Locus 2660

Sequence ID 3L_DroMel_CAF1
Location 7,375,745 – 7,375,844
Length 99
Max. P 0.955501
window4166 window4167

overview

Window 6

Location 7,375,745 – 7,375,844
Length 99
Sequences 3
Columns 101
Reading direction forward
Mean pairwise identity 86.09
Mean single sequence MFE -23.34
Consensus MFE -22.05
Energy contribution -21.62
Covariance contribution -0.43
Combinations/Pair 1.17
Mean z-score -1.89
Structure conservation index 0.94
SVM decision value 1.46
SVM RNA-class probability 0.955501
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7375745 99 + 23771897
UUUCGAUCUCAAGUGAGUGGGUCACCCAAAUGGAAUUCAGCAAAAAUAAAAAUAGCGAGAUUAAGUUCCGUAUGGAAUAGAAAAAGUGGGUGUCAAAA--A
...(.(.(((....)))).)(.((((((.....((((..((.............))..))))..(((((....)))))........)))))).)....--. ( -18.22)
>DroSec_CAF1 27488 100 + 1
UUUCGAUCCCAAGUGGUUGGGUCACCCAAAUGGAAUUUAGCGA-AAUAAAAACACCGAAAUUAAGUUCCAUAUGGAAUAGAAACAGUGGGUAUCGAAACUA
(((((((((((.((((.....))))(((.((((((((((.((.-...........))....)))))))))).)))...........)))).)))))))... ( -28.30)
>DroSim_CAF1 20373 95 + 1
UUUCGAUCUCAAGUGGUUGGGUCACCCAAGUGGAAUUUAGCGA-AAUAAAAACACCGAGAUUAAGUUCCGUAUGGAAU-----CAGUGGGUGUCGAAACUA
(((((((((((.((((.....))))(((..(((((((((((..-..............).))))))))))..)))...-----...)))).)))))))... ( -23.49)
>consensus
UUUCGAUCUCAAGUGGUUGGGUCACCCAAAUGGAAUUUAGCGA_AAUAAAAACACCGAGAUUAAGUUCCGUAUGGAAUAGAAACAGUGGGUGUCGAAACUA
(((((((((((.((((.....))))(((.(((((((((((....................))))))))))).)))...........)))).)))))))... (-22.05 = -21.62 +  -0.43)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 7,375,745 – 7,375,844
Length 99
Sequences 3
Columns 101
Reading direction reverse
Mean pairwise identity 86.09
Mean single sequence MFE -21.08
Consensus MFE -15.50
Energy contribution -15.07
Covariance contribution -0.43
Combinations/Pair 1.21
Mean z-score -2.15
Structure conservation index 0.74
SVM decision value 0.30
SVM RNA-class probability 0.680541
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7375745 99 - 23771897
U--UUUUGACACCCACUUUUUCUAUUCCAUACGGAACUUAAUCUCGCUAUUUUUAUUUUUGCUGAAUUCCAUUUGGGUGACCCACUCACUUGAGAUCGAAA
.--((((((((((((.........((((....)))).........((.............))...........)))))).....(((....))).)))))) ( -17.72)
>DroSec_CAF1 27488 100 - 1
UAGUUUCGAUACCCACUGUUUCUAUUCCAUAUGGAACUUAAUUUCGGUGUUUUUAUU-UCGCUAAAUUCCAUUUGGGUGACCCAACCACUUGGGAUCGAAA
...(((((((.((((...........(((.((((((......((..(((........-.)))..)))))))).)))(((.......))).))))))))))) ( -24.50)
>DroSim_CAF1 20373 95 - 1
UAGUUUCGACACCCACUG-----AUUCCAUACGGAACUUAAUCUCGGUGUUUUUAUU-UCGCUAAAUUCCACUUGGGUGACCCAACCACUUGAGAUCGAAA
...((((((....(((((-----(((((....)))).......))))))........-.............((..((((.......))))..)).)))))) ( -21.01)
>consensus
UAGUUUCGACACCCACUGUUUCUAUUCCAUACGGAACUUAAUCUCGGUGUUUUUAUU_UCGCUAAAUUCCAUUUGGGUGACCCAACCACUUGAGAUCGAAA
...((((((((((((.........((((....)))).........((.((((...........)))).))...))))))......((....))..)))))) (-15.50 = -15.07 +  -0.43)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:38:42 2006