Locus 6588

Sequence ID	3R_DroMel_CAF1
Location	17,340,069 – 17,340,169
Length	100
Max. P	0.762586

overview

Window 5

Location	17,340,069 – 17,340,169
Length	100
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	96.47
Mean single sequence MFE	-25.28
Consensus MFE	-23.10
Energy contribution	-23.30
Covariance contribution	0.20
Combinations/Pair	1.04
Mean z-score	-1.18
Structure conservation index	0.91
SVM decision value	0.51
SVM RNA-class probability	0.762586
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17340069 100 + 27905053
UUGGAAGUGACCAGGGGGCGGAUGGGCGUGUGUCAGUCAAAAAAGUGGAUGCGAGUAUGAAAAAUACAAACGAACAGCCCGAACAGAAUGCGGUUGGUCA
.......(((((...((((...((..((((((((...(......)..)))))..((((.....))))..)))..)))))).(((........)))))))) ( -24.40)
>DroSec_CAF1 16027 100 + 1
UUGGAAGUGACCAGGGGGCGGAUGGGCGUGUGUCAGUCAAAAAAGUGGAUGCGAGUAUGAAAAAUACAAACGAACAGCCCAAACAGAAUGCGGUUGGUCA
.......(((((...((((...((..((((((((...(......)..)))))..((((.....))))..)))..)))))).(((........)))))))) ( -24.30)
>DroSim_CAF1 21623 100 + 1
UUGGAAGUGACCAGGGGGCGGAUGGGCGUGUGUCAGUCAAAAGAGUGGAUGCGAGUAUGAAAAAUACAAACGAACAGCCCGAACAGGAUGCGGUUGGUCA
.......(((((...((((...((..(((((((((.((....)).).)))))..((((.....))))..)))..)))))).(((........)))))))) ( -25.80)
>DroEre_CAF1 21309 100 + 1
UUGGAAGUGACCAGGGGGCCGAUGGGCGUGUGUCAGUCAAAAAAGUGGAUGCGAGUAUGAAAAAUACAAACGAACAGCCCGAACAGAAUGCGGUUGGUCA
.......((((((....((((.(((((.((((((...(......)..)))))).((((.....)))).........))))).........)))))))))) ( -24.80)
>DroYak_CAF1 19878 100 + 1
UUGGAAGUGACCAGGGGGCCGAUGGGCGUGUGUCAGUCAAAAAAGUGGAUGCGAGUAUGAAAAAUACAAACGAACAGCCCGAACAGAAUGCGGUUGGUCA
.......((((((....((((.(((((.((((((...(......)..)))))).((((.....)))).........))))).........)))))))))) ( -24.80)
>DroAna_CAF1 21874 100 + 1
UUGGAAGUGACCGGGGGGUGACCGGGCGAGUGUCAGUCAAAAAAGUGGAUGCGAGUAUGAAAAAUACAAACGAACAGCCCGAACAGAAUGCGGUUGGUCA
...((..((((((.(((....))((((..(((((...(......)..)))))..((((.....)))).........))))........).)))))).)). ( -27.60)
>consensus
UUGGAAGUGACCAGGGGGCGGAUGGGCGUGUGUCAGUCAAAAAAGUGGAUGCGAGUAUGAAAAAUACAAACGAACAGCCCGAACAGAAUGCGGUUGGUCA
.......(((((...((((...((..((((((((...(......)..)))))..((((.....))))..)))..)))))).(((........)))))))) (-23.10 = -23.30 +   0.20)

alignment

secondary structure

dotplot

Window 6

Location	17,340,069 – 17,340,169
Length	100
Sequences	6
Columns	100
Reading direction	reverse
Mean pairwise identity	96.47
Mean single sequence MFE	-19.67
Consensus MFE	-16.82
Energy contribution	-17.15
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-1.57
Structure conservation index	0.85
SVM decision value	0.15
SVM RNA-class probability	0.607164
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 17340069 100 - 27905053
UGACCAACCGCAUUCUGUUCGGGCUGUUCGUUUGUAUUUUUCAUACUCGCAUCCACUUUUUUGACUGACACACGCCCAUCCGCCCCCUGGUCACUUCCAA
((((((...((.....))..(((((((((((..((((.....))))..))...((......))...)).))).))))..........))))))....... ( -18.40)
>DroSec_CAF1 16027 100 - 1
UGACCAACCGCAUUCUGUUUGGGCUGUUCGUUUGUAUUUUUCAUACUCGCAUCCACUUUUUUGACUGACACACGCCCAUCCGCCCCCUGGUCACUUCCAA
((((((...((.....(..((((((((((((..((((.....))))..))...((......))...)).))).)))))..)))....))))))....... ( -20.30)
>DroSim_CAF1 21623 100 - 1
UGACCAACCGCAUCCUGUUCGGGCUGUUCGUUUGUAUUUUUCAUACUCGCAUCCACUCUUUUGACUGACACACGCCCAUCCGCCCCCUGGUCACUUCCAA
((((((...((.....))..(((((((..((..((((.....))))..))...((.((....)).))..))).))))..........))))))....... ( -19.40)
>DroEre_CAF1 21309 100 - 1
UGACCAACCGCAUUCUGUUCGGGCUGUUCGUUUGUAUUUUUCAUACUCGCAUCCACUUUUUUGACUGACACACGCCCAUCGGCCCCCUGGUCACUUCCAA
((((((...((.....))..((((((...((.(((.((..(((..................)))..)).))).))....))))))..))))))....... ( -20.67)
>DroYak_CAF1 19878 100 - 1
UGACCAACCGCAUUCUGUUCGGGCUGUUCGUUUGUAUUUUUCAUACUCGCAUCCACUUUUUUGACUGACACACGCCCAUCGGCCCCCUGGUCACUUCCAA
((((((...((.....))..((((((...((.(((.((..(((..................)))..)).))).))....))))))..))))))....... ( -20.67)
>DroAna_CAF1 21874 100 - 1
UGACCAACCGCAUUCUGUUCGGGCUGUUCGUUUGUAUUUUUCAUACUCGCAUCCACUUUUUUGACUGACACUCGCCCGGUCACCCCCCGGUCACUUCCAA
(((((....((.....))..(((......((..((((.....))))..))...........((((((.........))))))...))))))))....... ( -18.60)
>consensus
UGACCAACCGCAUUCUGUUCGGGCUGUUCGUUUGUAUUUUUCAUACUCGCAUCCACUUUUUUGACUGACACACGCCCAUCCGCCCCCUGGUCACUUCCAA
((((((...((.....))..(((((((((((..((((.....))))..))...((......))...)).))).))))..........))))))....... (-16.82 = -17.15 +   0.33)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:25:15 2006