Locus 2843

Sequence ID X_DroMel_CAF1
Location 7,579,910 – 7,580,005
Length 95
Max. P 0.651738
window4663 window4664

overview

Window 3

Location 7,579,910 – 7,580,005
Length 95
Sequences 4
Columns 117
Reading direction forward
Mean pairwise identity 78.14
Mean single sequence MFE -33.27
Consensus MFE -25.36
Energy contribution -24.68
Covariance contribution -0.69
Combinations/Pair 1.31
Mean z-score -1.48
Structure conservation index 0.76
SVM decision value 0.17
SVM RNA-class probability 0.618271
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7579910 95 + 22224390
------UUGGGCGGCGGUGCCAGAC----------------UGGCGGUGUUGCCAUUAGCCGGUUACCGUUUUCAAGCCAAGUCUAGCUAGUUUUUGUGUACCGCCGAAAAAUACAU
------.....((((((((((((((----------------((((((((..(((.......)))))))(((....)))........)))))))..)).))))))))).......... ( -34.00)
>DroSec_CAF1 2703 111 + 1
------UUGGGCGGCGGUGCCAGACUGGCGGCGGGCCAGAUUAGUGGUGUUGCCAUUAGCCGGUUACCGUUUUCAAGCCAAAUCUAGCUAGCUUUUGUGUACCGCCGAAAUAUACCU
------..((.(((((((((((((..(((((((((((.(.(((((((.....)))))))).)))..)))))....(((........))).))))))).))))))))).......)). ( -41.10)
>DroSim_CAF1 2892 95 + 1
------UUGGGCGGCGGUGCCAGAC----------------UAGUGGUGUUGCCAUUAGCCGGCUACCGUUUUCAAGCCAAAUCUAGCUAGCUUUUGUGUACCGCCGAAAUAUACCU
------..((.((((((((((((((----------------((((((.....)))))))..((((..........))))..............)))).))))))))).......)). ( -34.10)
>DroEre_CAF1 2715 101 + 1
UGACAUGUGGGUGGCGGUGCCAGAC----------------UCGCUGCAUUGCCUCUAACCGGUUAUCGUUUUCAAGCCAAAUCUAGCUGGAUUUUGUGUAUAGCUAAAAAAUACAA
..((((.((((.((((((((.((..----------------...)))))))))))))).(((((((..((((.......)))).))))))).....))))................. ( -23.90)
>consensus
______UUGGGCGGCGGUGCCAGAC________________UAGCGGUGUUGCCAUUAGCCGGUUACCGUUUUCAAGCCAAAUCUAGCUAGCUUUUGUGUACCGCCGAAAAAUACAU
...........(((((((((((((..................(((((((..(((.......))))))))))....(((........)))....)))).))))))))).......... (-25.36 = -24.68 +  -0.69)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 4

Location 7,579,910 – 7,580,005
Length 95
Sequences 4
Columns 117
Reading direction reverse
Mean pairwise identity 78.14
Mean single sequence MFE -30.50
Consensus MFE -19.27
Energy contribution -19.15
Covariance contribution -0.12
Combinations/Pair 1.22
Mean z-score -1.75
Structure conservation index 0.63
SVM decision value 0.25
SVM RNA-class probability 0.651738
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7579910 95 - 22224390
AUGUAUUUUUCGGCGGUACACAAAAACUAGCUAGACUUGGCUUGAAAACGGUAACCGGCUAAUGGCAACACCGCCA----------------GUCUGGCACCGCCGCCCAA------
..........(((((((............((((((((.(((.......(((...))).....((....))..))))----------------)))))))))))))).....------ ( -32.60)
>DroSec_CAF1 2703 111 - 1
AGGUAUAUUUCGGCGGUACACAAAAGCUAGCUAGAUUUGGCUUGAAAACGGUAACCGGCUAAUGGCAACACCACUAAUCUGGCCCGCCGCCAGUCUGGCACCGCCGCCCAA------
..........(((((((........((..(((((((((((........(((...))).....((....)))))..))))))))..)).(((.....)))))))))).....------ ( -35.90)
>DroSim_CAF1 2892 95 - 1
AGGUAUAUUUCGGCGGUACACAAAAGCUAGCUAGAUUUGGCUUGAAAACGGUAGCCGGCUAAUGGCAACACCACUA----------------GUCUGGCACCGCCGCCCAA------
...........((((((......(((((((......)))))))......(((.((((((((.(((.....))).))----------------).))))))))))))))...------ ( -35.50)
>DroEre_CAF1 2715 101 - 1
UUGUAUUUUUUAGCUAUACACAAAAUCCAGCUAGAUUUGGCUUGAAAACGAUAACCGGUUAGAGGCAAUGCAGCGA----------------GUCUGGCACCGCCACCCACAUGUCA
.(((((.........))))).........(((((((((((((((....(..(((....)))..).))).))..)))----------------))))))).................. ( -18.00)
>consensus
AGGUAUAUUUCGGCGGUACACAAAAGCUAGCUAGAUUUGGCUUGAAAACGGUAACCGGCUAAUGGCAACACCACUA________________GUCUGGCACCGCCGCCCAA______
..........(((((((............(((((((((((((.(..........).))))))((....))......................))))))))))))))........... (-19.27 = -19.15 +  -0.12)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:44:52 2006