Locus 109

Sequence ID X_DroMel_CAF1
Location 452,196 – 452,295
Length 99
Max. P 0.685285
window143 window144

overview

Window 3

Location 452,196 – 452,295
Length 99
Sequences 3
Columns 99
Reading direction forward
Mean pairwise identity 93.27
Mean single sequence MFE -28.47
Consensus MFE -22.87
Energy contribution -22.77
Covariance contribution -0.11
Combinations/Pair 1.08
Mean z-score -2.15
Structure conservation index 0.80
SVM decision value 0.01
SVM RNA-class probability 0.536408
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 452196 99 + 22224390
AUGAAAUACAUUGCAAUAGGAAUAGAAAUGCAGAUAGGACGCGUUCCGAUUCUUUGGAAUGCUGCCUUCGCAGCACUAUAUCCAAAAGUUCGAAAGCUA
..................(((((((...(((.((.(((..(((((((((....)))))))))..))))))))...)))).)))...(((......))). ( -27.40)
>DroSec_CAF1 54426 99 + 1
UUGAAAUACAUGGCAAUAGGAAUAGAAAGGCAGCUAGGACGUGUCCCGAUUCUUCGGAAUGCUGCCUUCGCAGCACUAUCUCCAAAAGUACGAGAGCUA
..........((((..((((....(((.((((((..(((....)))..((((....)))))))))))))....).)))((((.........)))))))) ( -28.10)
>DroSim_CAF1 33453 99 + 1
UUGAAAUACAUGGCAAUAGGAAUAGAAAGGCAGCUAGGACGUGUUCCGAUUCUUCGGAAUGCUGCCUUCGCAGCACUAUCUCCAAAAGUUCGAGAGCUA
(((((.....(((..(((((....(((.((((((........(((((((....))))))))))))))))....).))))..)))....)))))...... ( -29.90)
>consensus
UUGAAAUACAUGGCAAUAGGAAUAGAAAGGCAGCUAGGACGUGUUCCGAUUCUUCGGAAUGCUGCCUUCGCAGCACUAUCUCCAAAAGUUCGAGAGCUA
..................(((((((....((....(((..(((((((((....)))))))))..)))..))....)))).)))...(((......))). (-22.87 = -22.77 +  -0.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 452,196 – 452,295
Length 99
Sequences 3
Columns 99
Reading direction reverse
Mean pairwise identity 93.27
Mean single sequence MFE -28.94
Consensus MFE -23.34
Energy contribution -23.57
Covariance contribution 0.23
Combinations/Pair 1.10
Mean z-score -2.43
Structure conservation index 0.81
SVM decision value 0.32
SVM RNA-class probability 0.685285
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 452196 99 - 22224390
UAGCUUUCGAACUUUUGGAUAUAGUGCUGCGAAGGCAGCAUUCCAAAGAAUCGGAACGCGUCCUAUCUGCAUUUCUAUUCCUAUUGCAAUGUAUUUCAU
..((((((((..(((((((....(((((((....))))))))))))))..)))))).))........((((.............))))........... ( -30.42)
>DroSec_CAF1 54426 99 - 1
UAGCUCUCGUACUUUUGGAGAUAGUGCUGCGAAGGCAGCAUUCCGAAGAAUCGGGACACGUCCUAGCUGCCUUUCUAUUCCUAUUGCCAUGUAUUUCAA
........((((...(((..((((...((.(((((((((((((....)))).((((....)))).))))))))).))...))))..))).))))..... ( -29.40)
>DroSim_CAF1 33453 99 - 1
UAGCUCUCGAACUUUUGGAGAUAGUGCUGCGAAGGCAGCAUUCCGAAGAAUCGGAACACGUCCUAGCUGCCUUUCUAUUCCUAUUGCCAUGUAUUUCAA
........(((....(((..((((...((.(((((((((.((((((....)))))).........))))))))).))...))))..))).....))).. ( -27.00)
>consensus
UAGCUCUCGAACUUUUGGAGAUAGUGCUGCGAAGGCAGCAUUCCGAAGAAUCGGAACACGUCCUAGCUGCCUUUCUAUUCCUAUUGCCAUGUAUUUCAA
..(.((((((..(((((((....(((((((....))))))))))))))..))))))).......................................... (-23.34 = -23.57 +   0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:34:32 2006