Locus 1687

Sequence ID 3L_DroMel_CAF1
Location 4,940,308 – 4,940,425
Length 117
Max. P 0.998214
window2604

overview

Window 4

Location 4,940,308 – 4,940,425
Length 117
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 78.58
Mean single sequence MFE -38.02
Consensus MFE -22.09
Energy contribution -22.37
Covariance contribution 0.28
Combinations/Pair 1.21
Mean z-score -3.09
Structure conservation index 0.58
SVM decision value 3.04
SVM RNA-class probability 0.998214
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4940308 117 + 23771897
CACAGCAG---GGCAAUGUUGCCGUUGCAAGAGCAACAUCAGCUAAAUUGAGAACGGCAACAUGAUCAAAAUGUGGGGCAGCAGCAAUAUUUGGUCAUAUGGUAACAAGCUGUGGCCAGG
((((((..---......(((((((((.(((.(((.......)))...)))..)))))))))(((((((((.(((...((....)).))))))))))))..........))))))...... ( -40.90)
>DroSec_CAF1 161467 120 + 1
CACAGGGGUCAGGCAAUGUUGCCGUUGCAAGAGCAACAUCAGCUAAAUUGAGAACGGCAACACGAUCAAAAUGUGGCGCAGCAGCAAUAUUUGGUCAUAUGGUAACAAGCUGUGACCAGG
......((((((((..((((((((((.(((.(((.......)))...)))..)))))))))).(((((((.(((.((......)).))))))))))............))).)))))... ( -41.70)
>DroSim_CAF1 171512 112 + 1
CACAGGGGUGAGGCAAUGUUGCCGUUGCAAGAGCAACAUCAGCUAAAUUGCGAACGGCAACACGAUCAAAAUGUGGAGCAGCAGCAAUAUUUGGUCAUCUGGUAACAAGUUA--------
..((((..........((((((((((((((.(((.......)))...)))).)))))))))).(((((((.(((...((....)).)))))))))).))))...........-------- ( -35.10)
>DroEre_CAF1 162752 98 + 1
---AGGGGUGGGGCAAUGUUGCCGUUGCAAGAGCAACAUCCGCCAAAUUGG-CACAGCAACAUGGUC------------------AAUAUUUGGCCUUUUGGUAACAAACUGUGACCAGA
---...(((((((((....))))(((((....)))))..)))))...((((-(((((......((((------------------(.....))))).((((....))))))))).)))). ( -37.90)
>DroYak_CAF1 167046 120 + 1
AACAAGGAUGGGGCAAUGUUGCCCUUGCAAGAGCAACAUCAGCCAAAUUGGGAACCGUAACAUGAUCAAAAUGUGGGGCAGCAGCAAUAUUUGGCCAUCUGGCAACAAACAGUGACCAGA
......(((((((((....)))))((((....)))))))).(((((((......((...((((.......)))).))((....))...)))))))..(((((..((.....))..))))) ( -34.50)
>consensus
CACAGGGGUGAGGCAAUGUUGCCGUUGCAAGAGCAACAUCAGCUAAAUUGAGAACGGCAACAUGAUCAAAAUGUGGGGCAGCAGCAAUAUUUGGUCAUAUGGUAACAAGCUGUGACCAGA
................((((((((((((....)))))....(((((((........((..(((.........)))..)).........))))))).....)))))))............. (-22.09 = -22.37 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:13:42 2006