Locus 8059

Sequence ID 3R_DroMel_CAF1
Location 21,640,846 – 21,640,938
Length 92
Max. P 0.919680
window12973 window12974

overview

Window 3

Location 21,640,846 – 21,640,938
Length 92
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 82.58
Mean single sequence MFE -28.44
Consensus MFE -17.11
Energy contribution -17.12
Covariance contribution 0.00
Combinations/Pair 1.14
Mean z-score -2.71
Structure conservation index 0.60
SVM decision value 0.48
SVM RNA-class probability 0.752449
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21640846 92 + 27905053
UGG-GUUUUCCCAGUUUUUUCCUUCUUGAUUUUCC----------------CUGCCAUUCCGAUAAGGCUGGAAGCUUAUCGGGGCUGAAGGACUUUGACGACCCAAUU
(((-(((.((..((((((((((((..(((.(((((----------------..(((..........))).))))).)))..))))..))))))))..)).))))))... ( -29.10)
>DroSec_CAF1 130193 92 + 1
UGG-GUUUUCCCAGUUUUUUCCUUCCUGAUUUUCU----------------CUGCCAUUCCGAUAAGGCUGGAAGCUUAUCGGGGCUGAAGGACUUUGACGACCCAAUU
(((-(((.((..((((((((...((((((((((((----------------..(((..........))).)))))...)))))))..))))))))..)).))))))... ( -29.50)
>DroSim_CAF1 126793 92 + 1
UGG-GUUUUCCCAGUUUUUUCCUUCCUGAUUUUCU----------------CUGCCAUUCCGAUAAGGCUGGAAGCUUAUCGGGGCUGAAGGACUUUGACGACCCAAUU
(((-(((.((..((((((((...((((((((((((----------------..(((..........))).)))))...)))))))..))))))))..)).))))))... ( -29.50)
>DroEre_CAF1 122733 84 + 1
UAG-GUUUUCCCAGUUU-UUCUUUCCUGAUUUUCU----------------CUGCCAUUUCGAUAAGG-------CUUAUCGGGGCUGAAGGACUUUGACGACCCAAUU
..(-(((.((..(((((-(((..(((((((.....----------------..(((..........))-------)..)))))))..))))))))..)).))))..... ( -24.80)
>DroYak_CAF1 127409 93 + 1
UAGGGUUUUCCCAGUUUUUUCUUUUCAGAUUUUCU----------------CAGCCAUUCCGAUAAGGCUGGUAGCUUAUCGGGGCUGAAGGACUUUGACGACCCAAUU
..(((((.((..((((((.(((....))).....(----------------(((((...((((((((........))))))))))))))))))))..)).))))).... ( -31.70)
>DroAna_CAF1 109764 105 + 1
UGG-GCUUUCCUAUU---CCCUAUUCUGCUCUUUUUUCGACCGCUCCUCAGCAGCCAUUUCGAUAAGGACGAAAGCUUAUCGGGGCUGAAGGACUUUGACGACCCAAUU
(((-((.........---.........((.............))((((...(((((...((((((((..(....)))))))))))))).)))).......).))))... ( -26.02)
>consensus
UGG_GUUUUCCCAGUUUUUUCCUUCCUGAUUUUCU________________CUGCCAUUCCGAUAAGGCUGGAAGCUUAUCGGGGCUGAAGGACUUUGACGACCCAAUU
(((.(((.((..(((.....(((((..(.....)...................(((...((((((((........))))))))))).))))))))..)).))))))... (-17.11 = -17.12 +   0.00)

alignment

Postscript

secondary structure

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dotplot

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Window 4

Location 21,640,846 – 21,640,938
Length 92
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 82.58
Mean single sequence MFE -30.20
Consensus MFE -17.69
Energy contribution -17.72
Covariance contribution 0.03
Combinations/Pair 1.16
Mean z-score -3.71
Structure conservation index 0.59
SVM decision value 1.13
SVM RNA-class probability 0.919680
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21640846 92 - 27905053
AAUUGGGUCGUCAAAGUCCUUCAGCCCCGAUAAGCUUCCAGCCUUAUCGGAAUGGCAG----------------GGAAAAUCAAGAAGGAAAAAACUGGGAAAAC-CCA
...(((((..((..((((((((.((((((((((((.....).))))))))...))).(----------------(.....))..)))))).....))..))..))-))) ( -31.20)
>DroSec_CAF1 130193 92 - 1
AAUUGGGUCGUCAAAGUCCUUCAGCCCCGAUAAGCUUCCAGCCUUAUCGGAAUGGCAG----------------AGAAAAUCAGGAAGGAAAAAACUGGGAAAAC-CCA
...(((((..((..((((((((.((((((((((((.....).))))))))...))).(----------------(.....))..)))))).....))..))..))-))) ( -32.10)
>DroSim_CAF1 126793 92 - 1
AAUUGGGUCGUCAAAGUCCUUCAGCCCCGAUAAGCUUCCAGCCUUAUCGGAAUGGCAG----------------AGAAAAUCAGGAAGGAAAAAACUGGGAAAAC-CCA
...(((((..((..((((((((.((((((((((((.....).))))))))...))).(----------------(.....))..)))))).....))..))..))-))) ( -32.10)
>DroEre_CAF1 122733 84 - 1
AAUUGGGUCGUCAAAGUCCUUCAGCCCCGAUAAG-------CCUUAUCGAAAUGGCAG----------------AGAAAAUCAGGAAAGAA-AAACUGGGAAAAC-CUA
...(((((..((..(((..(((.(((.(((((..-------...)))))....))).(----------------(.....))......)))-..)))..))..))-))) ( -19.30)
>DroYak_CAF1 127409 93 - 1
AAUUGGGUCGUCAAAGUCCUUCAGCCCCGAUAAGCUACCAGCCUUAUCGGAAUGGCUG----------------AGAAAAUCUGAAAAGAAAAAACUGGGAAAACCCUA
....((((..((..(((..((((((((((((((((.....).))))))))...)))))----------------))....(((....)))....)))..))..)))).. ( -33.60)
>DroAna_CAF1 109764 105 - 1
AAUUGGGUCGUCAAAGUCCUUCAGCCCCGAUAAGCUUUCGUCCUUAUCGAAAUGGCUGCUGAGGAGCGGUCGAAAAAAGAGCAGAAUAGGG---AAUAGGAAAGC-CCA
...(((((..((....((((((.((..(((((((........)))))))...((((((((....))))))))........)).))...)))---)....))..))-))) ( -32.90)
>consensus
AAUUGGGUCGUCAAAGUCCUUCAGCCCCGAUAAGCUUCCAGCCUUAUCGGAAUGGCAG________________AGAAAAUCAGGAAAGAAAAAACUGGGAAAAC_CCA
...(((((..((..(((..(((.(((((((((((........))))))))...)))...................(.....)......)))...)))..))..)).))) (-17.69 = -17.72 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:01:35 2006