Locus 4507

Sequence ID 3R_DroMel_CAF1
Location 11,957,591 – 11,957,683
Length 92
Max. P 0.578576
window7364

overview

Window 4

Location 11,957,591 – 11,957,683
Length 92
Sequences 5
Columns 92
Reading direction forward
Mean pairwise identity 87.21
Mean single sequence MFE -32.60
Consensus MFE -23.40
Energy contribution -24.68
Covariance contribution 1.28
Combinations/Pair 1.08
Mean z-score -1.70
Structure conservation index 0.72
SVM decision value 0.09
SVM RNA-class probability 0.578576
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11957591 92 + 27905053
UCUUUGGCUAACUUGGCUACUUGGCUGCUUGGCCGCUUGGCUAACUGGCCGAGUGGCAGCCUGAGCAGCUCCAACCUGAUCCACGGAGCGGA
.(((.((((......(((((((((((..((((((....))))))..))))))))))))))).)))..(((((............)))))... ( -41.20)
>DroSec_CAF1 62072 85 + 1
UCUUUGGCUAACUUGGCUACUUGGCUA-------ACCUGGCUAACUGGCCGACUGGCAGCCUGGGCAGCUCCAACCUGUUCCACGGAGCGGA
.....((((..((((((((.((((((.-------....)))))).)))))))..)..))))((((....))))..((((((....)))))). ( -31.40)
>DroSim_CAF1 62165 85 + 1
UCUUUGGCUAACUUGGCUACUUGGCUA-------ACUUGGCUAACAGGCCGACUGGCAGCCUGGGCAGCUCGAACCUGUUCCACGGUGCGGA
...((((((((.((((((....)))))-------).))))))))(((.....)))(((.(((((((((.......))).)))).)))))... ( -28.90)
>DroEre_CAF1 62482 83 + 1
UCUUUGGCUAACU-GGCUACUUGGCUA--------CUUGGCUAACUGGCCGACUGGCAGCCUGGGCAGCUCCAACCUGUUCGAUGGAGCGGA
......((((..(-(((((.((((((.--------...)))))).))))))..)))).((....)).((((((.(......).))))))... ( -31.80)
>DroYak_CAF1 65271 83 + 1
UCUUUGCCUAACU-GGCUACUUGGCUA--------ACUGGCAAACUGGCAAACAGGCAGCCUGGGCAGCUCCAACCUGUUCGAUGGAGCGGA
....((((((..(-((((....)))))--------...(((...(((.....)))...)))))))))((((((.(......).))))))... ( -29.70)
>consensus
UCUUUGGCUAACUUGGCUACUUGGCUA________CUUGGCUAACUGGCCGACUGGCAGCCUGGGCAGCUCCAACCUGUUCCACGGAGCGGA
.((..((((..(.((((((.(((((((..........))))))).))))))...)..))))..))..(((((............)))))... (-23.40 = -24.68 +   1.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:31:02 2006