Locus 3961

Sequence ID X_DroMel_CAF1
Location 10,518,757 – 10,518,893
Length 136
Max. P 0.683314
window6507 window6508

overview

Window 7

Location 10,518,757 – 10,518,858
Length 101
Sequences 4
Columns 116
Reading direction forward
Mean pairwise identity 82.64
Mean single sequence MFE -17.75
Consensus MFE -12.30
Energy contribution -12.12
Covariance contribution -0.19
Combinations/Pair 1.20
Mean z-score -1.64
Structure conservation index 0.69
SVM decision value 0.18
SVM RNA-class probability 0.621125
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10518757 101 + 22224390
GUGGUGACUAAUUGUCGAUAAACAUGCUAAAAAUACAUCC-----------UAAUA-AAUUUCACAUAGCUAACAUGUUUAUUUUACCACUUGAUUAAAACAACAUCUACUUU---
((((((((.....)))(((((((((((((...........-----------.....-.........))))....)))))))))..))))).......................--- ( -15.81)
>DroSec_CAF1 50273 101 + 1
GUGGUGACUAAUUGUCGAUAAACAUGCUAAAAAUACAUGC-----------UACUA-AAUUUCAAAUAGCUAACAUGUUUAUUUUACCACUUGAUUAAAACAACAUCUACUUU---
((((((((.....)))((((((((((.((.........((-----------((...-.........)))))).))))))))))..))))).......................--- ( -17.50)
>DroSim_CAF1 53797 101 + 1
GUGGUGACUAAUUGUCGAUAAACAUGCUAAAAAUACAUGA-----------UACUA-AAUUUCAAAUAGCUAACAUGUUUAUUUUACCACUUGAUUAAAACAACAUCUACUUU---
((((((((.....)))((((((((((.((....((..(((-----------.....-....)))..))..)).))))))))))..))))).......................--- ( -17.30)
>DroEre_CAF1 52216 116 + 1
GUGGUCCAAAAUUGUCACUGAACAUGCUAAAAUCACAUGCCCGUGGUAAGCUAAUAACAUUUCGCAUAGCUACUGUGUUUAGUUUAGCACUUGAUUAAAGCAACAUCUACUGUUUA
((((........(((......)))((((..(((((.......(((.((((((((.........((((((...)))))))))))))).))).)))))..))))....))))...... ( -20.40)
>consensus
GUGGUGACUAAUUGUCGAUAAACAUGCUAAAAAUACAUGC___________UAAUA_AAUUUCAAAUAGCUAACAUGUUUAUUUUACCACUUGAUUAAAACAACAUCUACUUU___
(((((((.........(((((((((((((.....................................))))....)))))))))))))))).......................... (-12.30 = -12.12 +  -0.19)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 8

Location 10,518,797 – 10,518,893
Length 96
Sequences 3
Columns 96
Reading direction forward
Mean pairwise identity 97.92
Mean single sequence MFE -15.83
Consensus MFE -14.83
Energy contribution -15.17
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.79
Structure conservation index 0.94
SVM decision value 0.31
SVM RNA-class probability 0.683314
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10518797 96 + 22224390
UAAUAAAUUUCACAUAGCUAACAUGUUUAUUUUACCACUUGAUUAAAACAACAUCUACUUUUUAGCCUAACUAAAUGGUUAGGCAAUUGUGGAUUA
........((((((.........(((((...(((.....)))...)))))..............((((((((....))))))))...))))))... ( -18.20)
>DroSec_CAF1 50313 96 + 1
UACUAAAUUUCAAAUAGCUAACAUGUUUAUUUUACCACUUGAUUAAAACAACAUCUACUUUUUAGCCUAACUAAAUGGUUAGGCAAUUGUGGAUUA
.......................(((((...(((.....)))...)))))..((((((...((.((((((((....))))))))))..)))))).. ( -17.40)
>DroSim_CAF1 53837 96 + 1
UACUAAAUUUCAAAUAGCUAACAUGUUUAUUUUACCACUUGAUUAAAACAACAUCUACUUUUUAGCCUAACUAAAUGGUUAGUCAAUUGUGGAUUA
..................................(((((((((((...........(((.(((((.....))))).))))))))))..)))).... ( -11.90)
>consensus
UACUAAAUUUCAAAUAGCUAACAUGUUUAUUUUACCACUUGAUUAAAACAACAUCUACUUUUUAGCCUAACUAAAUGGUUAGGCAAUUGUGGAUUA
.......................(((((...(((.....)))...)))))..((((((...((.((((((((....))))))))))..)))))).. (-14.83 = -15.17 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:52 2006