Locus 961

Sequence ID 3R_DroMel_CAF1
Location 3,147,976 – 3,148,073
Length 97
Max. P 0.756553
window1538 window1539

overview

Window 8

Location 3,147,976 – 3,148,073
Length 97
Sequences 4
Columns 97
Reading direction forward
Mean pairwise identity 89.86
Mean single sequence MFE -18.93
Consensus MFE -14.57
Energy contribution -14.20
Covariance contribution -0.37
Combinations/Pair 1.08
Mean z-score -1.86
Structure conservation index 0.77
SVM decision value 0.49
SVM RNA-class probability 0.756553
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3147976 97 + 27905053
GAUUUCCGCAGCGCGCAGAACAAAUCAAAUCAAUUGCCCGCAAUUAAUAACACCAAUUCGGGCCCAUUGAUCCAGACUGCGACAGCAUUUCAUUAUU
..........((.(((((......((..((((((.(((((.((((.........)))))))))..))))))...)))))))...))........... ( -21.70)
>DroSec_CAF1 23138 97 + 1
GAUUUACGCAGCUCGCAGAACAAAUCAAAUCAAUUGCUCGCAAUUAAUAACACCAAUUCGGGCCCAUUGAUCCAGACUGCGACAGCAUUUCAUUAUU
.......((.(.((((((......((..((((((.(((((.((((.........)))))))))..))))))...))))))))).))........... ( -19.00)
>DroSim_CAF1 24436 97 + 1
GAUUUACGCAGCUCGCAGAACAAAUCAAAUCAAUUGCUCGCAAUUAAUAACACCAAUUCGGGCCCAUUGAUCCAGACUGCGACAGCAUUUCAUUAUU
.......((.(.((((((......((..((((((.(((((.((((.........)))))))))..))))))...))))))))).))........... ( -19.00)
>DroEre_CAF1 25230 81 + 1
GAUUU----------------GAAUCAAAUCAAUUGCCCGCAAUUAAUAACACCAAUUCGGGCCCAUUGAUCCAGACUGCGACAGCAUUUCAUUAUU
....(----------------(((....((((((.(((((.((((.........)))))))))..))))))......(((....))).))))..... ( -16.00)
>consensus
GAUUUACGCAGCUCGCAGAACAAAUCAAAUCAAUUGCCCGCAAUUAAUAACACCAAUUCGGGCCCAUUGAUCCAGACUGCGACAGCAUUUCAUUAUU
(((((...(........)...)))))..((((((.(((((.((((.........)))))))))..))))))...((.(((....)))..))...... (-14.57 = -14.20 +  -0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 3,147,976 – 3,148,073
Length 97
Sequences 4
Columns 97
Reading direction reverse
Mean pairwise identity 89.86
Mean single sequence MFE -26.70
Consensus MFE -18.20
Energy contribution -18.70
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -1.90
Structure conservation index 0.68
SVM decision value -0.01
SVM RNA-class probability 0.527902
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3147976 97 - 27905053
AAUAAUGAAAUGCUGUCGCAGUCUGGAUCAAUGGGCCCGAAUUGGUGUUAUUAAUUGCGGGCAAUUGAUUUGAUUUGUUCUGCGCGCUGCGGAAAUC
..........(((.(((((((..(..(((((...((((((((((((...))))))).))))).......)))))..)..))))).)).)))...... ( -29.70)
>DroSec_CAF1 23138 97 - 1
AAUAAUGAAAUGCUGUCGCAGUCUGGAUCAAUGGGCCCGAAUUGGUGUUAUUAAUUGCGAGCAAUUGAUUUGAUUUGUUCUGCGAGCUGCGUAAAUC
.........((((.(((((((..(..(((((..(((((.....)).)))((((((((....)))))))))))))..)..)))))).).))))..... ( -27.00)
>DroSim_CAF1 24436 97 - 1
AAUAAUGAAAUGCUGUCGCAGUCUGGAUCAAUGGGCCCGAAUUGGUGUUAUUAAUUGCGAGCAAUUGAUUUGAUUUGUUCUGCGAGCUGCGUAAAUC
.........((((.(((((((..(..(((((..(((((.....)).)))((((((((....)))))))))))))..)..)))))).).))))..... ( -27.00)
>DroEre_CAF1 25230 81 - 1
AAUAAUGAAAUGCUGUCGCAGUCUGGAUCAAUGGGCCCGAAUUGGUGUUAUUAAUUGCGGGCAAUUGAUUUGAUUC----------------AAAUC
.....((((.(((....)))....((((((((..((((((((((((...))))))).))))).))))))))..)))----------------).... ( -23.10)
>consensus
AAUAAUGAAAUGCUGUCGCAGUCUGGAUCAAUGGGCCCGAAUUGGUGUUAUUAAUUGCGAGCAAUUGAUUUGAUUUGUUCUGCGAGCUGCGUAAAUC
..........(((....)))(((.((((((((..((((((((((((...))))))).))))).)))))))))))....................... (-18.20 = -18.70 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:56:42 2006