Locus 5683

Sequence ID X_DroMel_CAF1
Location 14,704,159 – 14,704,294
Length 135
Max. P 0.851868
window9226 window9227

overview

Window 6

Location 14,704,159 – 14,704,276
Length 117
Sequences 4
Columns 117
Reading direction forward
Mean pairwise identity 84.42
Mean single sequence MFE -28.12
Consensus MFE -16.51
Energy contribution -16.95
Covariance contribution 0.44
Combinations/Pair 1.17
Mean z-score -2.80
Structure conservation index 0.59
SVM decision value 0.79
SVM RNA-class probability 0.851868
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14704159 117 + 22224390
ACCGCUUCAAUGAUUUUUGAUUGCCAUUUUUAAUCAAGUGUCUUCCAUUUAAAAGUCUCCUUUAUCUUAAUGCCUGCUUGCAAAAAAAAGCCAUCAGUGUCAGACGGGAGGCAUCAA
...........(((.((((((((.......)))))))).)))............(((((((...(((....(((((...((........))...))).)).))).)))))))..... ( -21.60)
>DroSec_CAF1 23109 114 + 1
ACCGCUUCAAUGAUUUUUGAUUGCCAUUUUUAAUCAAGUGGCUUCCAUUUAAAAGCCUCCUUUAUCUAAAUGCCUGCUGGCGA---AAAGCCAUCAGUGUCAGACUGAAGGCAUCAA
...(((((((......))))..(((((((......)))))))...........))).............((((((..((((..---...))))(((((.....)))))))))))... ( -28.80)
>DroEre_CAF1 23476 111 + 1
---GCUUCAAUGAUUUUUAAUACCCAUUUUUAAUCAAGCAGCUUCCAUUUAAAAGCCUCCUCUGGCUUAAUGCCUGCUGGCUA---AAAGCCUUCAGUGUCAGACUGGAGGCAUCAA
---.......((((.............(((((..((.((((....((((...(((((......))))))))).))))))..))---)))(((((((((.....))))))))))))). ( -32.70)
>DroYak_CAF1 21267 114 + 1
ACAGCUUUAAUGAUUAAAAACUUCCAUUUUUAAUCAAGUAUCUUCCAUUUAAAAGCCUAAUCUAUCUAAAGGCCUGCUGGCAA---AAAGUCUUCAGUGUCAAACUGGAGGCAUCAA
.((((.....((((((((((......))))))))))..................((((...........))))..))))....---...(((((((((.....)))))))))..... ( -29.40)
>consensus
ACCGCUUCAAUGAUUUUUAAUUGCCAUUUUUAAUCAAGUAGCUUCCAUUUAAAAGCCUCCUCUAUCUAAAUGCCUGCUGGCAA___AAAGCCAUCAGUGUCAGACUGGAGGCAUCAA
...(((....(((((...(((....)))...))))))))................................(((....)))........(((((((((.....)))))))))..... (-16.51 = -16.95 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 14,704,198 – 14,704,294
Length 96
Sequences 4
Columns 96
Reading direction forward
Mean pairwise identity 86.24
Mean single sequence MFE -25.70
Consensus MFE -17.56
Energy contribution -18.50
Covariance contribution 0.94
Combinations/Pair 1.19
Mean z-score -2.13
Structure conservation index 0.68
SVM decision value 0.64
SVM RNA-class probability 0.809553
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14704198 96 + 22224390
GUCUUCCAUUUAAAAGUCUCCUUUAUCUUAAUGCCUGCUUGCAAAAAAAAGCCAUCAGUGUCAGACGGGAGGCAUCAACUAAAAUGUUGCUGCUGU
((((..((((..((((....))))............((((........))))....))))..))))....((((.((((......)))).)))).. ( -18.50)
>DroSec_CAF1 23148 93 + 1
GGCUUCCAUUUAAAAGCCUCCUUUAUCUAAAUGCCUGCUGGCGA---AAAGCCAUCAGUGUCAGACUGAAGGCAUCAACUAAAAUGUUGCUGCUGU
(((((........)))))..((((((((....(((((.((((..---...)))).))).)).))).)))))(((.((((......)))).)))... ( -27.40)
>DroEre_CAF1 23512 93 + 1
AGCUUCCAUUUAAAAGCCUCCUCUGGCUUAAUGCCUGCUGGCUA---AAAGCCUUCAGUGUCAGACUGGAGGCAUCAACCAUAAUGUGGCUGCUGU
(((..((((.....((((..(...(((.....))).)..)))).---...(((((((((.....)))))))))............))))..))).. ( -33.20)
>DroYak_CAF1 21306 93 + 1
AUCUUCCAUUUAAAAGCCUAAUCUAUCUAAAGGCCUGCUGGCAA---AAAGUCUUCAGUGUCAAACUGGAGGCAUCAACUAUAAUGUGGCUGCUGU
..............((((..............(((....)))..---...(((((((((.....)))))))))..............))))..... ( -23.70)
>consensus
AGCUUCCAUUUAAAAGCCUCCUCUAUCUAAAUGCCUGCUGGCAA___AAAGCCAUCAGUGUCAGACUGGAGGCAUCAACUAAAAUGUGGCUGCUGU
..............((((..............(((....)))........(((((((((.....)))))))))..............))))..... (-17.56 = -18.50 +   0.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:53:56 2006