Locus 3792

Sequence ID	3L_DroMel_CAF1
Location	10,951,325 – 10,951,433
Length	108
Max. P	0.630130

overview

Window 3

Location	10,951,325 – 10,951,433
Length	108
Sequences	5
Columns	113
Reading direction	forward
Mean pairwise identity	82.05
Mean single sequence MFE	-45.38
Consensus MFE	-28.32
Energy contribution	-29.90
Covariance contribution	1.58
Combinations/Pair	1.03
Mean z-score	-1.86
Structure conservation index	0.62
SVM decision value	0.20
SVM RNA-class probability	0.630130
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10951325 108 + 23771897
UCGGUGGUGCGGUGGUGGCCGGUGG-----UGGUACGGUGGUGCAGUUGUGCAGUGGUGCCGCUUCUGCCAUCCAUGUCCGGCGGCAAUUGUAAUUACCGCAGUUGCGCCUCC
..((.((((((((((((((.((.((-----((((((.(..(..(....)..)..).)))))))).)))))).)))).....((((.(((....))).))))...)))))).)) ( -48.10)
>DroSec_CAF1 83697 86 + 1
UCGGUGGUGCGGU---GGCCGGUGG------------------------UGCAGUGGUGCCGCUUCUGCCAUCCAUGUCCGGCGGCAAUUGUAAUUACCGCAGUUGCGCCUCC
..((..(((.(((---(((.(((((------------------------..(....)..)))))...)))))))))..))((((.(((((((.......)))))))))))... ( -39.30)
>DroSim_CAF1 81062 105 + 1
UCGGUGGUGCGGU---GGCCGGUGG-----UGGUUCGGUGGUGCAGUUGUGCAGUGGUGCCGCUUCUGCCAUCCAUGUCCGGCGGCAAUUGUAAUUACCGCAGUUGCGCCUCC
..((.(((((.((---.((((((((-----((((..(((((..(..((....))..)..)))))...)))).)))...))))).))((((((.......))))))))))).)) ( -46.60)
>DroEre_CAF1 84043 110 + 1
UCGGUGGUGCGGC---GGCCGGUGGUUCGCUGGUUCGGUGGUGCAGUGAUGCAGUGGUGCCGCUGCUGCCGUCCAUGUCCGGCGGCAAUUGUAAUUACCGCAGUUGCGCCUCC
..((.((((((((---((((((((...))))))))((((((((((((...((((((....))))))(((((((.......)))))))))))).)))))))..)))))))).)) ( -55.70)
>DroYak_CAF1 85752 87 + 1
UCGGUGGUGCG--------------------------GUGGUGCAGUGAUGCAGUGGUGCCGCUUCUGCCGUCCAUGUCCGCCGGCAAUUGUAAUUACCGCAGUUGCGCCUCC
..((.(((.((--------------------------((((((((....))))((((.((.((....)).))))))..))))))((((((((.......))))))))))).)) ( -37.20)
>consensus
UCGGUGGUGCGGU___GGCCGGUGG_____UGGU_CGGUGGUGCAGUGAUGCAGUGGUGCCGCUUCUGCCAUCCAUGUCCGGCGGCAAUUGUAAUUACCGCAGUUGCGCCUCC
..((.((((((((....))).................((((((......((((((..(((((((...((.......))..)))))))))))))..))))))....))))).)) (-28.32 = -29.90 +   1.58)

alignment

secondary structure

dotplot

Window 4

Location	10,951,325 – 10,951,433
Length	108
Sequences	5
Columns	113
Reading direction	reverse
Mean pairwise identity	82.05
Mean single sequence MFE	-34.26
Consensus MFE	-25.97
Energy contribution	-27.38
Covariance contribution	1.41
Combinations/Pair	1.04
Mean z-score	-1.46
Structure conservation index	0.76
SVM decision value	-0.06
SVM RNA-class probability	0.505327
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10951325 108 - 23771897
GGAGGCGCAACUGCGGUAAUUACAAUUGCCGCCGGACAUGGAUGGCAGAAGCGGCACCACUGCACAACUGCACCACCGUACCA-----CCACCGGCCACCACCGCACCACCGA
((.((.((......((((((....))))))(((((...((((((((((..((((.....))))....)))).....))).)))-----...))))).......)).)).)).. ( -35.20)
>DroSec_CAF1 83697 86 - 1
GGAGGCGCAACUGCGGUAAUUACAAUUGCCGCCGGACAUGGAUGGCAGAAGCGGCACCACUGCA------------------------CCACCGGCC---ACCGCACCACCGA
((.((.((..(.((((((((....)))))))).).....((.((((....(..(((....))).------------------------.)....)))---))))).)).)).. ( -31.50)
>DroSim_CAF1 81062 105 - 1
GGAGGCGCAACUGCGGUAAUUACAAUUGCCGCCGGACAUGGAUGGCAGAAGCGGCACCACUGCACAACUGCACCACCGAACCA-----CCACCGGCC---ACCGCACCACCGA
((.((.((......((((((....))))))(((((...(((...((((..((((.....))))....)))).)))..(.....-----.).))))).---...)).)).)).. ( -34.30)
>DroEre_CAF1 84043 110 - 1
GGAGGCGCAACUGCGGUAAUUACAAUUGCCGCCGGACAUGGACGGCAGCAGCGGCACCACUGCAUCACUGCACCACCGAACCAGCGAACCACCGGCC---GCCGCACCACCGA
((.((.((..(.((((((((....)))))))).).....((.((((.((((.(....).)))).((.(((...........))).)).......)))---))))).)).)).. ( -39.50)
>DroYak_CAF1 85752 87 - 1
GGAGGCGCAACUGCGGUAAUUACAAUUGCCGGCGGACAUGGACGGCAGAAGCGGCACCACUGCAUCACUGCACCAC--------------------------CGCACCACCGA
((.((.((..((((((((((....)))))).))))...(((...((((..((((.....))))....)))).))).--------------------------.)).)).)).. ( -30.80)
>consensus
GGAGGCGCAACUGCGGUAAUUACAAUUGCCGCCGGACAUGGAUGGCAGAAGCGGCACCACUGCACAACUGCACCACCG_ACCA_____CCACCGGCC___ACCGCACCACCGA
((.((.((...((((((........(((((((((....))).))))))..((((.....))))...)))))).....................((......)))).)).)).. (-25.97 = -27.38 +   1.41)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:06:47 2006