Locus 5089

Sequence ID 2L_DroMel_CAF1
Location 14,519,590 – 14,519,722
Length 132
Max. P 0.999634
window8100 window8101 window8102

overview

Window 0

Location 14,519,590 – 14,519,682
Length 92
Sequences 5
Columns 92
Reading direction forward
Mean pairwise identity 99.57
Mean single sequence MFE -25.54
Consensus MFE -24.60
Energy contribution -24.60
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -3.35
Structure conservation index 0.96
SVM decision value 3.79
SVM RNA-class probability 0.999614
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14519590 92 + 22407834
GACGGUUUUUGAGUGACAGCAGCGCGGCAACACCUAAUUCAAUUUAACAAUUCAUUUAUCAUAAUCAGGCAUCAAGCCGUUGUCACUCACAA
.........(((((((((((((.(.(....).)))................................(((.....))))))))))))))... ( -24.60)
>DroSec_CAF1 51204 92 + 1
GACGGUUUUUGAGUGACAGCAGCGCGGCAACACCUAAUUCAAUUUAACAAUUCAUUUAUCAUAAUCAGGCAUCAAGCCGUUGUCACUCACAA
.........(((((((((((((.(.(....).)))................................(((.....))))))))))))))... ( -24.60)
>DroSim_CAF1 36863 92 + 1
GACGGUUUUUGAGUGACAGCAGCGCGGCAACACCUAAUUCAAUUUAACAAUUCAUUUAUCAUAAUCAGGCAUCAAGCCGUUGUCACUCACAA
.........(((((((((((((.(.(....).)))................................(((.....))))))))))))))... ( -24.60)
>DroEre_CAF1 47909 92 + 1
GACGGUUUUUGAGUGACAGCAGCGCGGCAACACCUAAUUCAAUUUAACAAUUCAUUUAUCAUAAUCAGGCAUCAAGCCGUUGUCACUCACAA
.........(((((((((((((.(.(....).)))................................(((.....))))))))))))))... ( -24.60)
>DroYak_CAF1 41949 92 + 1
GACGGUUUGUGAGUGACAGCAGCGCGGCAACACCUAAUUCAAUUUAACAAUUCAUUUAUCAUAAUCAGGCAUCAAGCCGUUGUCACUCACAA
......((((((((((((((((.(.(....).)))................................(((.....))))))))))))))))) ( -29.30)
>consensus
GACGGUUUUUGAGUGACAGCAGCGCGGCAACACCUAAUUCAAUUUAACAAUUCAUUUAUCAUAAUCAGGCAUCAAGCCGUUGUCACUCACAA
.........(((((((((((((.(.(....).)))................................(((.....))))))))))))))... (-24.60 = -24.60 +  -0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 14,519,590 – 14,519,682
Length 92
Sequences 5
Columns 92
Reading direction reverse
Mean pairwise identity 99.57
Mean single sequence MFE -31.20
Consensus MFE -30.14
Energy contribution -30.14
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -3.53
Structure conservation index 0.97
SVM decision value 3.81
SVM RNA-class probability 0.999634
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14519590 92 - 22407834
UUGUGAGUGACAACGGCUUGAUGCCUGAUUAUGAUAAAUGAAUUGUUAAAUUGAAUUAGGUGUUGCCGCGCUGCUGUCACUCAAAAACCGUC
...(((((((((.((((.((((((((((((.((((((.....)))))).....))))))))))))....)))).)))))))))......... ( -30.20)
>DroSec_CAF1 51204 92 - 1
UUGUGAGUGACAACGGCUUGAUGCCUGAUUAUGAUAAAUGAAUUGUUAAAUUGAAUUAGGUGUUGCCGCGCUGCUGUCACUCAAAAACCGUC
...(((((((((.((((.((((((((((((.((((((.....)))))).....))))))))))))....)))).)))))))))......... ( -30.20)
>DroSim_CAF1 36863 92 - 1
UUGUGAGUGACAACGGCUUGAUGCCUGAUUAUGAUAAAUGAAUUGUUAAAUUGAAUUAGGUGUUGCCGCGCUGCUGUCACUCAAAAACCGUC
...(((((((((.((((.((((((((((((.((((((.....)))))).....))))))))))))....)))).)))))))))......... ( -30.20)
>DroEre_CAF1 47909 92 - 1
UUGUGAGUGACAACGGCUUGAUGCCUGAUUAUGAUAAAUGAAUUGUUAAAUUGAAUUAGGUGUUGCCGCGCUGCUGUCACUCAAAAACCGUC
...(((((((((.((((.((((((((((((.((((((.....)))))).....))))))))))))....)))).)))))))))......... ( -30.20)
>DroYak_CAF1 41949 92 - 1
UUGUGAGUGACAACGGCUUGAUGCCUGAUUAUGAUAAAUGAAUUGUUAAAUUGAAUUAGGUGUUGCCGCGCUGCUGUCACUCACAAACCGUC
((((((((((((.((((.((((((((((((.((((((.....)))))).....))))))))))))....)))).))))))))))))...... ( -35.20)
>consensus
UUGUGAGUGACAACGGCUUGAUGCCUGAUUAUGAUAAAUGAAUUGUUAAAUUGAAUUAGGUGUUGCCGCGCUGCUGUCACUCAAAAACCGUC
...(((((((((.((((.((((((((((((.((((((.....)))))).....))))))))))))....)))).)))))))))......... (-30.14 = -30.14 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 14,519,613 – 14,519,722
Length 109
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 99.45
Mean single sequence MFE -23.22
Consensus MFE -22.42
Energy contribution -22.82
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.33
Structure conservation index 0.97
SVM decision value 0.28
SVM RNA-class probability 0.665922
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14519613 109 + 22407834
GCGGCAACACCUAAUUCAAUUUAACAAUUCAUUUAUCAUAAUCAGGCAUCAAGCCGUUGUCACUCACAAUUACGAUCAAGCCGUAGUGAAGGCCGAGCAGAAAAGGCCA
..((((((...(((......))).....................(((.....)))))))))..((((...((((.......)))))))).((((..........)))). ( -23.90)
>DroSec_CAF1 51227 109 + 1
GCGGCAACACCUAAUUCAAUUUAACAAUUCAUUUAUCAUAAUCAGGCAUCAAGCCGUUGUCACUCACAAUUACGAUCAAGCCGUAGUGAAGGCCGAGCAGAAAAGGCCA
..((((((...(((......))).....................(((.....)))))))))..((((...((((.......)))))))).((((..........)))). ( -23.90)
>DroSim_CAF1 36886 109 + 1
GCGGCAACACCUAAUUCAAUUUAACAAUUCAUUUAUCAUAAUCAGGCAUCAAGCCGUUGUCACUCACAAUUACGAUCAAGCCGUAGUGAAGGCCGAGCAGAAAAGGCCA
..((((((...(((......))).....................(((.....)))))))))..((((...((((.......)))))))).((((..........)))). ( -23.90)
>DroEre_CAF1 47932 109 + 1
GCGGCAACACCUAAUUCAAUUUAACAAUUCAUUUAUCAUAAUCAGGCAUCAAGCCGUUGUCACUCACAAUUACGAUCAAGCCGUACUGAAGGCCGAGCAGAAAAGGCCA
(((((.......................................(((.....)))(((((.....))))).........)))))......((((..........)))). ( -22.20)
>DroYak_CAF1 41972 109 + 1
GCGGCAACACCUAAUUCAAUUUAACAAUUCAUUUAUCAUAAUCAGGCAUCAAGCCGUUGUCACUCACAAUUACGAUCAAGCCGUACUGAAGGCCGAGCAGAAAAGGCCA
(((((.......................................(((.....)))(((((.....))))).........)))))......((((..........)))). ( -22.20)
>consensus
GCGGCAACACCUAAUUCAAUUUAACAAUUCAUUUAUCAUAAUCAGGCAUCAAGCCGUUGUCACUCACAAUUACGAUCAAGCCGUAGUGAAGGCCGAGCAGAAAAGGCCA
..((((((...(((......))).....................(((.....)))))))))..((((...((((.......)))))))).((((..........)))). (-22.42 = -22.82 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:42 2006