Locus 4677

Sequence ID 3R_DroMel_CAF1
Location 12,328,357 – 12,328,517
Length 160
Max. P 0.898492
window7679 window7680

overview

Window 9

Location 12,328,357 – 12,328,477
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 90.56
Mean single sequence MFE -39.53
Consensus MFE -31.63
Energy contribution -30.53
Covariance contribution -1.10
Combinations/Pair 1.16
Mean z-score -3.09
Structure conservation index 0.80
SVM decision value 1.00
SVM RNA-class probability 0.898492
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12328357 120 - 27905053
UUUGAAUUCGGUUUCAGCUCGAGCGGGUUCAUGUUCGAAGCGAGCAAGUUCGAGUUCGUAUCGAACUUAAGAGAGCCAACUAAAAGAGUGGGCUAAGAGUUUAAGGAACUGUUUAUAUAU
........(((((((.(((((((((......)))))).)))((((((((((((.......)))))))).....((((.(((.....))).))))....))))..)))))))......... ( -37.00)
>DroSec_CAF1 19502 120 - 1
UUUGAAUUUGGUUUCGGCUCGAGCGGGCUCAUGUUCGAAGCGAGCCGGUUCGAGUUCGAAUCGAACUUAAGAGAGCAAACUAAAAGAGUGGGUGAAGAGUUUGAAGAACAGUUUCUAUAC
(((((((((((..((((((((..(((((....)))))...)))))))).)))))))))))((((((((......((..(((.....)))..))...))))))))((((....)))).... ( -41.50)
>DroSim_CAF1 15534 120 - 1
UUUGAAUUUGGUGCCAGCUCGAGCGAGCUCAUGUUCGAAGCGAGCCGGUUCGAGUUCGAAUCGAACUUAAGAGAGCAAACUAAAAGAGUGGGUGAAGAGUUUGAAGAACAGUUUCUAUAC
(((((((((((.(((.(((((..(((((....)))))...))))).))))))))))))))((((((((......((..(((.....)))..))...))))))))((((....)))).... ( -40.10)
>consensus
UUUGAAUUUGGUUUCAGCUCGAGCGGGCUCAUGUUCGAAGCGAGCCGGUUCGAGUUCGAAUCGAACUUAAGAGAGCAAACUAAAAGAGUGGGUGAAGAGUUUGAAGAACAGUUUCUAUAC
(((((((((....((.((((.((...((((..((((((..(((((........)))))..))))))......))))...))....)))).))....)))))))))............... (-31.63 = -30.53 +  -1.10)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 12,328,397 – 12,328,517
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 94.44
Mean single sequence MFE -41.43
Consensus MFE -36.48
Energy contribution -35.93
Covariance contribution -0.55
Combinations/Pair 1.11
Mean z-score -1.99
Structure conservation index 0.88
SVM decision value 0.28
SVM RNA-class probability 0.665474
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12328397 120 - 27905053
UGGGCAACAUAUACAACGCUUUUGGCGUCGCUGUUUUGGUUUUGAAUUCGGUUUCAGCUCGAGCGGGUUCAUGUUCGAAGCGAGCAAGUUCGAGUUCGUAUCGAACUUAAGAGAGCCAAC
..(((..........((((.....)))).((((((((((...((((((((.((.......)).))))))))...))))))).)))((((((((.......))))))))......)))... ( -38.10)
>DroSec_CAF1 19542 120 - 1
UGGGCAACAUAUACAACGCUUUUGGCGUCGCUGUUUUGGUUUUGAAUUUGGUUUCGGCUCGAGCGGGCUCAUGUUCGAAGCGAGCCGGUUCGAGUUCGAAUCGAACUUAAGAGAGCAAAC
..(....).......((((.....)))).(((.((((((((((((((((((..((((((((..(((((....)))))...)))))))).)))))))))....)))).))))).))).... ( -43.80)
>DroSim_CAF1 15574 120 - 1
UGGGCAACAUAUACAACGCUUUUGGCGUCGCUGUUUUGGUUUUGAAUUUGGUGCCAGCUCGAGCGAGCUCAUGUUCGAAGCGAGCCGGUUCGAGUUCGAAUCGAACUUAAGAGAGCAAAC
..(....).......((((.....)))).(((.((((((((((((((((((.(((.(((((..(((((....)))))...))))).))))))))))))....)))).))))).))).... ( -42.40)
>consensus
UGGGCAACAUAUACAACGCUUUUGGCGUCGCUGUUUUGGUUUUGAAUUUGGUUUCAGCUCGAGCGGGCUCAUGUUCGAAGCGAGCCGGUUCGAGUUCGAAUCGAACUUAAGAGAGCAAAC
..(....).......((((.....)))).(((.((((((((((((((((((..((.(((((..(((((....)))))...))))).)).)))))))))....)))).))))).))).... (-36.48 = -35.93 +  -0.55)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:12 2006