Locus 4053

Sequence ID 3R_DroMel_CAF1
Location 11,045,493 – 11,045,733
Length 240
Max. P 0.940293
window6494 window6495

overview

Window 4

Location 11,045,493 – 11,045,613
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 98.33
Mean single sequence MFE -43.83
Consensus MFE -43.62
Energy contribution -43.40
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -2.15
Structure conservation index 1.00
SVM decision value 1.29
SVM RNA-class probability 0.940293
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11045493 120 - 27905053
CCUUGUUGUGUGAGAACUCCAGGUGGGCGAUCCACUGCAAUCGCUGCUGCGCGUCCUCUACAAAGGGUAUGCUCAGCAAUUUGUUGGAGCUCUGCUCCGGACCGUCCUCCUCCUCCACCC
.......(((.(((......(((.(((((.(((...((((....(((((.((((.((((....)))).)))).)))))..)))).(((((...)))))))).))))).))).)))))).. ( -45.30)
>DroSec_CAF1 8262 120 - 1
CCUUGUUGUGUGAGAAUUCCAGGUGGGCGAUCCACUGCAAUCGCUGCUGCGCGUCCUCCACAAAGGGUAUGCUUAGCAAUUUGUUGGAGCUCUGCUCCGGACCGUCCUCCUCCUCCACCC
.......(((.(((......(((.(((((.(((...((((..((((..(((..((((......))))..))).))))...)))).(((((...)))))))).))))).))).)))))).. ( -42.10)
>DroSim_CAF1 8280 120 - 1
CCUUGUUGUGUGAGAAUUCCAGGUGGGCGAUCCACUGCAAUCGCUGCUGCGCGUCCUCCACAAAGGGUAUGCUCAGCAAUUUGUUGGAGCUCUGCUCCGGACCGUCCUCCUCCUCCACCC
.......(((.(((......(((.(((((.(((...((((....(((((.(((((((.......))).)))).)))))..)))).(((((...)))))))).))))).))).)))))).. ( -44.10)
>consensus
CCUUGUUGUGUGAGAAUUCCAGGUGGGCGAUCCACUGCAAUCGCUGCUGCGCGUCCUCCACAAAGGGUAUGCUCAGCAAUUUGUUGGAGCUCUGCUCCGGACCGUCCUCCUCCUCCACCC
.......(((.(((......(((.(((((.(((...((((....(((((.((((.(((......))).)))).)))))..)))).(((((...)))))))).))))).))).)))))).. (-43.62 = -43.40 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 11,045,613 – 11,045,733
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 97.22
Mean single sequence MFE -41.50
Consensus MFE -37.49
Energy contribution -37.27
Covariance contribution -0.22
Combinations/Pair 1.03
Mean z-score -1.69
Structure conservation index 0.90
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11045613 120 - 27905053
AUAGACGCAUCCACAUCUGGGCACGCAACGUGUGCGGGAUACCCUGACGGACCAUAUUGCGCAGCUUUUCUGUGCGUGGGAGCAUUACAUCCACAUGCUCCCAGCUCAGCUCGGCAGCCU
...(.((((......((((.((((((...))))))(((...)))...))))......))))).(((...(((.((.(((((((((.........))))))))))).)))...)))..... ( -43.50)
>DroSec_CAF1 8382 120 - 1
AUAGACGCAUCCACAUCUGGGCACGCAACGUGUGCGGGAUACCCUGACGAACCAUAUUGCGCAACUUUUCUGUGCGUGGGAGCAUCACAUCCACAUGCUCCCAGCUCAGCUCGGCAGCCU
.((((.(......).))))(((..((((..((((((((....)))).))...))..))))((.......(((.((.(((((((((.........))))))))))).)))....)).))). ( -38.40)
>DroSim_CAF1 8400 120 - 1
AUAGACGCAUCCACAUCUGGGCACGCAACGUGUGCGGAAUACCCUGCCGGACCAUAUUGCGCAACUUUUCUGUGCGUGGGAGCAUCACAUCCACAUGCUCCCAGCUCAGCUCGGCAGCCU
...............((((.(((((...))))).)))).....((((((..(......(((((.......))))).(((((((((.........))))))))).....)..))))))... ( -42.60)
>consensus
AUAGACGCAUCCACAUCUGGGCACGCAACGUGUGCGGGAUACCCUGACGGACCAUAUUGCGCAACUUUUCUGUGCGUGGGAGCAUCACAUCCACAUGCUCCCAGCUCAGCUCGGCAGCCU
......((..((....(((((((((((.....((((.((((...((......)))))).)))).........)))))((((((((.........)))))))).))))))...))..)).. (-37.49 = -37.27 +  -0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:56 2006