Locus 7535

Sequence ID 3R_DroMel_CAF1
Location 20,163,684 – 20,163,804
Length 120
Max. P 0.541815
window12162

overview

Window 2

Location 20,163,684 – 20,163,804
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 82.94
Mean single sequence MFE -42.87
Consensus MFE -30.05
Energy contribution -30.83
Covariance contribution 0.78
Combinations/Pair 1.33
Mean z-score -1.60
Structure conservation index 0.70
SVM decision value 0.02
SVM RNA-class probability 0.541815
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20163684 120 + 27905053
UGGGAUCGGCCAUGGGAGAAGGUACUGGACAACAGUAAUCCGCCAUUCACCAAGUGGUAUGUGGGUGGCUACCUGAAUGCCUGCUACAAUUCCAUUGAUCGCCACAUACUGGCCGGCCGC
..((.((((((.(((..((((((((((.....)))).....))).))).)))...((((((((((((((.............)))))...((....))...))))))))))))))))).. ( -42.72)
>DroVir_CAF1 4786 120 + 1
UGGGACAGGCCAUGGCAGCAGGUGCUGGAUAACAGCAAUCAACCAUUUACCAAAUGGUAUGUGGGCGGCUAUUUGAAUGCCUGCUACAAUGCCAUAGAUAGACACAUACUGGCCGGCAGG
.......((((((((((((((((((((.....))))......((((.((((....)))).))))..............)))))).....))))))((.((......))))))))...... ( -40.10)
>DroGri_CAF1 5437 120 + 1
UGGGACAGGCCUUGGCAGCAAGUGCUGGAUAACAGCAAUCCGCCAUUUACCAAAUGGUAUGUGGGUGGGUAUUUGAACGCCUGCUACAAUGCCAUCGACAGGCACAUUCUAGCGGGCAGG
........((....))..(((((((((.....)))).(((((((...((((....))))....))))))))))))...((((((((.((((((.......))))..)).))))))))... ( -44.70)
>DroWil_CAF1 4870 120 + 1
UGGGAUCGUCCGUGGCAGCAGGUGUUGGAUGUAAGCAAUCCACCAUUUACCAAAUGGUAUGUGGGUGGCUAUCUAAAUGCCUGUUACAAUGCCAUCGAUAGGCAUAUCCUGGCUGGUCGU
...(((((.(((.((.((((((((((((((...(((.((((((....((((....)))).)))))).))))))).))))))))))...(((((.......)))))..))))).))))).. ( -44.30)
>DroMoj_CAF1 5006 120 + 1
UGGGAUAGGCCCUGGCAGCAGGUGCUGGACAACAGCAAUUCGCCGUUUACCAAAUGGUAUGUGGGCGGUUACUUGAAUGCCUGCUACAAUGCCGUGGACAGGCACAUACUGGCCGGCAGG
........(((..(((..(((((((((.....))))...(((((...((((....))))....)))))..)))))..((((((((((......)))).)))))).......))))))... ( -45.10)
>DroAna_CAF1 4360 120 + 1
UGGGACCGACCUUGGCAGCAGGUCCUGGACAACAGCAAUCCUCCUUUCACAAAGUGGUAUGUGGGGGGAUACUUGAAUGCCUGCUACAAUGCCAUCGAUCGGCACAUCCUUGCCGGCAGG
.....((..((.(((((((((((.(((.....)))(((...((((..((((........))))..))))...)))...)))))).....)))))......((((......))))))..)) ( -40.30)
>consensus
UGGGACAGGCCAUGGCAGCAGGUGCUGGACAACAGCAAUCCGCCAUUUACCAAAUGGUAUGUGGGUGGCUACUUGAAUGCCUGCUACAAUGCCAUCGAUAGGCACAUACUGGCCGGCAGG
........(((.(((((((((((((((.....))))...(((((...((((....))))....)))))..........)))))).....)))))......(((........))))))... (-30.05 = -30.83 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:48:14 2006