Legend |
|---|
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 26 ≤ ATCG/ATCG < 32 ≤ ATCG/ATCG < 36 ≤ ATCG/ATCG < 38 ≤ ATCG/ATCG |
Unaligned base: atcg Masked matching base: atcg Alignment gap: ‑ Deleted base: ‑ |
GATK/CNVnator alignment
N/A
