Locus 3930

Sequence ID X_DroMel_CAF1
Location 10,488,660 – 10,488,768
Length 108
Max. P 0.995561
window6454 window6455

overview

Window 4

Location 10,488,660 – 10,488,768
Length 108
Sequences 5
Columns 108
Reading direction forward
Mean pairwise identity 96.67
Mean single sequence MFE -21.28
Consensus MFE -18.88
Energy contribution -19.16
Covariance contribution 0.28
Combinations/Pair 1.10
Mean z-score -2.19
Structure conservation index 0.89
SVM decision value 2.59
SVM RNA-class probability 0.995561
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10488660 108 + 22224390
CCGGCUUUGCCUUUGAUUUCUUCUCUCCAUCUCCGAGCUGCUGUCUUCACAAUUAGCUAAGCUCUGUCUUAGCAAAGUCGACAACAUGACAACAAAUGCCUCCUUUCU
.(((((((((....((.....))...........(((((((((..........))))..))))).......)))))))))............................ ( -22.00)
>DroSec_CAF1 19361 106 + 1
CCGGCUUU-CCUUUGAUUUCUUCUCUCCAUCUCCGAGCUGCUGUCUUCACAAUUAGCUAAGCUCUGUCUUAGCA-AGUCGACAACAUGACAACAACUGCCUCCUUUCU
..(((...-.....(((..(..(((.........)))..)..)))..........((((((......)))))).-.((((......)))).......)))........ ( -16.60)
>DroSim_CAF1 19989 108 + 1
CCGGCUUUGCCUUUGAUUUCUUCUCUCCAUCUCCGAGCUGCUGUCUUCACAAUUAGCUAAGCUCUGUCUUAGCAAAGUCGACAACAUGACAACAACUGCCUCCUUUCU
.(((((((((....((.....))...........(((((((((..........))))..))))).......)))))))))............................ ( -22.00)
>DroEre_CAF1 20687 108 + 1
CCGGCUUUGCCUUUGAUUUCUUCUCUCCAUCUCCAGGCUGCUGUCUUCACAAUUAGCUAAGCUCUGUCUUAGCAAAGUCGACAACAUGACAACAACUGCCUCCUUUCU
.(((((((((....((.....))..........((((((((((..........))))..))).))).....)))))))))............................ ( -20.60)
>DroYak_CAF1 21684 108 + 1
CCGGCUUUGCCUUUGAUUUCUUCUCUCCAUCUCCGAGCUGCUGUCUUCACAAUUAGCUAAGCUCUGUCUUAGCAAAGUUGUCAACAUGACAACAACUGCCUCUUUACU
..((((((((....((.....))...........(((((((((..........))))..))))).......)))))((((((.....))))))....)))........ ( -25.20)
>consensus
CCGGCUUUGCCUUUGAUUUCUUCUCUCCAUCUCCGAGCUGCUGUCUUCACAAUUAGCUAAGCUCUGUCUUAGCAAAGUCGACAACAUGACAACAACUGCCUCCUUUCU
.(((((((((....((.....))...........(((((((((..........))))..))))).......)))))))))............................ (-18.88 = -19.16 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 10,488,660 – 10,488,768
Length 108
Sequences 5
Columns 108
Reading direction reverse
Mean pairwise identity 96.67
Mean single sequence MFE -28.02
Consensus MFE -24.66
Energy contribution -24.70
Covariance contribution 0.04
Combinations/Pair 1.04
Mean z-score -1.92
Structure conservation index 0.88
SVM decision value 1.87
SVM RNA-class probability 0.980909
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10488660 108 - 22224390
AGAAAGGAGGCAUUUGUUGUCAUGUUGUCGACUUUGCUAAGACAGAGCUUAGCUAAUUGUGAAGACAGCAGCUCGGAGAUGGAGAGAAGAAAUCAAAGGCAAAGCCGG
........(((.((((((....(((((((.((...((((((......)))))).....))...))))))).(((.........)))...........))))))))).. ( -27.50)
>DroSec_CAF1 19361 106 - 1
AGAAAGGAGGCAGUUGUUGUCAUGUUGUCGACU-UGCUAAGACAGAGCUUAGCUAAUUGUGAAGACAGCAGCUCGGAGAUGGAGAGAAGAAAUCAAAGG-AAAGCCGG
........(((((((((((((...(((.(((..-.((((((......))))))...)))))).))))))))))....(((...........))).....-...))).. ( -26.90)
>DroSim_CAF1 19989 108 - 1
AGAAAGGAGGCAGUUGUUGUCAUGUUGUCGACUUUGCUAAGACAGAGCUUAGCUAAUUGUGAAGACAGCAGCUCGGAGAUGGAGAGAAGAAAUCAAAGGCAAAGCCGG
.....((..((..(((...((.(((((((.((...((((((......)))))).....))...))))))).(((.........)))..))...)))..))....)).. ( -27.60)
>DroEre_CAF1 20687 108 - 1
AGAAAGGAGGCAGUUGUUGUCAUGUUGUCGACUUUGCUAAGACAGAGCUUAGCUAAUUGUGAAGACAGCAGCCUGGAGAUGGAGAGAAGAAAUCAAAGGCAAAGCCGG
........(((...........(((((((.((...((((((......)))))).....))...)))))))((((...(((...........)))..))))...))).. ( -29.20)
>DroYak_CAF1 21684 108 - 1
AGUAAAGAGGCAGUUGUUGUCAUGUUGACAACUUUGCUAAGACAGAGCUUAGCUAAUUGUGAAGACAGCAGCUCGGAGAUGGAGAGAAGAAAUCAAAGGCAAAGCCGG
........(((((((((((((...((.((((....((((((......))))))...)))).))))))))))))....(((...........))).........))).. ( -28.90)
>consensus
AGAAAGGAGGCAGUUGUUGUCAUGUUGUCGACUUUGCUAAGACAGAGCUUAGCUAAUUGUGAAGACAGCAGCUCGGAGAUGGAGAGAAGAAAUCAAAGGCAAAGCCGG
........(((.(((((((((...(((.(((....((((((......))))))...)))))).))))))))).....(((...........))).........))).. (-24.66 = -24.70 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:04 2006