Locus 5780

Sequence ID	X_DroMel_CAF1
Location	14,984,930 – 14,985,020
Length	90
Max. P	0.976497

overview

Window 7

Location	14,984,930 – 14,985,020
Length	90
Sequences	5
Columns	90
Reading direction	forward
Mean pairwise identity	90.38
Mean single sequence MFE	-21.02
Consensus MFE	-16.44
Energy contribution	-16.20
Covariance contribution	-0.24
Combinations/Pair	1.17
Mean z-score	-1.45
Structure conservation index	0.78
SVM decision value	0.04
SVM RNA-class probability	0.552841
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14984930 90 + 22224390
CAAAUCAUUUUUGAUUGAUUUCCCAAUUAGGUUUCGAUGGGGUUCUCAGCGAAUUGAGUUGCUAAGGUAUGGAUAUUCCCCCCCAUCAUU
.........((((((((......))))))))....(((((((.(((.(((((......))))).)))...((.....)).)))))))... ( -23.60)
>DroSec_CAF1 2875 89 + 1
CAAAUCAUUUUUGAUUGAUUUCCCAAUAAGGUUUCGAUGCGGUUCUCAGCGAAUAGAUUUGCUAAGGUAUGGAUAUUCCC-CGCAUCAUU
..(((((....)))))((...((......))..))(((((((.(((.((((((....)))))).)))...((.....)))-))))))... ( -23.50)
>DroSim_CAF1 2910 89 + 1
CAAAUCAUUUUUGAUUGAUUUCCCAAUUAGGUUUCGAUGGGGUUCUCAGCGAAUUGAGUUGCUAAGGCAUGGAUAUUCCC-CCGAUCAUU
.........((((((((......))))))))....(((.(((.(((.(((((......))))).)))...((.....)))-)).)))... ( -19.10)
>DroEre_CAF1 2889 89 + 1
CAAAUCAUUUUUGAUUGAUUUCCCAAUUAGGCUUCGAUGGGGUUCUCAGCGAAUUGAGUUGCCUGGGCAUAGAUAUUCUC-CCCAUCAUU
.........((((((((......))))))))....(((((((..(((((....))))).(((....)))..........)-))))))... ( -22.90)
>DroYak_CAF1 2842 89 + 1
CAAAUCAUCUUUGAUUGAUUUACCAAUUAGGUUUCGAUGUGGUUCUCAGCGAAUUGAGUUGCUUGGCUAUAGAUAUUCCU-CACAUCAUU
..(((((....)))))((...(((.....))).))((((((...((.(((((......))))).))....((......))-))))))... ( -16.00)
>consensus
CAAAUCAUUUUUGAUUGAUUUCCCAAUUAGGUUUCGAUGGGGUUCUCAGCGAAUUGAGUUGCUAAGGUAUGGAUAUUCCC_CCCAUCAUU
.........((((((((......))))))))....((((((...((.(((((......))))).))....((.....))..))))))... (-16.44 = -16.20 +  -0.24)

alignment

secondary structure

dotplot

Window 8

Location	14,984,930 – 14,985,020
Length	90
Sequences	5
Columns	90
Reading direction	reverse
Mean pairwise identity	90.38
Mean single sequence MFE	-23.32
Consensus MFE	-17.62
Energy contribution	-17.50
Covariance contribution	-0.12
Combinations/Pair	1.22
Mean z-score	-2.88
Structure conservation index	0.76
SVM decision value	1.77
SVM RNA-class probability	0.976497
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14984930 90 - 22224390
AAUGAUGGGGGGGAAUAUCCAUACCUUAGCAACUCAAUUCGCUGAGAACCCCAUCGAAACCUAAUUGGGAAAUCAAUCAAAAAUGAUUUG
..((((((((.((.....))....((((((..........))))))..))))))))...(((....)))((((((........)))))). ( -27.10)
>DroSec_CAF1 2875 89 - 1
AAUGAUGCG-GGGAAUAUCCAUACCUUAGCAAAUCUAUUCGCUGAGAACCGCAUCGAAACCUUAUUGGGAAAUCAAUCAAAAAUGAUUUG
..(((((((-(((.....))....((((((..........))))))..))))))))...(((....)))((((((........)))))). ( -26.60)
>DroSim_CAF1 2910 89 - 1
AAUGAUCGG-GGGAAUAUCCAUGCCUUAGCAACUCAAUUCGCUGAGAACCCCAUCGAAACCUAAUUGGGAAAUCAAUCAAAAAUGAUUUG
..((((.((-(((.....))....((((((..........))))))..))).))))...(((....)))((((((........)))))). ( -20.60)
>DroEre_CAF1 2889 89 - 1
AAUGAUGGG-GAGAAUAUCUAUGCCCAGGCAACUCAAUUCGCUGAGAACCCCAUCGAAGCCUAAUUGGGAAAUCAAUCAAAAAUGAUUUG
..(((((((-(..........(((....))).((((......))))..))))))))...(((....)))((((((........)))))). ( -25.50)
>DroYak_CAF1 2842 89 - 1
AAUGAUGUG-AGGAAUAUCUAUAGCCAAGCAACUCAAUUCGCUGAGAACCACAUCGAAACCUAAUUGGUAAAUCAAUCAAAGAUGAUUUG
..(((((((-.((...........))......((((......))))...)))))))..(((.....)))((((((........)))))). ( -16.80)
>consensus
AAUGAUGGG_GGGAAUAUCCAUACCUUAGCAACUCAAUUCGCUGAGAACCCCAUCGAAACCUAAUUGGGAAAUCAAUCAAAAAUGAUUUG
..(((((((..((.....))....((((((..........))))))...)))))))...((.....)).((((((........)))))). (-17.62 = -17.50 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:56:11 2006