Locus 5447

Sequence ID	3L_DroMel_CAF1
Location	14,918,692 – 14,918,805
Length	113
Max. P	0.995095

overview

Window 7

Location	14,918,692 – 14,918,805
Length	113
Sequences	6
Columns	113
Reading direction	forward
Mean pairwise identity	96.34
Mean single sequence MFE	-43.57
Consensus MFE	-39.08
Energy contribution	-39.47
Covariance contribution	0.39
Combinations/Pair	1.06
Mean z-score	-1.36
Structure conservation index	0.90
SVM decision value	0.62
SVM RNA-class probability	0.802765
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14918692 113 + 23771897
GCUUUCUCACUCGACCGUCGAGUGUGAAUGCUGGCGAGAGGUCCUGCCGGCGAAGAAUGUCCGCAUUGUCCUGUCCAUUGAGAGGUACUCGUGCGUAGCUCCGCAGGACAUCU
((.(((.((((((.....)))))).))).)).....(((.(((((((.(((((......))(((((.(((((.((....)).))).))..)))))..)).).))))))).))) ( -43.70)
>DroSec_CAF1 100937 113 + 1
GCUUUCUCACUCGACCGUCGAGUGUGAAUGCUGGCGAGAGGUCCUGCCGGCGAAGAAUGUCCGCAUUGUCCUGUCCAUUGAGAGGUACUCGUGCGUAGCUCCGCAGGACAUCU
((.(((.((((((.....)))))).))).)).....(((.(((((((.(((((......))(((((.(((((.((....)).))).))..)))))..)).).))))))).))) ( -43.70)
>DroSim_CAF1 98153 113 + 1
GCUUUCUCACUCGACCGUCGAGUGUGAAUGCUGGCGAGAGGUCCUGCCGGCGAAGAAUGUCGGCAUUGUCCUGUCCAUUGAGAGGUACUCGUGCGUAGCUCCGCAGGACAUCU
((.(((.((((((.....)))))).))).)).....(((.((((((((((((.....)))))((((.(((((.((....)).))).))..))))........))))))).))) ( -44.00)
>DroEre_CAF1 96220 113 + 1
GCUUUCUCACUCGACCGUCGAGUGUGAAUGCUGGCGAGAGGUCCUGCCGGCGAAGAAUGUCCGCAUUGUCCUGUCCAUUGAGAGGCACUCGUGCGUAGCUCCGCAGGACAUCA
((.(((.((((((.....)))))).))).))......((.(((((((.(((((......))(((((.(((((.((....)).))).))..)))))..)).).))))))).)). ( -43.60)
>DroYak_CAF1 95758 113 + 1
GCUUUCUCACUCGACCGUCGAGUGUGAAUGCUGGCGAGAGGUCCUGCCGGCGAAGAAUGUGCGCAUUGUCCUGUCCAUUGAGAGGCACUCGUGCGUAGCUCCGCAGGACAUCU
((.(((.((((((.....)))))).))).)).....(((.(((((((.((...((....(((((((.(((((.((....)).))).))..))))))).))))))))))).))) ( -45.50)
>DroAna_CAF1 88076 113 + 1
ACUUUCUCACUCGACAGUCGAGUGUGAAUGCCGGCGAGAGGUCCUGCCGGCGAAGAAUGUUCACAUUGUCUCCUCCAUUGAGAGGUACUCGUGCGUAGCUCCGCAGGACAUCU
...(((.((((((.....)))))).)))((((((((.(....).)))))))).(((.(((((.....((..((((......)))).))...((((......)))))))))))) ( -40.90)
>consensus
GCUUUCUCACUCGACCGUCGAGUGUGAAUGCUGGCGAGAGGUCCUGCCGGCGAAGAAUGUCCGCAUUGUCCUGUCCAUUGAGAGGUACUCGUGCGUAGCUCCGCAGGACAUCU
...(((.((((((.....)))))).)))((((((((.(....).))))))))...((((....))))(((((((.....(.(((.(((......))).))))))))))).... (-39.08 = -39.47 +   0.39)

alignment

secondary structure

dotplot

Window 8

Location	14,918,692 – 14,918,805
Length	113
Sequences	6
Columns	113
Reading direction	reverse
Mean pairwise identity	96.34
Mean single sequence MFE	-41.27
Consensus MFE	-39.26
Energy contribution	-39.07
Covariance contribution	-0.19
Combinations/Pair	1.05
Mean z-score	-1.68
Structure conservation index	0.95
SVM decision value	2.54
SVM RNA-class probability	0.995095
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 14918692 113 - 23771897
AGAUGUCCUGCGGAGCUACGCACGAGUACCUCUCAAUGGACAGGACAAUGCGGACAUUCUUCGCCGGCAGGACCUCUCGCCAGCAUUCACACUCGACGGUCGAGUGAGAAAGC
(((.(((((((.(.((..((((...((.(((.((....)).)))))..))))((......))))).))))))).))).....((.(((.((((((.....)))))).))).)) ( -41.10)
>DroSec_CAF1 100937 113 - 1
AGAUGUCCUGCGGAGCUACGCACGAGUACCUCUCAAUGGACAGGACAAUGCGGACAUUCUUCGCCGGCAGGACCUCUCGCCAGCAUUCACACUCGACGGUCGAGUGAGAAAGC
(((.(((((((.(.((..((((...((.(((.((....)).)))))..))))((......))))).))))))).))).....((.(((.((((((.....)))))).))).)) ( -41.10)
>DroSim_CAF1 98153 113 - 1
AGAUGUCCUGCGGAGCUACGCACGAGUACCUCUCAAUGGACAGGACAAUGCCGACAUUCUUCGCCGGCAGGACCUCUCGCCAGCAUUCACACUCGACGGUCGAGUGAGAAAGC
(((.(((((((((((.(((......))).))))...(((...(((.((((....)))).))).)))))))))).))).....((.(((.((((((.....)))))).))).)) ( -39.90)
>DroEre_CAF1 96220 113 - 1
UGAUGUCCUGCGGAGCUACGCACGAGUGCCUCUCAAUGGACAGGACAAUGCGGACAUUCUUCGCCGGCAGGACCUCUCGCCAGCAUUCACACUCGACGGUCGAGUGAGAAAGC
.((.(((((((.(.((..((((....(((((.((....)).))).)).))))((......))))).))))))).))......((.(((.((((((.....)))))).))).)) ( -40.90)
>DroYak_CAF1 95758 113 - 1
AGAUGUCCUGCGGAGCUACGCACGAGUGCCUCUCAAUGGACAGGACAAUGCGCACAUUCUUCGCCGGCAGGACCUCUCGCCAGCAUUCACACUCGACGGUCGAGUGAGAAAGC
(((.(((((((((((.(((......))).))))...(((...(((.((((....)))).))).)))))))))).))).....((.(((.((((((.....)))))).))).)) ( -39.60)
>DroAna_CAF1 88076 113 - 1
AGAUGUCCUGCGGAGCUACGCACGAGUACCUCUCAAUGGAGGAGACAAUGUGAACAUUCUUCGCCGGCAGGACCUCUCGCCGGCAUUCACACUCGACUGUCGAGUGAGAAAGU
....(((((((((((.(((......))).))))...(((.(((((..(((....)))))))).)))))))))).(((((((((((.((......)).))))).)))))).... ( -45.00)
>consensus
AGAUGUCCUGCGGAGCUACGCACGAGUACCUCUCAAUGGACAGGACAAUGCGGACAUUCUUCGCCGGCAGGACCUCUCGCCAGCAUUCACACUCGACGGUCGAGUGAGAAAGC
.((.(((((((((((.(((......))).))))...(((...(((.((((....)))).))).)))))))))).))......((.(((.((((((.....)))))).))).)) (-39.26 = -39.07 +  -0.19)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:50:34 2006