Locus 5838

Sequence ID 2R_DroMel_CAF1
Location 18,493,591 – 18,493,831
Length 240
Max. P 0.749012
window9358 window9359

overview

Window 8

Location 18,493,591 – 18,493,711
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 89.92
Mean single sequence MFE -41.90
Consensus MFE -32.08
Energy contribution -30.68
Covariance contribution -1.40
Combinations/Pair 1.34
Mean z-score -1.77
Structure conservation index 0.77
SVM decision value 0.47
SVM RNA-class probability 0.749012
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18493591 120 - 20766785
UACAAGUCAGGUUGGGAACCAGCAGCUGCGGCACUAGUGGAUCAAUUGCUGGAAUCUGUAAGGUCAAAGUUCAUAGCCAGUACUCCAGCUGGCGCUUUGACAAUAACUUGGCUCUCUUGA
....(((((((((((((.(((((((.(((.((....)).)..)).)))))))..))).....((((((((.....((((((......))))))))))))))..))))))))))....... ( -42.20)
>DroSec_CAF1 12302 120 - 1
UACAAGUCAGGUUGGGAACCAGCAGUUGCGGCACUGGUGGAUCGAAUGUCGGAAUCUGCGAGGUCAAAGUUCAUAGCCAGUACUCCAGCUGGCGCUUCGACAAUAACCUGGCUCUAUUGA
....((((((((((.((.(((.((((......)))).))).))...(((((((....(((((.......)))...((((((......))))))))))))))).))))))))))....... ( -43.10)
>DroSim_CAF1 881 120 - 1
UACAAGUCAGGUUGGGAACCAGCAGCUGCGGCACUGGUGGAUCGAAUGUCGGAAUCUGCGAGGUCAAAGUUCAUAGCCAGUACUCUAGCUGGCGCUUCGACAAUAACCUGGCUCUAUUGA
....((((((((((.((.(((.(((........))).))).))...(((((((....(((((.......)))...((((((......))))))))))))))).))))))))))....... ( -41.70)
>DroEre_CAF1 17699 120 - 1
UACAAGUCAGGCUGGGAAGCAGCAGCUGCGGAACCGGCGGCUCGAAGGUUGGAAUCUGCGAGGUGAAAGUGCACAGCCAGUACUCCAGUUGGCGCUUCGACAAUAACCUGGCUCUAUUGA
....(((((((.((.(((((..((((((.((.((.(((..((((.((((....)))).))))(((......))).))).)).)).))))))..)))))..))....)))))))....... ( -42.20)
>DroYak_CAF1 19471 120 - 1
UACAAGUCAGGUUGGGCACCAGCAGCUGCGGAACCGGUGGAUCGAAGUUUGGCAUCUGCGAGGUUAAAGUUCAUAGCCAGUACUCCAAUUGGCGCUUCGACAAUAACCUGGCUCUAUUGA
....((((((((((((((((.((((.(((.(((((((....)))..)))).))).))))..)))...........((((((......))))))))).......))))))))))....... ( -40.31)
>consensus
UACAAGUCAGGUUGGGAACCAGCAGCUGCGGCACUGGUGGAUCGAAUGUUGGAAUCUGCGAGGUCAAAGUUCAUAGCCAGUACUCCAGCUGGCGCUUCGACAAUAACCUGGCUCUAUUGA
....((((((((((......(((...(((((..(((((.........)))))...)))))...............((((((......))))))))).......))))))))))....... (-32.08 = -30.68 +  -1.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 18,493,711 – 18,493,831
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 92.00
Mean single sequence MFE -42.68
Consensus MFE -38.90
Energy contribution -38.82
Covariance contribution -0.08
Combinations/Pair 1.16
Mean z-score -1.13
Structure conservation index 0.91
SVM decision value 0.01
SVM RNA-class probability 0.538075
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18493711 120 + 20766785
UGCUCCUGGCGCUGUAGCCAUCCACACACUUGGCGGCAGUCAGGAUGUAGUUCUUCGAGAUAAUGGCACCACCGCACUUGAGCUUCGAAUUGACUAUGAUGGAGGCAUACCACGGUGCAU
(((.(((((...(((..(((((......((((((....))))))..((((((.((((((.....((.....))((......))))))))..)))))))))))..)))..))).)).))). ( -37.90)
>DroSec_CAF1 12422 120 + 1
UGCUCCUGGCACUGUAGCCAUCCACACACUUGGCGGCAGUCAGGAUGUAGUUCUUCGAGAUAAUGGCGCCACCGCACUUCAGCUUCGAAUCGACUAUGAUGGAGGCAUGCCACGGGGCAU
(((((((((((.(((..(((((......((((((....))))))..((((((.((((((.....((.((....)).)).....))))))..)))))))))))..)))))))).)))))). ( -48.00)
>DroSim_CAF1 1001 120 + 1
UGCUCCUGGCACUGUAGCCAUCCACACACUUGGCGGCAGUCAGGAUGUAGUUCUUCGAGAUAAUGGCGCCACCGCACUUCAGCUUCGAAUCGACUAUGAUAGAGGCAUGCCACGGGGCAU
(((((((((((.(((..(.(((......((((((....))))))..((((((.((((((.....((.((....)).)).....))))))..))))))))).)..)))))))).)))))). ( -41.50)
>DroEre_CAF1 17819 120 + 1
UGUUCCCGGCACUGUAGCCAUCCACACACUUGGCGGCAGUCAGGAUGUAGUUCUUCGAGAUAAUGGCGCCACCGCACUUCAGUUGCGACUGGACUAUGAUGGAGGCAUGCCACGGGGCGU
.(((((.((((.(((..(((((......((((((....))))))..(((((((.(((..((...((.((....)).))...))..)))..))))))))))))..)))))))..))))).. ( -43.50)
>DroYak_CAF1 19591 120 + 1
UGUCCCCGGCAUUGUAGCCAUCCACACACUUGGCGGCAGUCAGGAUGUAGUUCUUUGAGAUGAUGGCACCACCGCACUGCAGUUGCGACCUGACUAUGAUGGAGGCAUGCCAUGGGGCAU
((((((.(((((.((..(((((..((....)).....(((((((.(((((....(((((.((.(((.....))))))).)))))))).)))))))..)))))..)))))))..)))))). ( -42.50)
>consensus
UGCUCCUGGCACUGUAGCCAUCCACACACUUGGCGGCAGUCAGGAUGUAGUUCUUCGAGAUAAUGGCGCCACCGCACUUCAGCUUCGAAUCGACUAUGAUGGAGGCAUGCCACGGGGCAU
(((((((((((.(((..(((((......((((((....))))))..((((((..(((((......((......)).......)).)))...)))))))))))..)))))))).)))))). (-38.90 = -38.82 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:55:50 2006