Locus 1714

Sequence ID	3L_DroMel_CAF1
Location	4,985,697 – 4,985,788
Length	91
Max. P	0.705158

overview

Window 3

Location	4,985,697 – 4,985,788
Length	91
Sequences	5
Columns	97
Reading direction	forward
Mean pairwise identity	93.15
Mean single sequence MFE	-21.86
Consensus MFE	-18.95
Energy contribution	-19.19
Covariance contribution	0.24
Combinations/Pair	1.05
Mean z-score	-1.21
Structure conservation index	0.87
SVM decision value	0.07
SVM RNA-class probability	0.567806
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4985697 91 + 23771897
AUCUG------AAUCUGAAUACGAAUCCUAGUCGCCAUAAAUUGCUCCUUGAUGACUCUUUUGAAAAGGGCCCUAGACUCGCAAUUCGAUUUCACUU
...((------((..(((((.(((...((((..(((.........((......)).((....))....))).))))..)))..)))))..))))... ( -13.20)
>DroSec_CAF1 206298 91 + 1
AUCUG------AAUCCGAAUGCGAAUCCGAGUCGCCGUAAAUUGCGCCUUGAUGACUCUUUUGAAAAGGGCCCUAGACUCGCAAUUCGAUUUCACUU
...((------((..(((((((((.((((((.(((........))).))))....(((((.....))))).....)).)))).)))))..))))... ( -24.20)
>DroSim_CAF1 225718 91 + 1
AUCUG------AAUCCGAAUGCGAAUCCGAGUCGCCGUAAAUUGCGCCUUGAUGACUCUUUUGAAAAGGGCCCUAGACUCGCAAUUCGAUUUCACUU
...((------((..(((((((((.((((((.(((........))).))))....(((((.....))))).....)).)))).)))))..))))... ( -24.20)
>DroEre_CAF1 209647 91 + 1
AUCAG------AAUCCGAAAGCGAAUCCGAGUCGCCAUAAAUUGCGCCUUGAUGACUCUUUUGAAAAGGGCCCUAGACUCGCAAUUCGAUUUCACUU
.....------.....((((.(((((.((((((((........))(((((................)))))....))))))..))))).)))).... ( -23.19)
>DroYak_CAF1 214009 97 + 1
AUCCGAAAGCGAAUCCGAAUCCGAAUCCGAGUCGCCAUAAAUUGCGUCUUGAUGACUCUUUUGAAAAGGGCCCUAGACUCGCAAUUCGAUUUCACUU
.(((....).))....(((..(((((.(((((((((...((..(.(((.....))).)..))......)))....))))))..)))))..))).... ( -24.50)
>consensus
AUCUG______AAUCCGAAUGCGAAUCCGAGUCGCCAUAAAUUGCGCCUUGAUGACUCUUUUGAAAAGGGCCCUAGACUCGCAAUUCGAUUUCACUU
................(((..(((((.((((((((........))(((((................)))))....))))))..)))))..))).... (-18.95 = -19.19 +   0.24)

alignment

secondary structure

dotplot

Window 4

Location	4,985,697 – 4,985,788
Length	91
Sequences	5
Columns	97
Reading direction	reverse
Mean pairwise identity	93.15
Mean single sequence MFE	-26.70
Consensus MFE	-20.92
Energy contribution	-20.96
Covariance contribution	0.04
Combinations/Pair	1.04
Mean z-score	-1.69
Structure conservation index	0.78
SVM decision value	0.36
SVM RNA-class probability	0.705158
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4985697 91 - 23771897
AAGUGAAAUCGAAUUGCGAGUCUAGGGCCCUUUUCAAAAGAGUCAUCAAGGAGCAAUUUAUGGCGACUAGGAUUCGUAUUCAGAUU------CAGAU
...((((.((((((.((((((((..(((.(((.....))).)))....((..((........))..)).)))))))))))).))))------))... ( -22.10)
>DroSec_CAF1 206298 91 - 1
AAGUGAAAUCGAAUUGCGAGUCUAGGGCCCUUUUCAAAAGAGUCAUCAAGGCGCAAUUUACGGCGACUCGGAUUCGCAUUCGGAUU------CAGAU
...((((.((((((.((((((((((.((((((.....))).(((.....))).........)))..)).)))))))))))))).))------))... ( -28.10)
>DroSim_CAF1 225718 91 - 1
AAGUGAAAUCGAAUUGCGAGUCUAGGGCCCUUUUCAAAAGAGUCAUCAAGGCGCAAUUUACGGCGACUCGGAUUCGCAUUCGGAUU------CAGAU
...((((.((((((.((((((((((.((((((.....))).(((.....))).........)))..)).)))))))))))))).))------))... ( -28.10)
>DroEre_CAF1 209647 91 - 1
AAGUGAAAUCGAAUUGCGAGUCUAGGGCCCUUUUCAAAAGAGUCAUCAAGGCGCAAUUUAUGGCGACUCGGAUUCGCUUUCGGAUU------CUGAU
....(((.(((((..((((((((((....))........(((((..((..(......)..))..))))))))))))).))))).))------).... ( -25.30)
>DroYak_CAF1 214009 97 - 1
AAGUGAAAUCGAAUUGCGAGUCUAGGGCCCUUUUCAAAAGAGUCAUCAAGACGCAAUUUAUGGCGACUCGGAUUCGGAUUCGGAUUCGCUUUCGGAU
(((((((.(((((((.(((((((((....))........(((((..((.((......)).))..))))))))))))))))))).)))))))...... ( -29.90)
>consensus
AAGUGAAAUCGAAUUGCGAGUCUAGGGCCCUUUUCAAAAGAGUCAUCAAGGCGCAAUUUAUGGCGACUCGGAUUCGCAUUCGGAUU______CAGAU
...((((..((((((.((((((...(((.(((.....))).)))........((........))))))))))))))..))))............... (-20.92 = -20.96 +   0.04)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:14:20 2006