Locus 3691

Sequence ID 2L_DroMel_CAF1
Location 10,755,558 – 10,755,687
Length 129
Max. P 0.981572
window5823 window5824

overview

Window 3

Location 10,755,558 – 10,755,655
Length 97
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 69.74
Mean single sequence MFE -19.61
Consensus MFE -11.84
Energy contribution -12.80
Covariance contribution 0.96
Combinations/Pair 1.15
Mean z-score -1.43
Structure conservation index 0.60
SVM decision value 0.25
SVM RNA-class probability 0.653452
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10755558 97 + 22407834
GCUGUAAGACAGAAUUUUCAUUUUUUGUUCAACAAUAUUAGCUGAAAAUGUCCAGAAAAGCAAAAGCAGCCAUUUAUUGGAUUUUAAG-A----------UUUAGG----AU
.(((.....))).(((((((.((..((((....))))..)).)))))))((((......((....))..(((.....)))........-.----------....))----)) ( -14.00)
>DroSec_CAF1 10651 90 + 1
GCUGUAAGACAGA-UUUUCAUUUUUUGUUCAACAAUAUUAGCUGAAAAUGUCCAGAAAAGCAAAAGCAGCUAUUUAUUGGAUCUAU-----------------UGG----AU
.......((((((-.........))))))...(((((.((((((....(((........)))....))))))..))))).......-----------------...----.. ( -14.90)
>DroSim_CAF1 9866 89 + 1
GCUGUAAGACAGAAUUUUCAUUUUUUGUUCAACAAUAUUAGCUGAAAAUGUCCAGAAAAGCAAAAGCAGCUAUUUAUUGAAUUUCA-----------------GAG------
.(((...(((((((........)))))))...(((((.((((((....(((........)))....))))))..))))).....))-----------------)..------ ( -18.00)
>DroEre_CAF1 9859 104 + 1
GGUGUAAAACAGCAUUUUCAUUUUGUGUUAAACAAUAUUAGCUGAAGUUGUCCAGA------AUACCAGCUC-UUAUUGGUAUUUGAC-AAAUAUAUUAUACGAAUCCCCAA
.((((((..((((.........((((.....)))).....))))...(((((..((------(((((((...-...))))))))))))-)).....)))))).......... ( -22.14)
>DroYak_CAF1 10144 110 + 1
GGUGUAAAACAGCAUUUUCAUUUGUUGUUCAACAAUAUUAGCUGAAAAUGUUGAGAGA--CAGUGACAGCUUUUUGUUGGCUUUUAACCAAAAAUAUUAAUCUAAUACCAAC
(((((..(((((((........)))))))((((((....(((((....((((....))--))....)))))..)))))).........................)))))... ( -29.00)
>consensus
GCUGUAAGACAGAAUUUUCAUUUUUUGUUCAACAAUAUUAGCUGAAAAUGUCCAGAAAAGCAAAAGCAGCUAUUUAUUGGAUUUUAA__A_____________AAG____AU
.......(((((((........)))))))...(((((..(((((....(((........)))....)))))...)))))................................. (-11.84 = -12.80 +   0.96)

alignment

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secondary structure

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dotplot

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Window 4

Location 10,755,590 – 10,755,687
Length 97
Sequences 3
Columns 118
Reading direction forward
Mean pairwise identity 54.05
Mean single sequence MFE -15.03
Consensus MFE -7.23
Energy contribution -8.57
Covariance contribution 1.33
Combinations/Pair 1.00
Mean z-score -1.80
Structure conservation index 0.48
SVM decision value 1.89
SVM RNA-class probability 0.981572
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10755590 97 + 22407834
CAAUAUUAGCUGAAAAUGUCCAGAAAAGCAAAAGCAGCCAUUUAUUGGAUUUUAAGA----------UUUAGG----AUUAUGAUUUUCUCAUAG------GUA-AAAAAAUCAAAAA
(((((...((((....(((........)))....))))....)))))........((----------(((...----.((((((.....))))))------...-...)))))..... ( -14.50)
>DroSim_CAF1 9898 82 + 1
CAAUAUUAGCUGAAAAUGUCCAGAAAAGCAAAAGCAGCUAUUUAUUGAAUUUCA----------------GAG--------GUAAAAAU----AA------A-G-AAAAAACAAAAAA
(((((.((((((....(((........)))....))))))..))))).......----------------...--------........----..------.-.-............. ( -12.10)
>DroEre_CAF1 9891 111 + 1
CAAUAUUAGCUGAAGUUGUCCAGA------AUACCAGCUC-UUAUUGGUAUUUGACAAAUAUAUUAUACGAAUCCCCAAAAUGAUUCUUACGUAGUAAAAGAUCAACAAAAUGAAGAA
........(.(((..(((((..((------(((((((...-...))))))))))))))...((((((..(((((........)))))....)))))).....))).)........... ( -18.50)
>consensus
CAAUAUUAGCUGAAAAUGUCCAGAAAAGCAAAAGCAGCUAUUUAUUGGAUUUUAA_A_____________AAG____A__AUGAUUAUU_C_UAG______AUA_AAAAAAUAAAAAA
(((((..(((((....(((........)))....)))))...)))))....................................................................... ( -7.23 =  -8.57 +   1.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:48 2006