Locus 3939

Sequence ID 3L_DroMel_CAF1
Location 11,421,257 – 11,421,347
Length 90
Max. P 0.639050
window6133 window6134

overview

Window 3

Location 11,421,257 – 11,421,347
Length 90
Sequences 4
Columns 91
Reading direction forward
Mean pairwise identity 93.00
Mean single sequence MFE -21.38
Consensus MFE -20.38
Energy contribution -20.62
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.36
Structure conservation index 0.95
SVM decision value 0.22
SVM RNA-class probability 0.639050
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11421257 90 + 23771897
GAUGCGAGUGCUAAAGUGUGAGUGCGGUAGCAAGAGCCAACAACCGCAUCGAGGCCAUGUUGCACUGCAACCAAAAUAAA-UACAAAUAGU
..(((.(((((....((.(..(((((((.((....)).....)))))))..).))......))))))))...........-.......... ( -22.00)
>DroSec_CAF1 140971 90 + 1
GAUGCGAGUGCUAAAGUGUGAGUGCGGUAGCAAGAGCCAACAACCGCAUCGAGGCCAUGUUGCACUGAAAUAAAAAUAAA-UACAAAUAGU
......(((((....((.(..(((((((.((....)).....)))))))..).))......)))))..............-.......... ( -18.20)
>DroEre_CAF1 148561 90 + 1
GAUGCGAGUGCUAAAGUGUGAGUGCGGUAGCAAGAGCCAACAACCGCAUCGAGGCCAUGUUGCACUGCAACAAAAAUAAA-AAGGAAUAGU
..(((.(((((....((.(..(((((((.((....)).....)))))))..).))......))))))))...........-.......... ( -22.00)
>DroYak_CAF1 139410 91 + 1
GAUGCGAGUGCUAAAGUGUGAGUGCGGUAGCAAGAGCCAACAACCGCAUCGAGGCCAUGUUGCACUGCAACAAAAGCAAAUAAAUAAUAAA
((((((.(..((........))..)(((.......)))......))))))...((..((((((...))))))...)).............. ( -23.30)
>consensus
GAUGCGAGUGCUAAAGUGUGAGUGCGGUAGCAAGAGCCAACAACCGCAUCGAGGCCAUGUUGCACUGCAACAAAAAUAAA_AACAAAUAGU
..(((.(((((....((.(..(((((((.((....)).....)))))))..).))......))))))))...................... (-20.38 = -20.62 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 11,421,257 – 11,421,347
Length 90
Sequences 4
Columns 91
Reading direction reverse
Mean pairwise identity 93.00
Mean single sequence MFE -20.52
Consensus MFE -19.27
Energy contribution -19.52
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.36
Structure conservation index 0.94
SVM decision value 0.15
SVM RNA-class probability 0.608614
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 11421257 90 - 23771897
ACUAUUUGUA-UUUAUUUUGGUUGCAGUGCAACAUGGCCUCGAUGCGGUUGUUGGCUCUUGCUACCGCACUCACACUUUAGCACUCGCAUC
..........-...........((((((((.....(....)((((((((....(((....))))))))).))........))))).))).. ( -20.90)
>DroSec_CAF1 140971 90 - 1
ACUAUUUGUA-UUUAUUUUUAUUUCAGUGCAACAUGGCCUCGAUGCGGUUGUUGGCUCUUGCUACCGCACUCACACUUUAGCACUCGCAUC
.(((((((((-((.(........).))))))).))))....((((((((....(((....))))))))).))........((....))... ( -18.10)
>DroEre_CAF1 148561 90 - 1
ACUAUUCCUU-UUUAUUUUUGUUGCAGUGCAACAUGGCCUCGAUGCGGUUGUUGGCUCUUGCUACCGCACUCACACUUUAGCACUCGCAUC
..........-...........((((((((.....(....)((((((((....(((....))))))))).))........))))).))).. ( -20.90)
>DroYak_CAF1 139410 91 - 1
UUUAUUAUUUAUUUGCUUUUGUUGCAGUGCAACAUGGCCUCGAUGCGGUUGUUGGCUCUUGCUACCGCACUCACACUUUAGCACUCGCAUC
..............(((..((((((...)))))).)))...((((((((....(((....))))))))).))........((....))... ( -22.20)
>consensus
ACUAUUUGUA_UUUAUUUUUGUUGCAGUGCAACAUGGCCUCGAUGCGGUUGUUGGCUCUUGCUACCGCACUCACACUUUAGCACUCGCAUC
......................((((((((.....(....)((((((((....(((....))))))))).))........))))).))).. (-19.27 = -19.52 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:30 2006