Locus 7400

Sequence ID	3L_DroMel_CAF1
Location	19,905,133 – 19,905,225
Length	92
Max. P	0.630330

overview

Window 9

Location	19,905,133 – 19,905,225
Length	92
Sequences	6
Columns	95
Reading direction	forward
Mean pairwise identity	80.16
Mean single sequence MFE	-34.15
Consensus MFE	-25.30
Energy contribution	-25.24
Covariance contribution	-0.05
Combinations/Pair	1.23
Mean z-score	-1.20
Structure conservation index	0.74
SVM decision value	0.16
SVM RNA-class probability	0.612621
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19905133 92 + 23771897
GUCACCGAGCCGCUGAUGCACAG---GGAUCAGGAUGGCAAGAAUGACAAGGAGCCGAAGGCAAAUGGUGGCCAUCGCGGCAGUGGUGAUUCCGC
(((((((.(((((((((.(....---).)))).((((((..(.....).....(((...)))........)))))))))))..)))))))..... ( -33.60)
>DroPse_CAF1 35458 89 + 1
GUCACCGAGCCACUGAUGGUCAAGCAGGACCAGGACGGGGAGGAC------CAGCCCAAACAAAAUGGCGCGCAUCGUGGCAGCGGCGACUCGGC
(((.(((.(((((.(((((((...(....((.....)).)..)))------).(((((.......))).))..))))))))..))).)))..... ( -31.00)
>DroSec_CAF1 41354 92 + 1
GUCACCGAGCCGCUGAUGCACAG---GGAUCGGGAUGGCAAGAAUGGCAAGGAGCCGAAGGCAAAUGGUGGCCAUCGCGGCAGUGGUGAUUCCGC
(((((((.(((((((((.(....---).)))).((((((.....((((.....))))...((.....)).)))))))))))..)))))))..... ( -36.10)
>DroEre_CAF1 40235 92 + 1
GUCACCGAGCCGCUGAUGCUCAG---GGAUCAGGAUGGCAAGAGCGGCAAGGAGCCCAAAGCAAAUGGUGGCCAUCGCGGCAGUGGUGAUUCCGC
(((((((.(((((((((.(....---).)))).((((((....(.(((.....))))...((.....)).)))))))))))..)))))))..... ( -36.50)
>DroYak_CAF1 40418 92 + 1
GUCACCGAGCCGCUGAUGCUCAG---GGAUCAGGAUGGCAAAAACGGUAAGGAGCCCAAAGCAAAUGGUGGCCAUCGCGGCAGUGGUGACUCCGC
(((((((.(((((((((.(....---).)))).((((((......(((.....)))....((.....)).)))))))))))..)))))))..... ( -36.70)
>DroPer_CAF1 35549 89 + 1
GUCACCGAGCCACUGAUGGUCAAGCAGGACCAGGACGGGGAGGAC------CAGCCCAAACAAAAUGGCGCGCAUCGUGGCAGCGGCGACUCGGC
(((.(((.(((((.(((((((...(....((.....)).)..)))------).(((((.......))).))..))))))))..))).)))..... ( -31.00)
>consensus
GUCACCGAGCCGCUGAUGCUCAG___GGAUCAGGAUGGCAAGAACGGCAAGGAGCCCAAAGCAAAUGGUGGCCAUCGCGGCAGUGGUGACUCCGC
(((((((.(((((((((.(.......).)))).((((((..............(((..........))).)))))))))))..)))))))..... (-25.30 = -25.24 +  -0.05)

alignment

secondary structure

dotplot

Window 0

Location	19,905,133 – 19,905,225
Length	92
Sequences	6
Columns	95
Reading direction	reverse
Mean pairwise identity	80.16
Mean single sequence MFE	-32.43
Consensus MFE	-23.08
Energy contribution	-21.86
Covariance contribution	-1.22
Combinations/Pair	1.21
Mean z-score	-1.29
Structure conservation index	0.71
SVM decision value	0.20
SVM RNA-class probability	0.630330
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19905133 92 - 23771897
GCGGAAUCACCACUGCCGCGAUGGCCACCAUUUGCCUUCGGCUCCUUGUCAUUCUUGCCAUCCUGAUCC---CUGUGCAUCAGCGGCUCGGUGAC
......(((((...(((((((((((...((...(((...)))....))........)))))).((((..---......)))))))))..))))). ( -28.40)
>DroPse_CAF1 35458 89 - 1
GCCGAGUCGCCGCUGCCACGAUGCGCGCCAUUUUGUUUGGGCUG------GUCCUCCCCGUCCUGGUCCUGCUUGACCAUCAGUGGCUCGGUGAC
.....(((((((..(((((((((.((.(((.......))))).(------(....)).)))).(((((......)))))...))))).))))))) ( -34.20)
>DroSec_CAF1 41354 92 - 1
GCGGAAUCACCACUGCCGCGAUGGCCACCAUUUGCCUUCGGCUCCUUGCCAUUCUUGCCAUCCCGAUCC---CUGUGCAUCAGCGGCUCGGUGAC
......(((((...(((((((((((((.....)).....(((.....)))......))))))..(((..---......))).)))))..))))). ( -30.60)
>DroEre_CAF1 40235 92 - 1
GCGGAAUCACCACUGCCGCGAUGGCCACCAUUUGCUUUGGGCUCCUUGCCGCUCUUGCCAUCCUGAUCC---CUGAGCAUCAGCGGCUCGGUGAC
......(((((...((((((((((...)))))(((((.(((.((......((....))......)).))---).)))))...)))))..))))). ( -33.60)
>DroYak_CAF1 40418 92 - 1
GCGGAGUCACCACUGCCGCGAUGGCCACCAUUUGCUUUGGGCUCCUUACCGUUUUUGCCAUCCUGAUCC---CUGAGCAUCAGCGGCUCGGUGAC
.....((((((...((((((((((...)))))(((((.(((.((......((....))......)).))---).)))))...)))))..)))))) ( -33.60)
>DroPer_CAF1 35549 89 - 1
GCCGAGUCGCCGCUGCCACGAUGCGCGCCAUUUUGUUUGGGCUG------GUCCUCCCCGUCCUGGUCCUGCUUGACCAUCAGUGGCUCGGUGAC
.....(((((((..(((((((((.((.(((.......))))).(------(....)).)))).(((((......)))))...))))).))))))) ( -34.20)
>consensus
GCGGAAUCACCACUGCCGCGAUGGCCACCAUUUGCUUUGGGCUCCUUGCCGUUCUUGCCAUCCUGAUCC___CUGAGCAUCAGCGGCUCGGUGAC
......(((((...(((((((((((........))....(((..............)))..................)))).)))))..))))). (-23.08 = -21.86 +  -1.22)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:46:00 2006