Locus 500

Sequence ID 2R_DroMel_CAF1
Location 2,738,202 – 2,738,295
Length 93
Max. P 0.799051
window950

overview

Window 0

Location 2,738,202 – 2,738,295
Length 93
Sequences 5
Columns 102
Reading direction reverse
Mean pairwise identity 75.91
Mean single sequence MFE -28.90
Consensus MFE -18.28
Energy contribution -20.08
Covariance contribution 1.80
Combinations/Pair 1.16
Mean z-score -1.71
Structure conservation index 0.63
SVM decision value 0.61
SVM RNA-class probability 0.799051
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2738202 93 - 20766785
---------GAGAGCCACUGCGUCCGCACAUGAUUAUUAUUAGUUAUGAUGAUGUAUCCCUUUAAUGGUUCCGAAUGGGGAGUUUGGACGUGACCGAAGGAU
---------..........((((((.((((((((((....)))))))).)).....(((((....((....))...)))))....))))))........... ( -23.40)
>DroSec_CAF1 22372 93 - 1
---------GGGAGCCACUGCGUCCGCACAUGAUUAUUAUUAGUUAUGAUGAUGUAUCCCUUUAAUGGUUCCGAAUGGGGAGUGUGGACGUGACCGGUGGAU
---------.....(((((((((((((((...((((((((.....))))))))...(((((....((....))...)))))))))))))))....))))).. ( -35.40)
>DroEre_CAF1 13598 90 - 1
---------GGCAGCCACUCCGUCCGCACAUGAUUAUUAUUAGUUAUGAUGAUGUAUCCCUUUAAUGGUUCCGAAUGGGGAGUGUGGACGUGACCGGCG---
---------....(((..(((((((((((...((((((((.....))))))))...(((((....((....))...)))))))))))))).))..))).--- ( -34.90)
>DroWil_CAF1 7816 86 - 1
AGGUCCACACGUGGCC--------ACCGAAUGAUUAUUAUUAGUUAUGAUGAUGUAUCCUUUUAAUGUCUGCAAGAGGGGGUGCAGGAUCUCAC--------
.((.(((....)))))--------...(((((((((....)))))))(((..(((((((((((..((....)).)))))))))))..)))))..-------- ( -23.90)
>DroYak_CAF1 23108 93 - 1
---------GCGAGCCACUGCCUCCCCACAUGAUUAUUAUUAGUUAUGAUGAUGUAUCCCUUUAAUGCCGCCGAAUGGGGAGUGUGGACGUGACCGGAGGAU
---------(((..((((...(((((((((((((((....)))))))).....((((.......)))).......))))))).)))).)))........... ( -26.90)
>consensus
_________GGGAGCCACUGCGUCCGCACAUGAUUAUUAUUAGUUAUGAUGAUGUAUCCCUUUAAUGGUUCCGAAUGGGGAGUGUGGACGUGACCGGAGGAU
...................((((((((((...((((((((.....))))))))...(((((....((....))...)))))))))))))))........... (-18.28 = -20.08 +   1.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:16 2006