Locus 5471

Sequence ID 3L_DroMel_CAF1
Location 14,952,102 – 14,952,208
Length 106
Max. P 0.973171
window8658 window8659

overview

Window 8

Location 14,952,102 – 14,952,208
Length 106
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 78.68
Mean single sequence MFE -25.16
Consensus MFE -14.86
Energy contribution -15.14
Covariance contribution 0.28
Combinations/Pair 1.10
Mean z-score -2.41
Structure conservation index 0.59
SVM decision value 1.71
SVM RNA-class probability 0.973171
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14952102 106 + 23771897
ACAUUUAACCUUGUUACAAUUAUUGUGCACACAAAUAGUUUGUGGCAAGUUUCACUUGCAGUAU--------------UUGUCCCACAAAGCCGUUAAAUCAGGUGCAAUUAAAGGCUUA
...........((..((((.((((((((.(((((.....)))))))(((.....))))))))).--------------))))..))..(((((.((((...........)))).))))). ( -21.70)
>DroSec_CAF1 3885 90 + 1
ACAUUUAACCUUGUUACAAUUAUUGUGCACACAAAUAGUUUGUGGCAAGUUUUACUUGCA------------------------------GCCGUUAAAUCAGCUGCAAUUAAAGUCCUA
.........(((((((((((((((((....)).))))).))))))))))(((((.(((((------------------------------((.(......).))))))).)))))..... ( -24.80)
>DroSim_CAF1 3931 90 + 1
ACAUUUAACCUUGUUACAAUUAUUGUGCGCACAAAUAGUUUGUGGCAAGUUUUACUUGCA------------------------------GCCGUUAAAUCAGCUGCAAUUAAAGGCAUA
.........(((((((((((((((((....)).))))).))))))))))(((((.(((((------------------------------((.(......).))))))).)))))..... ( -25.00)
>DroEre_CAF1 4040 120 + 1
ACGUUCAGCCUUGUCACAAUUAUUGUGCACACAAAUAGCUUGUGGCAAGUUUAACUUGCAGUACAAGUAUGUACAUAUAUGUCCCACGAAGCCGUUAAAUCAGCUACAAUUAAAGGCCUA
.......(((((((((((.....)))).)).........(((((((..(((((((..((.(((((....))))).....((.....))..)).)))))))..)))))))...)))))... ( -29.30)
>DroYak_CAF1 4231 106 + 1
ACGUUCAACCUUGUUACAAUUGUUGUGCACACAAAUAGUUUGUGGCAAGUUUCACUUGCAGUAUGUGUA---------AUGUCCCA-----CCGUUAAAUCAGCUGCAAUUACAGGCCUA
..(..(...((((((((((...((((....)))).....))))))))))......(((((((.((..((---------(((.....-----.)))))...))))))))).....)..).. ( -25.00)
>consensus
ACAUUUAACCUUGUUACAAUUAUUGUGCACACAAAUAGUUUGUGGCAAGUUUCACUUGCAGUA________________UGUCCCA____GCCGUUAAAUCAGCUGCAAUUAAAGGCCUA
........((((.........(((((((.(((((.....)))))(((((.....)))))...........................................)).)))))..)))).... (-14.86 = -15.14 +   0.28)

alignment

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secondary structure

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dotplot

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Window 9

Location 14,952,102 – 14,952,208
Length 106
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 78.68
Mean single sequence MFE -24.74
Consensus MFE -14.88
Energy contribution -15.12
Covariance contribution 0.24
Combinations/Pair 1.19
Mean z-score -1.78
Structure conservation index 0.60
SVM decision value 0.27
SVM RNA-class probability 0.660422
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14952102 106 - 23771897
UAAGCCUUUAAUUGCACCUGAUUUAACGGCUUUGUGGGACAA--------------AUACUGCAAGUGAAACUUGCCACAAACUAUUUGUGUGCACAAUAAUUGUAACAAGGUUAAAUGU
..((((((...(((((.(((......)))..(((((.(((((--------------(((..(((((.....))))).......))))))).).)))))....))))).))))))...... ( -21.60)
>DroSec_CAF1 3885 90 - 1
UAGGACUUUAAUUGCAGCUGAUUUAACGGC------------------------------UGCAAGUAAAACUUGCCACAAACUAUUUGUGUGCACAAUAAUUGUAACAAGGUUAAAUGU
...((((((..(((((((((......))))------------------------------)))))........((((((((.....))))).))).............))))))...... ( -24.60)
>DroSim_CAF1 3931 90 - 1
UAUGCCUUUAAUUGCAGCUGAUUUAACGGC------------------------------UGCAAGUAAAACUUGCCACAAACUAUUUGUGCGCACAAUAAUUGUAACAAGGUUAAAUGU
...(((((...(((((((((......))))------------------------------)))))........((((((((.....))))).))).............)))))....... ( -24.90)
>DroEre_CAF1 4040 120 - 1
UAGGCCUUUAAUUGUAGCUGAUUUAACGGCUUCGUGGGACAUAUAUGUACAUACUUGUACUGCAAGUUAAACUUGCCACAAGCUAUUUGUGUGCACAAUAAUUGUGACAAGGCUGAACGU
..((((((((((((((((((......)))))..............(((((((((((((...(((((.....))))).))))).....))))))))..)))))))....))))))...... ( -31.20)
>DroYak_CAF1 4231 106 - 1
UAGGCCUGUAAUUGCAGCUGAUUUAACGG-----UGGGACAU---------UACACAUACUGCAAGUGAAACUUGCCACAAACUAUUUGUGUGCACAACAAUUGUAACAAGGUUGAACGU
..(((.(((....))))))..((((((..-----((..(((.---------..........(((((.....)))))(((((.....)))))...........)))..))..))))))... ( -21.40)
>consensus
UAGGCCUUUAAUUGCAGCUGAUUUAACGGC____UGGGACA________________UACUGCAAGUAAAACUUGCCACAAACUAUUUGUGUGCACAAUAAUUGUAACAAGGUUAAAUGU
..((((((...(((((((((......))))...............................(((((.....)))))((((((...))))))...........))))).))))))...... (-14.88 = -15.12 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:14 2006