Locus 4545

Sequence ID 3R_DroMel_CAF1
Location 12,045,193 – 12,045,297
Length 104
Max. P 0.542519
window7421

overview

Window 1

Location 12,045,193 – 12,045,297
Length 104
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 75.72
Mean single sequence MFE -32.75
Consensus MFE -14.18
Energy contribution -14.74
Covariance contribution 0.56
Combinations/Pair 1.29
Mean z-score -1.79
Structure conservation index 0.43
SVM decision value 0.02
SVM RNA-class probability 0.542519
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12045193 104 + 27905053
GCCACGGAGCAGCAAAAACACAUAG---CGUUGUCAU------GGCAAAAC--UCACUCGGUUUUGAUCC-CAGCUCGAAUCUUUGGUCAAAUCGAGAGACGAAAG----CCGAGUGCUU
((((..((.((((............---.)))))).)------))).....--.(((((((((((..((.-...(((((.............))))).))..))))----)))))))... ( -29.84)
>DroSim_CAF1 16433 102 + 1
UCCACGGAG---CAAAAACACUGAG---CGUUGCCAU------GGCAAAAC--UCACUCGGUUUUGAUCCCCAACUCGAAUCUUUGGUCAAAUCGAGAGACGAAAG----CCGAGAGCUU
......(((---(........((((---..((((...------.))))..)--)))(((((((((..((.....(((((.............))))).))..))))----))))).)))) ( -29.82)
>DroEre_CAF1 15737 104 + 1
UCCACGGAGCAGCAAAAACACAGAG---CGUUGCCAU------GGCAAAAC--UCACUCGGUUUUGAUCC-CUGCUCGAUUCUCUAGUCAAAUCGAGAGACGAAAA----CCGAGAGCUC
......((((............(((---..((((...------.))))..)--)).(((((((((..((.-...(((((((.........))))))).))..))))----))))).)))) ( -34.80)
>DroYak_CAF1 15987 104 + 1
UCCACGGAGCAGCAAAAACACAGAG---CGUUGCCAU------GGCAAAAC--UCAGUCGGUUUUGAUCC-CAGCUCGAUUCUUUGGACAAAUCGAGAGACGAAAG----CCGAGAGCUU
......((((............(((---..((((...------.))))..)--))..((((((((..((.-...(((((((.........))))))).))..))))----))))..)))) ( -30.40)
>DroAna_CAF1 15198 118 + 1
UCCAAGGAGCAUCGAGAACACAAGCCACGGUUGCCAUGGCCAUGGCAAAGUAGUUG-CCUGCUCUGAUCC-GAGCUCAGGACUUGGACCAAGUCGAACGGGCGAAGCGUCCAAAGAGCAU
.....((((((............((((.((...)).))))...(((((.....)))-)))))))).....-..((((..((((((...))))))....(((((...)))))...)))).. ( -38.90)
>consensus
UCCACGGAGCAGCAAAAACACAGAG___CGUUGCCAU______GGCAAAAC__UCACUCGGUUUUGAUCC_CAGCUCGAAUCUUUGGUCAAAUCGAGAGACGAAAG____CCGAGAGCUU
......((((....................(((((........)))))........(((((..((((........)))).(((((.(......).)))))..........))))).)))) (-14.18 = -14.74 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:56 2006