Locus 2952

Sequence ID X_DroMel_CAF1
Location 7,897,687 – 7,897,887
Length 200
Max. P 0.716071
window4846 window4847

overview

Window 6

Location 7,897,687 – 7,897,807
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 95.56
Mean single sequence MFE -40.83
Consensus MFE -37.61
Energy contribution -36.73
Covariance contribution -0.88
Combinations/Pair 1.12
Mean z-score -1.88
Structure conservation index 0.92
SVM decision value 0.39
SVM RNA-class probability 0.716071
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7897687 120 - 22224390
GAGGCCUCCGCCAAAAAGAAGGCGAAGAAAAAACUCAAGGAAAAGAAAAAGUCAAUAGGCGGCGGAUCAGGCUCUGGUUCGGCUUCGCACCAUUGUCACGCCACGGGCGGCGGUGCAAAU
((((((((((((........)))...((......))..))).........(((....)))...(((((((...)))))))))))))(((((.(((((.((...))))))).))))).... ( -39.40)
>DroSim_CAF1 1421 120 - 1
GAGGCCUCCGCUAAAAAGAAGGCGAAGAAAAAACUCAAGGAAAAGAAGAAGUCAAUAGGCGGCGGAUCAGGCUCUGGUUCGGCCUCGCACCAUUGUCACGCCACGGGCGGCGGUGCAAAU
((((((((((((........)))...((......))..)))......(..(((....)))..)(((((((...)))))))))))))(((((.(((((.((...))))))).))))).... ( -40.40)
>DroYak_CAF1 1422 120 - 1
GAGGCCUCCGCCAAAAAGAAGGCGAAGAAAAAACUCAAGGAAAAGAAGAAGUCAAUGGGCGGCGGAUCAGGCUCCGGUUCGGCCUCGCACCAUGGUCACGCCCCGGGUGGCGGUGCAAAU
((((((((((((........)))...((......))..)))......((((((....)))..((((......)))).)))))))))(((((...(((((.(....))))))))))).... ( -42.70)
>consensus
GAGGCCUCCGCCAAAAAGAAGGCGAAGAAAAAACUCAAGGAAAAGAAGAAGUCAAUAGGCGGCGGAUCAGGCUCUGGUUCGGCCUCGCACCAUUGUCACGCCACGGGCGGCGGUGCAAAU
((((((((((((........)))...((......))..)))...(((...(((....)))..((((......)))).)))))))))(((((.......((((...))))..))))).... (-37.61 = -36.73 +  -0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 7,897,767 – 7,897,887
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 96.11
Mean single sequence MFE -38.27
Consensus MFE -35.93
Energy contribution -35.93
Covariance contribution 0.01
Combinations/Pair 1.09
Mean z-score -1.62
Structure conservation index 0.94
SVM decision value 0.10
SVM RNA-class probability 0.581508
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7897767 120 - 22224390
AUGAGGAGCGGAGCGCUAGGCUGAAGAUGCUCGAGUCCAAGCUGCUCGGUCUGCAGGAGGAGAUCCGUAAGCUGUCAGAGGAGGCCUCCGCCAAAAAGAAGGCGAAGAAAAAACUCAAGG
.((((..(((((.((...((((...(((......)))..))))...)).))))).(((((...(((.............)))..)))))(((........)))..........))))... ( -39.82)
>DroSim_CAF1 1501 120 - 1
AUGAGGAGCGCAGCGCUAAGCUGAAGAUGCUCGAGUCCAAACUGCUCGGUCUGCAGGAGGAGAUCCGCAAGCUGUCAGAGGAGGCCUCCGCUAAAAAGAAGGCGAAGAAAAAACUCAAGG
.(((((((((((((.....))))....)))))(((.((...(((..(((..(((.(((.....))))))..))).)))....)).)))((((........)))).........))))... ( -38.00)
>DroYak_CAF1 1502 120 - 1
AUGAGGAGCGCAGCGCUAAGCUGAAGAUGCUCGAGUCUAAGCUGCUCGGUCUGCAGGAGGAGAUACGCAAGCUGUCAGAGGAGGCCUCCGCCAAAAAGAAGGCGAAGAAAAAACUCAAGG
.(((((((((((((.....))))....)))))..((((...(((..(((..(((............)))..))).)))...))))((.((((........)))).))......))))... ( -37.00)
>consensus
AUGAGGAGCGCAGCGCUAAGCUGAAGAUGCUCGAGUCCAAGCUGCUCGGUCUGCAGGAGGAGAUCCGCAAGCUGUCAGAGGAGGCCUCCGCCAAAAAGAAGGCGAAGAAAAAACUCAAGG
.(((((((((((((.....))))....)))))(((.((...(((..(((..(((.(((.....))))))..))).)))....)).)))((((........)))).........))))... (-35.93 = -35.93 +   0.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:47:36 2006