Locus 4895

Sequence ID 2L_DroMel_CAF1
Location 13,979,254 – 13,979,374
Length 120
Max. P 0.914146
window7763 window7764

overview

Window 3

Location 13,979,254 – 13,979,374
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 95.92
Mean single sequence MFE -31.70
Consensus MFE -27.20
Energy contribution -27.40
Covariance contribution 0.20
Combinations/Pair 1.00
Mean z-score -1.33
Structure conservation index 0.86
SVM decision value 0.12
SVM RNA-class probability 0.592399
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13979254 120 + 22407834
UGGAACUGAUAUCAAAGUUCAAUGUCAAGAUCAAUGACAAAACCCGCAAAGACAAUGAUUAUGAACCCGGCCAAAUUAUCACUGGUCUGCGUGGGGGCAUUUGGCUCGACCUUGAAAAGC
..(((((........)))))....(((((.((..........(((((..((((..((((..((........))....))))...))))..)))))(((.....))).)).)))))..... ( -28.80)
>DroSec_CAF1 66747 120 + 1
UGGAACUGAUAUCAAAGUUCAAUGUCAAGAUCAAUGGCAAAACCCGCAAAGACAAUGAUUAUGAACCCGGCCAAAUUAUCACUGGUCUGCGUGGGGGCAUUUGGCUAGACCUUGAAAAGC
..(((((........)))))....(((((.((...(.((((.(((((..((((..((((..((........))....))))...))))..)))))....)))).)..)).)))))..... ( -29.80)
>DroSim_CAF1 70522 120 + 1
UGGAACUGAUAUCAAAGUUCAAUGUCAAGAUCAAUGGCAAAACCCGCAGAGACAAUGAUUAUGAUCCCGGCCAAAUUAUCACUGGUCUGCGUGGGGGCAUUUGGCUAGACCUUGAAAAGC
..(((((........)))))...(((.((.((((..((....((((((((..((.((((..((........))....)))).)).)))))).))..))..)))))).))).......... ( -29.40)
>DroEre_CAF1 69563 120 + 1
UGGAACUGAUAUCAAAGUUCAACGUCAAGAUCAAUGCCAAAACGCGCAAAGACAAUGAUUAUGACCCUGGCCAAAUUAUCACUGGUCUGCGUGGGGGCAUUUGGCUAGACCUUGAAAAGC
..(((((........)))))...(((.((.((((((((....((((((..(((..((((..((.(....).))....))))...)))))))))..)))).)))))).))).......... ( -32.40)
>DroYak_CAF1 76041 120 + 1
UGGAACUGAUAUCAAAGUUCAAUGUCAAGAUCAAUGCCAAAACCCGCAAAGACAAUGAUUAUGACCCUGGCCAAAUAAUCACUAGUCUGCGUGGGGGCAUUUGGCUGGACCUUGAAAAGC
..(((((........)))))....(((((.((...((((((.(((((..((((..(((((((............)))))))...))))..)))))....))))))..)).)))))..... ( -38.10)
>consensus
UGGAACUGAUAUCAAAGUUCAAUGUCAAGAUCAAUGCCAAAACCCGCAAAGACAAUGAUUAUGAACCCGGCCAAAUUAUCACUGGUCUGCGUGGGGGCAUUUGGCUAGACCUUGAAAAGC
..(((((........)))))....(((((.((..........(((((..((((..((((..((........))....))))...))))..)))))(((.....))).)).)))))..... (-27.20 = -27.40 +   0.20)

alignment

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secondary structure

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dotplot

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Window 4

Location 13,979,254 – 13,979,374
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 95.92
Mean single sequence MFE -34.40
Consensus MFE -28.38
Energy contribution -28.26
Covariance contribution -0.12
Combinations/Pair 1.05
Mean z-score -1.93
Structure conservation index 0.82
SVM decision value 1.09
SVM RNA-class probability 0.914146
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13979254 120 - 22407834
GCUUUUCAAGGUCGAGCCAAAUGCCCCCACGCAGACCAGUGAUAAUUUGGCCGGGUUCAUAAUCAUUGUCUUUGCGGGUUUUGUCAUUGAUCUUGACAUUGAACUUUGAUAUCAGUUCCA
.....((((((((((..((((.((((....(((((.(((((((....(((......)))..)))))))..)))))))))))))...))))))))))....(((((........))))).. ( -32.00)
>DroSec_CAF1 66747 120 - 1
GCUUUUCAAGGUCUAGCCAAAUGCCCCCACGCAGACCAGUGAUAAUUUGGCCGGGUUCAUAAUCAUUGUCUUUGCGGGUUUUGCCAUUGAUCUUGACAUUGAACUUUGAUAUCAGUUCCA
.....((((((((..(.((((.((((....(((((.(((((((....(((......)))..)))))))..))))))))))))).)...))))))))....(((((........))))).. ( -29.20)
>DroSim_CAF1 70522 120 - 1
GCUUUUCAAGGUCUAGCCAAAUGCCCCCACGCAGACCAGUGAUAAUUUGGCCGGGAUCAUAAUCAUUGUCUCUGCGGGUUUUGCCAUUGAUCUUGACAUUGAACUUUGAUAUCAGUUCCA
.....((((((((..(.((((.((((....(((((.(((((((....(((......)))..)))))))..))))))))))))).)...))))))))....(((((........))))).. ( -31.70)
>DroEre_CAF1 69563 120 - 1
GCUUUUCAAGGUCUAGCCAAAUGCCCCCACGCAGACCAGUGAUAAUUUGGCCAGGGUCAUAAUCAUUGUCUUUGCGCGUUUUGGCAUUGAUCUUGACGUUGAACUUUGAUAUCAGUUCCA
.....((((((((..((((((......(.((((((.(((((((....((((....))))..)))))))..)))))).).))))))...))))))))....(((((........))))).. ( -37.10)
>DroYak_CAF1 76041 120 - 1
GCUUUUCAAGGUCCAGCCAAAUGCCCCCACGCAGACUAGUGAUUAUUUGGCCAGGGUCAUAAUCAUUGUCUUUGCGGGUUUUGGCAUUGAUCUUGACAUUGAACUUUGAUAUCAGUUCCA
.....((((((((..((((((.((((.((...((((.((((((((..((((....)))))))))))))))).)).))))))))))...))))))))....(((((........))))).. ( -42.00)
>consensus
GCUUUUCAAGGUCUAGCCAAAUGCCCCCACGCAGACCAGUGAUAAUUUGGCCGGGGUCAUAAUCAUUGUCUUUGCGGGUUUUGCCAUUGAUCUUGACAUUGAACUUUGAUAUCAGUUCCA
.....((((((((..(.((((.((((....(((((.(((((((....(((......)))..)))))))..))))))))))))).)...))))))))....(((((........))))).. (-28.38 = -28.26 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:30:24 2006