Locus 4541

Sequence ID	2R_DroMel_CAF1
Location	14,854,600 – 14,854,700
Length	100
Max. P	0.830187

overview

Window 0

Location	14,854,600 – 14,854,700
Length	100
Sequences	5
Columns	102
Reading direction	forward
Mean pairwise identity	93.65
Mean single sequence MFE	-35.06
Consensus MFE	-26.72
Energy contribution	-27.60
Covariance contribution	0.88
Combinations/Pair	1.04
Mean z-score	-2.14
Structure conservation index	0.76
SVM decision value	0.65
SVM RNA-class probability	0.812422
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14854600 100 + 20766785
AUUCCCGAGCACCUCCUGCCCCCCAGUAGAAACUGAAGGGGCUGGUAUU--GUCGACAAAGGCAAGUGGCGUCGUUGGCGCUAAUUGUUUUUAAUGAAAAUU
.(((.(((.((...((.(((((.((((....))))..))))).))...)--))))..((((((((.((((((.....)))))).))))))))...))).... ( -34.70)
>DroSec_CAF1 26855 100 + 1
AUUCCCGAGCACCUCCUGCCCCCCAGGAGAAACUGAAGGGGCUGGUAUU--GUCGACAAAGGCAAGUGGCGUCGUUGGCGCUAAUUGUUUUUAAUGAAAAUU
.(((.(((.((...((.(((((.(((......)))..))))).))...)--))))..((((((((.((((((.....)))))).))))))))...))).... ( -34.60)
>DroSim_CAF1 28504 100 + 1
AUUCCCGAGCACCUCCUGCCCCCCAGGAGAAACUGAAGGGGCUGGUAUU--GUCGACAAAGGCAAGUGGCGUCGUUGGCGCUAAUUGUUUUUAAUGAAAAUU
.(((.(((.((...((.(((((.(((......)))..))))).))...)--))))..((((((((.((((((.....)))))).))))))))...))).... ( -34.60)
>DroEre_CAF1 26623 99 + 1
AUACCCGAGCACCUCCUGCCCCCCAGGAGAACUGA-AGGGGCUGGUGCU--GUCGACAAAGGCAAGUGGCGUCGUUGGCGCUAAUUGUUUUUAAUGAAAAUU
.......((((((....(((((.(((.....))).-.))))).))))))--.(((..((((((((.((((((.....)))))).))))))))..)))..... ( -39.50)
>DroYak_CAF1 27913 102 + 1
AUGCCCGAGCACCUCCUGCCCCCCAGGAGAACGUAAUGGUGCUGGUGUUGUGUCGACAAAGGCAAGUGGCGUCGUUGGCGCUAAUUGUUUUUAAUGAAAAUU
..((((.(((((((((((.....))))).........)))))))).))....(((..((((((((.((((((.....)))))).))))))))..)))..... ( -31.90)
>consensus
AUUCCCGAGCACCUCCUGCCCCCCAGGAGAAACUGAAGGGGCUGGUAUU__GUCGACAAAGGCAAGUGGCGUCGUUGGCGCUAAUUGUUUUUAAUGAAAAUU
.....(((......((.(((((.(((......)))..))))).)).......)))..((((((((.((((((.....)))))).)))))))).......... (-26.72 = -27.60 +   0.88)

alignment

secondary structure

dotplot

Window 1

Location	14,854,600 – 14,854,700
Length	100
Sequences	5
Columns	102
Reading direction	reverse
Mean pairwise identity	93.65
Mean single sequence MFE	-30.09
Consensus MFE	-25.40
Energy contribution	-26.16
Covariance contribution	0.76
Combinations/Pair	1.05
Mean z-score	-1.52
Structure conservation index	0.84
SVM decision value	0.71
SVM RNA-class probability	0.830187
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 14854600 100 - 20766785
AAUUUUCAUUAAAAACAAUUAGCGCCAACGACGCCACUUGCCUUUGUCGAC--AAUACCAGCCCCUUCAGUUUCUACUGGGGGGCAGGAGGUGCUCGGGAAU
....................((((((..(((((...........)))))..--....((.((((((.((((....)))))))))).)).))))))....... ( -31.90)
>DroSec_CAF1 26855 100 - 1
AAUUUUCAUUAAAAACAAUUAGCGCCAACGACGCCACUUGCCUUUGUCGAC--AAUACCAGCCCCUUCAGUUUCUCCUGGGGGGCAGGAGGUGCUCGGGAAU
....................((((((..(((((...........)))))..--....((.((((((.(((......))))))))).)).))))))....... ( -30.10)
>DroSim_CAF1 28504 100 - 1
AAUUUUCAUUAAAAACAAUUAGCGCCAACGACGCCACUUGCCUUUGUCGAC--AAUACCAGCCCCUUCAGUUUCUCCUGGGGGGCAGGAGGUGCUCGGGAAU
....................((((((..(((((...........)))))..--....((.((((((.(((......))))))))).)).))))))....... ( -30.10)
>DroEre_CAF1 26623 99 - 1
AAUUUUCAUUAAAAACAAUUAGCGCCAACGACGCCACUUGCCUUUGUCGAC--AGCACCAGCCCCU-UCAGUUCUCCUGGGGGGCAGGAGGUGCUCGGGUAU
..............((....((((((..(((((...........)))))..--....((.((((((-.(((.....))))))))).)).))))))...)).. ( -30.50)
>DroYak_CAF1 27913 102 - 1
AAUUUUCAUUAAAAACAAUUAGCGCCAACGACGCCACUUGCCUUUGUCGACACAACACCAGCACCAUUACGUUCUCCUGGGGGGCAGGAGGUGCUCGGGCAU
.......................(((..(((((((.(((((((((((....))))..((((...............)))).))))))).)))).)))))).. ( -27.86)
>consensus
AAUUUUCAUUAAAAACAAUUAGCGCCAACGACGCCACUUGCCUUUGUCGAC__AAUACCAGCCCCUUCAGUUUCUCCUGGGGGGCAGGAGGUGCUCGGGAAU
....................((((((..(((((...........)))))........((.((((((.(((......))))))))).)).))))))....... (-25.40 = -26.16 +   0.76)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:22:38 2006