Locus 3133

Sequence ID 3R_DroMel_CAF1
Location 8,256,583 – 8,256,703
Length 120
Max. P 0.990949
window5075 window5076

overview

Window 5

Location 8,256,583 – 8,256,703
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 83.42
Mean single sequence MFE -30.65
Consensus MFE -20.69
Energy contribution -22.89
Covariance contribution 2.20
Combinations/Pair 1.16
Mean z-score -1.80
Structure conservation index 0.67
SVM decision value 0.22
SVM RNA-class probability 0.641007
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8256583 120 + 27905053
AACUAAGCUCGCAACUGCUGGUGCACCUGCAAGAGCAUACUGGAAAAAACCAAUUCGAGUGUCCCCACUGCUCGAAGUCCUAUACAACUAGCUCGACUCUUCACAUGCAUUUGCGAACGC
......(.((((((.(((((.(((....))).((((....(((......))).(((((((.........)))))))..............)))).........)).))).)))))).).. ( -31.80)
>DroSec_CAF1 13012 120 + 1
AGCUAAGCUCGCAACUGCUGGUGCACCUGCAAGAGCAUACUGGAAAAAACCACUUCGAGUGUCCCCACUGCUCGAAGUCCUAUACAACCAGCUCGUCUCUUCAUAUGCACUUGCGAACGC
......(.(((((......((((((..((.((((((...((((........(((((((((.........))))))))).........))))...).)))))))..))))))))))).).. ( -35.73)
>DroSim_CAF1 12125 120 + 1
AGCUAAGCUCGCAACUGCUGGUGCACCUGCAAGAGCAUACUGGAAGAAACCACUUCGAGUGUCCCCACUGCUCGAAGUCCUAUACAACCAGCUCGUCUCUUCAUAUGCACUUGCGAACGC
......(.(((((......((((((..((.((((((...((((........(((((((((.........))))))))).........))))...).)))))))..))))))))))).).. ( -35.73)
>DroEre_CAF1 13287 120 + 1
AGCUGCAUUCGCAACUGCAGUUGCACCUGCGAGACCAUACUGAAAAAAACUCAUUUCAGUGUUCCCACUGCUCGAAGACUUAUUCGUCCAACACGACCCUUCAAAUACACUUGCGAACGC
....((.(((((((..((((((((....))))....(((((((((........))))))))).....))))..((((......((((.....))))..))))........))))))).)) ( -29.50)
>DroYak_CAF1 13412 120 + 1
AGCUGCAUUCGCAACUUCAAGUGCACCUGAGAGACCAUACUGGAAAAAGCCCCUUCGAGUGUUCCCACUGCUCAAAGACCUAUUUGGCCAAAUCGAAUCUUCAAAUACACUUGCGAUCAC
((.(((....))).)).((((((....(((.(((((.....))..........((((((((....))).((.((((......))))))....)))))))))))....))))))....... ( -20.50)
>consensus
AGCUAAGCUCGCAACUGCUGGUGCACCUGCAAGAGCAUACUGGAAAAAACCACUUCGAGUGUCCCCACUGCUCGAAGUCCUAUACAACCAGCUCGACUCUUCAAAUGCACUUGCGAACGC
........(((((......((((((..((.(((((....((((........(((((((((.........))))))))).........)))).....)))))))..))))))))))).... (-20.69 = -22.89 +   2.20)

alignment

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secondary structure

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dotplot

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Window 6

Location 8,256,583 – 8,256,703
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 83.42
Mean single sequence MFE -45.37
Consensus MFE -33.21
Energy contribution -33.61
Covariance contribution 0.40
Combinations/Pair 1.24
Mean z-score -2.94
Structure conservation index 0.73
SVM decision value 2.24
SVM RNA-class probability 0.990949
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8256583 120 - 27905053
GCGUUCGCAAAUGCAUGUGAAGAGUCGAGCUAGUUGUAUAGGACUUCGAGCAGUGGGGACACUCGAAUUGGUUUUUUCCAGUAUGCUCUUGCAGGUGCACCAGCAGUUGCGAGCUUAGUU
..((((((((.(((.((..(.(((((...(((......)))))))).((((((((....)))....(((((......))))).))))))..))((....)).))).))))))))...... ( -41.60)
>DroSec_CAF1 13012 120 - 1
GCGUUCGCAAGUGCAUAUGAAGAGACGAGCUGGUUGUAUAGGACUUCGAGCAGUGGGGACACUCGAAGUGGUUUUUUCCAGUAUGCUCUUGCAGGUGCACCAGCAGUUGCGAGCUUAGCU
..((((((((.(((...(((((((.((.(((((.........(((((((...(((....))))))))))........))))).))))))).))((....)).))).))))))))...... ( -47.83)
>DroSim_CAF1 12125 120 - 1
GCGUUCGCAAGUGCAUAUGAAGAGACGAGCUGGUUGUAUAGGACUUCGAGCAGUGGGGACACUCGAAGUGGUUUCUUCCAGUAUGCUCUUGCAGGUGCACCAGCAGUUGCGAGCUUAGCU
..((((((((.(((...(((((((.((.(((((.........(((((((...(((....))))))))))........))))).))))))).))((....)).))).))))))))...... ( -47.83)
>DroEre_CAF1 13287 120 - 1
GCGUUCGCAAGUGUAUUUGAAGGGUCGUGUUGGACGAAUAAGUCUUCGAGCAGUGGGAACACUGAAAUGAGUUUUUUUCAGUAUGGUCUCGCAGGUGCAACUGCAGUUGCGAAUGCAGCU
((((((((((.((((.(((...(.(((....((((......)))).))).).((((((..(((((((........)))))))....)))))).....))).)))).)))))))))).... ( -47.00)
>DroYak_CAF1 13412 120 - 1
GUGAUCGCAAGUGUAUUUGAAGAUUCGAUUUGGCCAAAUAGGUCUUUGAGCAGUGGGAACACUCGAAGGGGCUUUUUCCAGUAUGGUCUCUCAGGUGCACUUGAAGUUGCGAAUGCAGCU
.......((((((((((((((((((....((((......((((((((..(.((((....)))))..))))))))...))))...))))).))))))))))))).((((((....)))))) ( -42.60)
>consensus
GCGUUCGCAAGUGCAUAUGAAGAGUCGAGCUGGUUGUAUAGGACUUCGAGCAGUGGGGACACUCGAAGUGGUUUUUUCCAGUAUGCUCUUGCAGGUGCACCAGCAGUUGCGAGCUUAGCU
..((((((((((((((.(((((((.((.(((((.........((((((...((((....))))))))))........))))).))))))).)).))))))......))))))))...... (-33.21 = -33.61 +   0.40)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:53:50 2006