Locus 2567

Sequence ID 3L_DroMel_CAF1
Location 7,185,440 – 7,185,533
Length 93
Max. P 0.910984
window3979 window3980

overview

Window 9

Location 7,185,440 – 7,185,533
Length 93
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 78.86
Mean single sequence MFE -21.00
Consensus MFE -10.52
Energy contribution -10.72
Covariance contribution 0.20
Combinations/Pair 1.07
Mean z-score -1.96
Structure conservation index 0.50
SVM decision value 0.02
SVM RNA-class probability 0.543587
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7185440 93 + 23771897
CGACUGUCGCGCGGCAACUCUAAUAAAUGCCACAGCUUAGCUGACAGCCCCGACAGCCCGGAACUGCCCCCCAUUUCCACAUUUCCC-------------------CAUUUU
...((((((.((((((...........)))).((((...))))...))..))))))...((((.((.....)).)))).........-------------------...... ( -22.40)
>DroSec_CAF1 48258 92 + 1
CGACUGUCGCGCGGCAACUCUAAUAAAUGCCACAGCUUAGCUGACAGCCACGACAGCCCGGAACUGCCC-CCAUUUCCACAUUUCCC-------------------CAUUUC
...((((((.((((((...........)))).((((...))))...))..))))))...((((.((...-.)).)))).........-------------------...... ( -22.70)
>DroSim_CAF1 48862 93 + 1
CGACUGUCGCGCGGCAACUCUAAUAAAUGCCACAGCUUAGCUGACAGCCGCGACAGCCCGGAACUGCCCCCCAUUUCCACAUUUCCC-------------------CAUUUU
...(((((((((((((...........)))).((((...))))...).))))))))...((((.((.....)).)))).........-------------------...... ( -26.90)
>DroEre_CAF1 56465 93 + 1
CGACUAUCGCGUGGCAGCUCUAAUAAAUGCCACAGCUUAGCUGACAGCCACGACAGCCCGCAACUGCCACCCAAUUCCCCAUCUCCC-------------------CAUUUU
........((((((((...........)))))).((...((((.(......).))))..))....))....................-------------------...... ( -17.10)
>DroYak_CAF1 52388 112 + 1
CGACUAUCGCGCGGCAACUCUAAUAAAUGCCACAGCUUAGCUGACAGCCACGACAACCCGGAACUGCCACCCAUUUGCCCAUUUCCCCCCCAUUUCCACAUUUUUCCAUUUU
......(((.((((((...........)))).((((...))))...))..)))......((((.((.((......))..)).)))).......................... ( -14.10)
>DroAna_CAF1 47347 78 + 1
CGACUGUCGCGUGGCAGCUCUAAUAAAUGCCACAGCUUAGCUGACGGUC--------------CUGCCCCCUAGACCCUCUAUUC-C-------------------UGCAUC
.(((((((..((((((...........))))))(((...))))))))))--------------.(((....(((.....)))...-.-------------------.))).. ( -22.80)
>consensus
CGACUGUCGCGCGGCAACUCUAAUAAAUGCCACAGCUUAGCUGACAGCCACGACAGCCCGGAACUGCCCCCCAUUUCCACAUUUCCC___________________CAUUUU
.(.(((((..(.((((...........)))).)(((...)))))))).)............................................................... (-10.52 = -10.72 +   0.20)

alignment

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secondary structure

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dotplot

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Window 0

Location 7,185,440 – 7,185,533
Length 93
Sequences 6
Columns 112
Reading direction reverse
Mean pairwise identity 78.86
Mean single sequence MFE -31.45
Consensus MFE -23.87
Energy contribution -24.22
Covariance contribution 0.35
Combinations/Pair 1.16
Mean z-score -1.75
Structure conservation index 0.76
SVM decision value 1.07
SVM RNA-class probability 0.910984
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7185440 93 - 23771897
AAAAUG-------------------GGGAAAUGUGGAAAUGGGGGGCAGUUCCGGGCUGUCGGGGCUGUCAGCUAAGCUGUGGCAUUUAUUAGAGUUGCCGCGCGACAGUCG
......-------------------.((((.(((...........))).)))).((((((((.((((........))))((((((...........)))))).)))))))). ( -31.60)
>DroSec_CAF1 48258 92 - 1
GAAAUG-------------------GGGAAAUGUGGAAAUGG-GGGCAGUUCCGGGCUGUCGUGGCUGUCAGCUAAGCUGUGGCAUUUAUUAGAGUUGCCGCGCGACAGUCG
......-------------------.((((.(((........-..))).)))).(((((((((((((........))))((((((...........))))))))))))))). ( -33.00)
>DroSim_CAF1 48862 93 - 1
AAAAUG-------------------GGGAAAUGUGGAAAUGGGGGGCAGUUCCGGGCUGUCGCGGCUGUCAGCUAAGCUGUGGCAUUUAUUAGAGUUGCCGCGCGACAGUCG
......-------------------.((((.(((...........))).)))).(((((((((((((........))))((((((...........))))))))))))))). ( -35.40)
>DroEre_CAF1 56465 93 - 1
AAAAUG-------------------GGGAGAUGGGGAAUUGGGUGGCAGUUGCGGGCUGUCGUGGCUGUCAGCUAAGCUGUGGCAUUUAUUAGAGCUGCCACGCGAUAGUCG
......-------------------....(((......((((.(((((((..(((....)))..))))))).))))((.(((((((((....))).))))))))....))). ( -33.90)
>DroYak_CAF1 52388 112 - 1
AAAAUGGAAAAAUGUGGAAAUGGGGGGGAAAUGGGCAAAUGGGUGGCAGUUCCGGGUUGUCGUGGCUGUCAGCUAAGCUGUGGCAUUUAUUAGAGUUGCCGCGCGAUAGUCG
.................................(((...((.((((((..((..(..(((((..(((........)))..)))))....)..))..)))))).))...))). ( -31.50)
>DroAna_CAF1 47347 78 - 1
GAUGCA-------------------G-GAAUAGAGGGUCUAGGGGGCAG--------------GACCGUCAGCUAAGCUGUGGCAUUUAUUAGAGCUGCCACGCGACAGUCG
(((.(.-------------------.-.....((.(((((........)--------------)))).))......((.(((((((((....))).)))))))))...))). ( -23.30)
>consensus
AAAAUG___________________GGGAAAUGUGGAAAUGGGGGGCAGUUCCGGGCUGUCGUGGCUGUCAGCUAAGCUGUGGCAUUUAUUAGAGUUGCCGCGCGACAGUCG
............................................((((((.....))))))..((((((((((...)))(((((((((....))).))))))..))))))). (-23.87 = -24.22 +   0.35)

alignment

Postscript

secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:35:47 2006