Locus 1894

Sequence ID 2L_DroMel_CAF1
Location 5,196,301 – 5,196,407
Length 106
Max. P 0.994764
window3040

overview

Window 0

Location 5,196,301 – 5,196,407
Length 106
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 91.51
Mean single sequence MFE -37.30
Consensus MFE -34.38
Energy contribution -34.66
Covariance contribution 0.28
Combinations/Pair 1.07
Mean z-score -1.86
Structure conservation index 0.92
SVM decision value 2.51
SVM RNA-class probability 0.994764
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 5196301 106 + 22407834
CCGUGACCCGUCCGGCACACGGGUCGUAUGAGUGAUUUAUAUCGCGUGUGGGCGACAGUGAUGCCAACGACCUGUUUGUCA--------CAUAGGUAAAAUCGA-ACCGGAAAUA
..........(((((((.(((((((((....(((((....))))).....((((.......)))).))))))))).)))).--------....(((........-)))))).... ( -34.60)
>DroSec_CAF1 73541 106 + 1
CCGUGACCCGUCCGGCAAACGGGUCGUAUGAGUGAUUUAUAUCGCGUGUGGGCGACAGUGAUGCCAACGACCUGUUUGUCA--------CAUAGGUAAAAUCGA-ACUGGAAAAA
..........(((((((((((((((((....(((((....))))).....((((.......)))).)))))))))))))).--------....(((........-)))))).... ( -35.20)
>DroSim_CAF1 46341 106 + 1
CCGUGACCCGUCCGGCAAACGGGUCGUAUGAGUGAUUUAUAUCGCGUGUGGGCGACAGUGAUGCCAACGACCUGUUUGUCA--------CAUAGGUAAAAUCGA-ACCGGAAAAA
..........(((((((((((((((((....(((((....))))).....((((.......)))).)))))))))))))).--------....(((........-)))))).... ( -38.10)
>DroEre_CAF1 75820 104 + 1
CCGUGACCCGUCCGGCA-ACGGGUCGUAUGAGUGAUGUGUAUCGCGUGUGGGCGACAGUGAUGCCAACGACCUGGUUGUCA--------CAUGGGUAAAAUCGA-ACCGGAA-AA
(((..((((((..((((-(((((((((........((.(((((((.(((.....))))))))))))))))))).)))))).--------.))))))........-..)))..-.. ( -36.60)
>DroYak_CAF1 75280 114 + 1
CCGUGACCCGUCCGGCAAACGGGUCGUAUGAGUGAUGUGCAUCGCGUGUGGGCGUUAGUGAUGCCAACGACCUGUUUGUCACAUAGUCACAUAGGUAAAAUCGAAAUCGGAA-AA
..(((((......((((((((((((((....(((((....))))).....((((((...)))))).)))))))))))))).....)))))..........(((....)))..-.. ( -42.00)
>consensus
CCGUGACCCGUCCGGCAAACGGGUCGUAUGAGUGAUUUAUAUCGCGUGUGGGCGACAGUGAUGCCAACGACCUGUUUGUCA________CAUAGGUAAAAUCGA_ACCGGAAAAA
..........(((((((((((((((((....(((((....))))).....((((.......)))).)))))))))))))).............(((.........)))))).... (-34.38 = -34.66 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:55 2006