Locus 2740

Sequence ID	X_DroMel_CAF1
Location	7,362,880 – 7,363,026
Length	146
Max. P	0.732121

overview

Window 7

Location	7,362,880 – 7,362,986
Length	106
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	88.74
Mean single sequence MFE	-30.68
Consensus MFE	-24.82
Energy contribution	-25.38
Covariance contribution	0.56
Combinations/Pair	1.11
Mean z-score	-1.59
Structure conservation index	0.81
SVM decision value	0.43
SVM RNA-class probability	0.732121
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7362880 106 - 22224390
GU--------------GCGAUGUGCGGCAUCAACAUGUUGCACAAAUAUAAACAUAAAUCAAUUAACAUUUUUCGGCCAUGCCAGUGAACUACUCGGUUUUUCGGGUAGUCAACGGAGCC
..--------------((..((((((((((....))))))))))...........................((((((...))).((..(((((((((....)))))))))..))))))). ( -31.30)
>DroSec_CAF1 111624 106 - 1
GU--------------GCGAUGUGCGGCAUCAACAUGUUGCACAAAUAUAAACAUAAAUCAAUUAACAUUUUUCGGCCAUACCAGUGAACUACUCGGUUUUUCGGGUAGUCCAUGGAGUC
..--------------....((((((((((....)))))))))).....................................(((.((.(((((((((....))))))))).))))).... ( -28.60)
>DroSim_CAF1 111520 106 - 1
GU--------------GCGAUGUGCGGCAUCAACAUGUUGCACAAAUAUAAACAUAAAUCAAUUAACAUUUUUCGGCCAUACCAGUGAACUACUCGGUUUUUCGGGUAGUCCAUGGAGUC
..--------------....((((((((((....)))))))))).....................................(((.((.(((((((((....))))))))).))))).... ( -28.60)
>DroEre_CAF1 123039 119 - 1
G-GCGGUGGCGGCGGCGCGAUGUGCGGCAUCAACAUGUUGCACAAAUAUAAACAUAAAUCAAUUAACAUUUUUCGACCAUGCCAGUGAACUACUCGGUUUCGCGGGUAGUCCACGGAGUC
(-(((.(((((((...))..((((((((((....)))))))))).............................)).))))))).(((.((((((((......)))))))).)))...... ( -38.40)
>DroYak_CAF1 145290 113 - 1
GUGCGGU-------GCGCGUUGUGCGGCAUCAACAUGUUGCACAAAUAUAAACAUAAAUCAAUUAACAUUUUUCGACCAUGCCAGUGAACUACUCGGUUUUUCGGCUACUCCAUCGAGUG
((((...-------)))).(((((((((((....)))))))))))..........................(((((....(((...(((((....)))))...))).......))))).. ( -26.50)
>consensus
GU______________GCGAUGUGCGGCAUCAACAUGUUGCACAAAUAUAAACAUAAAUCAAUUAACAUUUUUCGGCCAUGCCAGUGAACUACUCGGUUUUUCGGGUAGUCCAUGGAGUC
....................((((((((((....))))))))))..............................(((....((.(((.(((((((((....))))))))).))))).))) (-24.82 = -25.38 +   0.56)

alignment

secondary structure

dotplot

Window 8

Location	7,362,920 – 7,363,026
Length	106
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	91.73
Mean single sequence MFE	-31.68
Consensus MFE	-26.36
Energy contribution	-26.20
Covariance contribution	-0.16
Combinations/Pair	1.04
Mean z-score	-1.36
Structure conservation index	0.83
SVM decision value	0.20
SVM RNA-class probability	0.631319
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7362920 106 - 22224390
CAACCGCGAGCGUUUUCCGGCGACUGCGAAAUGUGGCGGUGU--------------GCGAUGUGCGGCAUCAACAUGUUGCACAAAUAUAAACAUAAAUCAAUUAACAUUUUUCGGCCAU
..(((((..(((((((.(((...))).))))))).)))))..--------------....((((((((((....)))))))))).................................... ( -27.80)
>DroSec_CAF1 111664 106 - 1
CAACCGCGAGCGUUUUCCGGCGACUGCAAAAUGUGGCGGUGU--------------GCGAUGUGCGGCAUCAACAUGUUGCACAAAUAUAAACAUAAAUCAAUUAACAUUUUUCGGCCAU
..(((((..(((((((.(((...))).))))))).)))))..--------------....((((((((((....)))))))))).................................... ( -27.40)
>DroSim_CAF1 111560 106 - 1
CAACCGCGAGCGUUUUCCGGCGACUGCAAAAUGUGGCGGUGU--------------GCGAUGUGCGGCAUCAACAUGUUGCACAAAUAUAAACAUAAAUCAAUUAACAUUUUUCGGCCAU
..(((((..(((((((.(((...))).))))))).)))))..--------------....((((((((((....)))))))))).................................... ( -27.40)
>DroEre_CAF1 123079 119 - 1
CAACCGCGAGCGUUUUCCGCCGACUGCAAAAUGUGGCGGUG-GCGGUGGCGGCGGCGCGAUGUGCGGCAUCAACAUGUUGCACAAAUAUAAACAUAAAUCAAUUAACAUUUUUCGACCAU
....((((.(((((..(((((.(((((........))))))-)))).))).))..)))).((((((((((....)))))))))).................................... ( -40.30)
>DroYak_CAF1 145330 113 - 1
CAACCGCGAGCGUUUUCCGCCGACUGCAAAAUGUGGCGGUGUGCGGU-------GCGCGUUGUGCGGCAUCAACAUGUUGCACAAAUAUAAACAUAAAUCAAUUAACAUUUUUCGACCAU
......(((((((...((((..(((((........)))))..)))).-------)))).(((((((((((....)))))))))))...........................)))..... ( -35.50)
>consensus
CAACCGCGAGCGUUUUCCGGCGACUGCAAAAUGUGGCGGUGU______________GCGAUGUGCGGCAUCAACAUGUUGCACAAAUAUAAACAUAAAUCAAUUAACAUUUUUCGGCCAU
..(((((..(((((((.((.....)).))))))).)))))....................((((((((((....)))))))))).................................... (-26.36 = -26.20 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:42:07 2006