Locus 4194

Sequence ID 2L_DroMel_CAF1
Location 12,010,373 – 12,010,467
Length 94
Max. P 0.886317
window6631 window6632

overview

Window 1

Location 12,010,373 – 12,010,467
Length 94
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 79.50
Mean single sequence MFE -37.48
Consensus MFE -23.90
Energy contribution -23.86
Covariance contribution -0.04
Combinations/Pair 1.05
Mean z-score -2.04
Structure conservation index 0.64
SVM decision value 0.94
SVM RNA-class probability 0.886317
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12010373 94 + 22407834
UCCGGAUACCUCCGGAGCGAGGAGCAUGGCAACAAUGUUGCAGUUGCUCGUA-------------------CUCGUACUCCAAGGGGAUGGGAAG----UAGAUGCGUGUGU---GCACA
((((((....))))))(((..(((((..(((((...)))))...)))))...-------------------(((((.(((....))))))))...----....)))(((...---.))). ( -35.30)
>DroSec_CAF1 1867 94 + 1
UCCGGAUACCUCCGGAGCGAGGAGCAUGGCAACAAUGUUGCAGUUGCUCAUA-------------------CUCGUACUCCAAGGGGAUGGGAAG----UUGAUGCGUGUGU---GCACA
((((((....))))))(((..(((((..(((((...)))))...)))))...-------------------(((((.(((....))))))))...----....)))(((...---.))). ( -35.30)
>DroSim_CAF1 1868 94 + 1
UCCGGAUACCUCCGGAGCGAGGAGCAUGGCAACAAUGUUGCAGUUGCUCGUA-------------------CUCGUACUCCAUGGGGAUGGGAAG----UUGAUGCGUGUGU---GCACA
((((((....))))))(((..(((((..(((((...)))))...)))))...-------------------(((((.(((....))))))))...----....)))(((...---.))). ( -35.30)
>DroEre_CAF1 2210 116 + 1
ACCGGAUACCUCCGGAGCGAGGAGCAUGGCAACAAUGUUGCAGUUGUUCGUGCUGGUGCUGGGUGCUUGUGCUCGCACUC-CAGUGCAAUGGAAGCAUGUGGAUGCGUGUGU---GCACA
.(((((....)))))......(((((..(((((...)))))...)))))((((..(..((((((((........)))).)-)))..).......((((((....))))))..---)))). ( -47.60)
>DroYak_CAF1 2239 91 + 1
ACCGGAUACCUCCGGAGCGAGCAGCAUGGCAACAAUGUUGCAGUUGUUCGUGCU------------------------CC-AAGGGGAAUGGAAG----UAGAUACGUGUGUGCUGCACA
.(((....(((..((((((((((((...(((((...))))).)))))))..)))------------------------))-..)))...)))..(----(((.(((....)))))))... ( -33.90)
>consensus
UCCGGAUACCUCCGGAGCGAGGAGCAUGGCAACAAUGUUGCAGUUGCUCGUA___________________CUCGUACUCCAAGGGGAUGGGAAG____UAGAUGCGUGUGU___GCACA
.(((((....))))).(((((.(((...(((((...))))).))).))))).......................................................((((.....)))). (-23.90 = -23.86 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 12,010,373 – 12,010,467
Length 94
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 79.50
Mean single sequence MFE -30.28
Consensus MFE -18.70
Energy contribution -19.50
Covariance contribution 0.80
Combinations/Pair 1.08
Mean z-score -1.93
Structure conservation index 0.62
SVM decision value 0.59
SVM RNA-class probability 0.793132
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 12010373 94 - 22407834
UGUGC---ACACACGCAUCUA----CUUCCCAUCCCCUUGGAGUACGAG-------------------UACGAGCAACUGCAACAUUGUUGCCAUGCUCCUCGCUCCGGAGGUAUCCGGA
.((((---......)))).((----((..(((......)))))))((((-------------------...(((((...(((((...)))))..))))))))).((((((....)))))) ( -29.70)
>DroSec_CAF1 1867 94 - 1
UGUGC---ACACACGCAUCAA----CUUCCCAUCCCCUUGGAGUACGAG-------------------UAUGAGCAACUGCAACAUUGUUGCCAUGCUCCUCGCUCCGGAGGUAUCCGGA
.((((---......))))...----..(((.....(((((((((..(((-------------------((((.(((((.........))))))))))))...))))).)))).....))) ( -32.20)
>DroSim_CAF1 1868 94 - 1
UGUGC---ACACACGCAUCAA----CUUCCCAUCCCCAUGGAGUACGAG-------------------UACGAGCAACUGCAACAUUGUUGCCAUGCUCCUCGCUCCGGAGGUAUCCGGA
.((((---......))))..(----((..((((....))))))).((((-------------------...(((((...(((((...)))))..))))))))).((((((....)))))) ( -28.70)
>DroEre_CAF1 2210 116 - 1
UGUGC---ACACACGCAUCCACAUGCUUCCAUUGCACUG-GAGUGCGAGCACAAGCACCCAGCACCAGCACGAACAACUGCAACAUUGUUGCCAUGCUCCUCGCUCCGGAGGUAUCCGGU
.((((---......))))((..((((((((...((((..-..))))((((...((((....((....))..........(((((...)))))..))))....)))).))))))))..)). ( -34.10)
>DroYak_CAF1 2239 91 - 1
UGUGCAGCACACACGUAUCUA----CUUCCAUUCCCCUU-GG------------------------AGCACGAACAACUGCAACAUUGUUGCCAUGCUGCUCGCUCCGGAGGUAUCCGGU
.(.((((((.....((.((..----.(((((.......)-))------------------------))...))))....(((((...)))))..)))))).)...(((((....))))). ( -26.70)
>consensus
UGUGC___ACACACGCAUCAA____CUUCCCAUCCCCUUGGAGUACGAG___________________UACGAGCAACUGCAACAUUGUUGCCAUGCUCCUCGCUCCGGAGGUAUCCGGA
((((.....)))).((.............(((......)))..............................(((((...(((((...)))))..)))))...)).(((((....))))). (-18.70 = -19.50 +   0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:08 2006