Locus 4759

Sequence ID	2L_DroMel_CAF1
Location	13,575,059 – 13,575,174
Length	115
Max. P	0.878981

overview

Window 0

Location	13,575,059 – 13,575,174
Length	115
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	82.77
Mean single sequence MFE	-25.18
Consensus MFE	-17.46
Energy contribution	-19.06
Covariance contribution	1.60
Combinations/Pair	1.12
Mean z-score	-1.99
Structure conservation index	0.69
SVM decision value	0.64
SVM RNA-class probability	0.807841
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13575059 115 + 22407834
CUCCGUCCUGCCACCAACUGCCACCCACAGCCCAACACCCCAUCAUC-----CCACCCAUUACCCAUUACCCACGGGCGCAUUGUUUACUGUGGUGUGCAGCAUAUUGGUUGAAGUAAAA
.......((.(.(((((((((((((.((((...((((((((......-----......................))).)...))))..)))))))).))))....))))).).))..... ( -23.09)
>DroSec_CAF1 8269 120 + 1
CUUCGUCCUUCCACCAACAGCCACCCACAGCCCAACUCCCCAUCACCCCAUCUCACCCAUUACCCAUUACCCACGGGCUCAUUGUUUACUGUGGUGUGCAGCAUAUUGGUUGAAGUAAAA
.......((((.(((((..(((((((((((..(((...(((.................................)))....)))....)))))).)))..))...))))).))))..... ( -23.81)
>DroSim_CAF1 8056 120 + 1
NNNNNNNNNNNNACCAACUGCCACCCACCGCCCAACUCCCCAUCACCCCAUCUCACCCAUUACCCAUUACCCACGGGCUCAUUGUUUACUGUGGUGUGCAGCAUAUUGGUUGAAGUAAAA
............(((((((((((((((..((((.........................................)))).....(....))).)))).))))....))))).......... ( -18.28)
>DroEre_CAF1 8732 116 + 1
CUCCGCCCUUCCACCAGCUGCCACCCACAGCCCAACAC-CCAUUACC-CA--UUACCCAUUACCCAUUACCCACGGGCGCUUUGUUUACUGUGGUGUGCAGCAUAUUGGCUGGAGUAAUA
(((((((.........(((((((((.((((...((((.-......((-(.--......................))).....))))..)))))))).))))).....))).))))..... ( -30.14)
>DroYak_CAF1 5404 116 + 1
CUCCGCCCUUCCACCAACUGCCACCCACAGCCCACAGC-CCAGAUCC-CA--UCACCAAGCACCCAUUACCCACGGGUGCAUUGUUUACUGUGGUGUGAAGACUAUUGGUUGACGUUAUA
.........((.(((((((..(((((((((...((((.-...(((..-.)--)).....((((((.........)))))).))))...)))))).))).))....))))).))....... ( -30.60)
>consensus
CUCCGCCCUUCCACCAACUGCCACCCACAGCCCAACACCCCAUCACC_CA__UCACCCAUUACCCAUUACCCACGGGCGCAUUGUUUACUGUGGUGUGCAGCAUAUUGGUUGAAGUAAAA
.......((((.(((((((((((((.(((((((.........................................)))).....(....)))))))).))))....))))).))))..... (-17.46 = -19.06 +   1.60)

alignment

secondary structure

dotplot

Window 1

Location	13,575,059 – 13,575,174
Length	115
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	82.77
Mean single sequence MFE	-39.55
Consensus MFE	-28.56
Energy contribution	-30.24
Covariance contribution	1.68
Combinations/Pair	1.14
Mean z-score	-2.08
Structure conservation index	0.72
SVM decision value	0.91
SVM RNA-class probability	0.878981
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 13575059 115 - 22407834
UUUUACUUCAACCAAUAUGCUGCACACCACAGUAAACAAUGCGCCCGUGGGUAAUGGGUAAUGGGUGG-----GAUGAUGGGGUGUUGGGCUGUGGGUGGCAGUUGGUGGCAGGACGGAG
.....((((.((((((.(((..(...(((((((...((((((.(((((.(..................-----..).))))))))))).))))))))..)))))))))(......))))) ( -38.05)
>DroSec_CAF1 8269 120 - 1
UUUUACUUCAACCAAUAUGCUGCACACCACAGUAAACAAUGAGCCCGUGGGUAAUGGGUAAUGGGUGAGAUGGGGUGAUGGGGAGUUGGGCUGUGGGUGGCUGUUGGUGGAAGGACGAAG
.....((((.(((((((.((..(...(((((((...((((...(((((.(.(......((.....))......).).)))))..)))).))))))))..))))))))).))))....... ( -39.50)
>DroSim_CAF1 8056 120 - 1
UUUUACUUCAACCAAUAUGCUGCACACCACAGUAAACAAUGAGCCCGUGGGUAAUGGGUAAUGGGUGAGAUGGGGUGAUGGGGAGUUGGGCGGUGGGUGGCAGUUGGUNNNNNNNNNNNN
..........((((((.(((..(.((((.((....((.....((((((.....)))))).....))....)).(.(.(........).).))))).)..)))))))))............ ( -29.80)
>DroEre_CAF1 8732 116 - 1
UAUUACUCCAGCCAAUAUGCUGCACACCACAGUAAACAAAGCGCCCGUGGGUAAUGGGUAAUGGGUAA--UG-GGUAAUGG-GUGUUGGGCUGUGGGUGGCAGCUGGUGGAAGGGCGGAG
.....((((.(((..((((((((...(((((((.((((.(..((((((.....((.....)).....)--))-)))..)..-.))))..)))))))...)))))..)))....))))))) ( -43.70)
>DroYak_CAF1 5404 116 - 1
UAUAACGUCAACCAAUAGUCUUCACACCACAGUAAACAAUGCACCCGUGGGUAAUGGGUGCUUGGUGA--UG-GGAUCUGG-GCUGUGGGCUGUGGGUGGCAGUUGGUGGAAGGGCGGAG
.....((((.((((((.((((((((((((((((...(((.((((((((.....)))))))))))..((--(.-..)))...-)))))))..)))))).))).)))))).....))))... ( -46.70)
>consensus
UUUUACUUCAACCAAUAUGCUGCACACCACAGUAAACAAUGCGCCCGUGGGUAAUGGGUAAUGGGUGA__UG_GGUGAUGGGGAGUUGGGCUGUGGGUGGCAGUUGGUGGAAGGACGGAG
..........((((....(((((...(((((((...((((((((((((.....)))))).......................)))))).)))))))...)))))))))............ (-28.56 = -30.24 +   1.68)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:34 2006