Locus 9756

Sequence ID 3R_DroMel_CAF1
Location 25,843,793 – 25,843,903
Length 110
Max. P 0.991139
window15582 window15583

overview

Window 2

Location 25,843,793 – 25,843,903
Length 110
Sequences 3
Columns 115
Reading direction forward
Mean pairwise identity 81.12
Mean single sequence MFE -40.10
Consensus MFE -24.71
Energy contribution -26.36
Covariance contribution 1.64
Combinations/Pair 1.08
Mean z-score -2.23
Structure conservation index 0.62
SVM decision value 0.55
SVM RNA-class probability 0.779655
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25843793 110 + 27905053
UGUGGGUCUAUGAUCGAGUGGCCAGUAGCCAUUAGGGCAACUCCUUGCCCCUUCUGGCUGGCCAUCCGACUCCCGACAAUGGAUGGCUUGGAUG-----CGCUUUGAAUGAAUGU
.(((.(((((...(((..((((((...((((..(((((((....))).))))..))))))))))..))).(((.......))).....))))).-----)))............. ( -38.80)
>DroEre_CAF1 1664 109 + 1
UGCGGGUCAUUGAUCGAAUGGCCAGUACCCAUUAGGGCAACUUCUUGCCGC-CAUGACUGGCCAUCCGAGUCCCGACAAUGGAUGGCUUGGAUG-----CGCUUUGAAUGAAUGU
.((((((.((((..(....)..)))))))).....(((((....)))))))-(((....(((((((((((((((......))..))))))))))-----.)))....)))..... ( -38.70)
>DroYak_CAF1 1625 101 + 1
UGUGUGUCUAUGAUCGAAUGGCCAGUGCCCAUUAGGGCA--------------GUGGCUAGCCAUCCGAGUCCCGACAAUGGAUGGCUUGGAUGAAUGACGCUUUGAAUGAAUGU
...(((((..(.(((.((((((((.(((((....)))))--------------.))))))((((((((.((....))..)))))))))).))).)..)))))............. ( -42.80)
>consensus
UGUGGGUCUAUGAUCGAAUGGCCAGUACCCAUUAGGGCAACU_CUUGCC_C__AUGGCUGGCCAUCCGAGUCCCGACAAUGGAUGGCUUGGAUG_____CGCUUUGAAUGAAUGU
.(((...............(((((((.........(((((....))))).......)))))))(((((((((((......))..)))))))))......)))............. (-24.71 = -26.36 +   1.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 25,843,793 – 25,843,903
Length 110
Sequences 3
Columns 115
Reading direction reverse
Mean pairwise identity 81.12
Mean single sequence MFE -36.93
Consensus MFE -27.33
Energy contribution -27.56
Covariance contribution 0.23
Combinations/Pair 1.09
Mean z-score -2.86
Structure conservation index 0.74
SVM decision value 2.25
SVM RNA-class probability 0.991139
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25843793 110 - 27905053
ACAUUCAUUCAAAGCG-----CAUCCAAGCCAUCCAUUGUCGGGAGUCGGAUGGCCAGCCAGAAGGGGCAAGGAGUUGCCCUAAUGGCUACUGGCCACUCGAUCAUAGACCCACA
.............((.-----.......))........(((..((.(((..((((((((((...(((((((....)))))))..))))...))))))..)))))...)))..... ( -38.10)
>DroEre_CAF1 1664 109 - 1
ACAUUCAUUCAAAGCG-----CAUCCAAGCCAUCCAUUGUCGGGACUCGGAUGGCCAGUCAUG-GCGGCAAGAAGUUGCCCUAAUGGGUACUGGCCAUUCGAUCAAUGACCCGCA
.............(((-----(......))........((((....(((((((((((((((((-(((((.....))))))...)))...)))))))))))))....))))..)). ( -37.50)
>DroYak_CAF1 1625 101 - 1
ACAUUCAUUCAAAGCGUCAUUCAUCCAAGCCAUCCAUUGUCGGGACUCGGAUGGCUAGCCAC--------------UGCCCUAAUGGGCACUGGCCAUUCGAUCAUAGACACACA
.............(.(((.........((((((((...((....))..)))))))).((((.--------------(((((....))))).))))............))).)... ( -35.20)
>consensus
ACAUUCAUUCAAAGCG_____CAUCCAAGCCAUCCAUUGUCGGGACUCGGAUGGCCAGCCAC__G_GGCAAG_AGUUGCCCUAAUGGGUACUGGCCAUUCGAUCAUAGACCCACA
......................................(((..((.((((((((((((..................(((((....)))))))))))))))))))...)))..... (-27.33 = -27.56 +   0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:41:27 2006