Locus 6411

Sequence ID 2R_DroMel_CAF1
Location 20,049,856 – 20,049,968
Length 112
Max. P 0.959454
window10229

overview

Window 9

Location 20,049,856 – 20,049,968
Length 112
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 77.24
Mean single sequence MFE -30.43
Consensus MFE -13.88
Energy contribution -14.76
Covariance contribution 0.88
Combinations/Pair 1.10
Mean z-score -2.35
Structure conservation index 0.46
SVM decision value 1.50
SVM RNA-class probability 0.959454
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 20049856 112 - 20766785
CACCCGCCGUCCGCAGUCCGGACA------UUCCCAUUCCCAGUCGCACAAUUGUUGUUAUUUAACAGAAGCGAAUACAAUUAAUGGCCAAUUUUGGUCAUUGCCGUACCGGGUGGGA
..(((((((((((.....))))).------.............((((....((((((.....))))))..)))).(((...(((((((((....)))))))))..)))...)))))). ( -36.80)
>DroSec_CAF1 9661 105 - 1
CGCCCGCCGCC-------CGGACA------UUCCCAUUCCCAGUCGCACAAUUGUUGUUAUUUAACAGAAGCGAACACAAUUAAUGGCCAAUUUUGGUCAUUGCCGUACCGGGUGGGA
......(((((-------(((((.------.............((((....((((((.....))))))..)))).......(((((((((....)))))))))..)).)))))))).. ( -35.90)
>DroEre_CAF1 10098 94 - 1
CCC-CGC-----------CGGACA------UU------CCCAGUCACACACUUGUUGUUAUUUAACAGAAGCGAAUACAAUUAAUGGCCAAUUUUGGUCAUUGCCGUACCUGGCGGGA
.((-(((-----------(((...------..------..........(.(((.(((((....)))))))).)..(((...(((((((((....)))))))))..))).)))))))). ( -30.60)
>DroYak_CAF1 10053 94 - 1
CCC-CGC-----------CGGACU------UU------CCCAGUCCCACAAUUGUUGUUAUUUAACAGAAGCGAAUACAAUUAAUGGCCAAUUUUGGUCAUUGCCGUACCUGGUGGGG
(((-(((-----------((((((------..------...))))).....((((((.....)))))).......(((...(((((((((....)))))))))..)))...))))))) ( -32.30)
>DroAna_CAF1 12098 101 - 1
------C-----------CGGACAAUCCCAUUCCCAUUCCCAUUCCCAAGAUUGUUGUUAUUAAACAGAACCGAAUCGAAUCAAUGCCUCAUUUUGGUCAUCGCCUUAUUGGGUGAAA
------.-----------..(((((((......................)))))))...........((.(((((..((.........))..))))))).((((((....)))))).. ( -16.55)
>consensus
CCC_CGC___________CGGACA______UUCCCAUUCCCAGUCCCACAAUUGUUGUUAUUUAACAGAAGCGAAUACAAUUAAUGGCCAAUUUUGGUCAUUGCCGUACCGGGUGGGA
......................................(((..........((((((.....))))))..............((((((((....))))))))(((......)))))). (-13.88 = -14.76 +   0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:10:19 2006