Locus 1776

Sequence ID 2R_DroMel_CAF1
Location 6,636,154 – 6,636,274
Length 120
Max. P 0.917692
window2955

overview

Window 5

Location 6,636,154 – 6,636,274
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 89.75
Mean single sequence MFE -48.08
Consensus MFE -40.18
Energy contribution -40.58
Covariance contribution 0.40
Combinations/Pair 1.06
Mean z-score -1.77
Structure conservation index 0.84
SVM decision value 1.12
SVM RNA-class probability 0.917692
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 6636154 120 + 20766785
GAUCCACCACCCGUUUGCCAAUGCACAUGCGGGGUCCAAAGCCAAAGGGAAGGAACGUGAAGGGGCUGACCUGCAUCUUCUUUCCGGUCUCCGGAUCCCUUAACCAGCGCUCCGGCAGAA
.............((((((...((....))(((((((..((((....((((((((.(((.(((......))).))).)))))))))).))..)))))))..............)))))). ( -41.80)
>DroSec_CAF1 188250 120 + 1
GAUCCACCACUCGCUUGCCAAUGCACAUGCGGGGUCCAAAGCCGAAGGGAAGGAAGGUGAAGGGGCUGACCUGCAUCUUCUUUCCGGUCUCCGGAUCCCUUAGCCAGCGCUCCGGCAGAA
..((..((...((((.((....((....))(((((((..((((....((((((((((((.(((......))).)))))))))))))).))..)))))))...)).))))....))..)). ( -47.70)
>DroSim_CAF1 175914 120 + 1
GGUCCACCACUCGCUUGCCAAUGCACAUGCGGGGUCCAAAGCCGAAGGGAAGGAAGGUGAAGGGGCUGACCUGCAUCUUCUUUCCGGUCUCCGGAUCCCUGAGCCAGCGCUCCGGCAGAA
((....))......(((((...((....))(((((((..((((....((((((((((((.(((......))).)))))))))))))).))..))))))).((((....)))).))))).. ( -50.60)
>DroEre_CAF1 186439 120 + 1
GGUCCACCACUCGCUUGCCAAUGCACAUGCGUGGUCCAAAGCCGAAGGGCACGAAGGUGAAGGGGCUGACCUGCAUCUUCUUGCCGGUCUCCGGAUCCCUGAGCCAGCGUUCCGGCAGAA
((.((((((...((........))...)).)))).))...((((...((((.(((((((.(((......))).))))))).))))((.(((.((...)).))))).......)))).... ( -47.50)
>DroAna_CAF1 203259 120 + 1
GGUCCACCAAUCUCUUGCCGAUGCACAUCCGAGGUCCGAAACCGAAAGGCAGGAAGGUGAAGGGGCUCACCUGCAUCUUCUUGCCAGUUUCGGGAUCGCGAAGCCAGCGUUCUGGCAGGA
((....))....((((((((((((.(.(((((..((((((((.....((((((((((((.(((......))).)))))))))))).)))))))).))).)).)...)))))..))))))) ( -52.80)
>consensus
GGUCCACCACUCGCUUGCCAAUGCACAUGCGGGGUCCAAAGCCGAAGGGAAGGAAGGUGAAGGGGCUGACCUGCAUCUUCUUUCCGGUCUCCGGAUCCCUGAGCCAGCGCUCCGGCAGAA
..............(((((...((....))(((((((..((((....((((((((((((.(((......))).)))))))))))))).))..)))))))..............))))).. (-40.18 = -40.58 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:12:54 2006