Locus 6500

Sequence ID 3R_DroMel_CAF1
Location 17,117,749 – 17,117,851
Length 102
Max. P 0.999257
window10573

overview

Window 3

Location 17,117,749 – 17,117,851
Length 102
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 92.05
Mean single sequence MFE -38.67
Consensus MFE -34.87
Energy contribution -35.15
Covariance contribution 0.28
Combinations/Pair 1.14
Mean z-score -3.06
Structure conservation index 0.90
SVM decision value 3.47
SVM RNA-class probability 0.999257
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17117749 102 - 27905053
AUAGCGAAAGCGAGGCGCCAGUGAAAGUGCCAU-CCGCCCAAUCAAGACG-CCGGAUGAUUUGAUGAUGGCAGCCAGCGGGCGGAUUCGCAAGCGAAAGCAUAA
...(((((.....(((((........))))).(-((((((.((((((.((-.....)).))))))....((.....))))))))))))))..((....)).... ( -39.10)
>DroSec_CAF1 30026 102 - 1
AUAGCGAAAGCGAGGCGCCAGUGAAAGUGCCAU-CCGCCCAAUCAAGACG-CCGGAUGAUUUGAUGAUGGCAGCCAGCGGGCGGAUUCGCAAGCGAAAGCAUAA
...(((((.....(((((........))))).(-((((((.((((((.((-.....)).))))))....((.....))))))))))))))..((....)).... ( -39.10)
>DroSim_CAF1 29143 102 - 1
AUAGCGAAAGCGAGGCGCCAGUGAAAGUGCCAU-CCGCCCAAUCAAGACG-CCGGAUGAUUUGAUGAUGGCAGCCAGCGGGCGGAUUCGCAAGCGAAAGCAUAA
...(((((.....(((((........))))).(-((((((.((((((.((-.....)).))))))....((.....))))))))))))))..((....)).... ( -39.10)
>DroEre_CAF1 30139 103 - 1
AUAGCGAAAGCGAGGCGCCAGUGAAAGUGCCAU-CCGCCCAAUCAAGACGGCCGGAUGAUUUGAUGAUGGCAGCCAGCGGGCGGAUUCGCAAGCGAAAGCAUAA
...(((((.....(((((........))))).(-((((((.((((((.((......)).))))))....((.....))))))))))))))..((....)).... ( -40.10)
>DroYak_CAF1 42745 103 - 1
AUAGCGAAAGCGAGGCGCCAGUGAAAGUGCCAU-CCGCCCAAUCAAGACGGCCGAAUGAUUUGAUGAUGGCAGCCAGCGGGCGGAUUCGCAAGCGAAAGCAUAA
...(((((.....(((((........))))).(-((((((.((((((.((......)).))))))....((.....))))))))))))))..((....)).... ( -40.10)
>DroAna_CAF1 28707 95 - 1
AUAGCGA-CUCAAGGCGCCACUAAAAGUGUCAGCCCGUUUAAUCAAGACGGC--------CUGAUGAUGGCAGCCAGCGGGCGGAUUCGCAAGCGCAAGCAUAA
...((((-.((.....(((((.....))(((((.((((((.....)))))).--------)))))...))).(((....))).)).))))..((....)).... ( -34.50)
>consensus
AUAGCGAAAGCGAGGCGCCAGUGAAAGUGCCAU_CCGCCCAAUCAAGACG_CCGGAUGAUUUGAUGAUGGCAGCCAGCGGGCGGAUUCGCAAGCGAAAGCAUAA
...(((((.....(((((........)))))...((((((.((((((.((......)).))))))....((.....)))))))).)))))..((....)).... (-34.87 = -35.15 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:22:51 2006