Locus 9278

Sequence ID 3R_DroMel_CAF1
Location 24,735,625 – 24,735,718
Length 93
Max. P 0.500000
window14835

overview

Window 5

Location 24,735,625 – 24,735,718
Length 93
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 76.20
Mean single sequence MFE -17.07
Consensus MFE -10.52
Energy contribution -10.97
Covariance contribution 0.45
Combinations/Pair 1.06
Mean z-score -1.26
Structure conservation index 0.62
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24735625 93 + 27905053
AAAAAUGCUUGAACGACAUGCUAAAGUUGAAGACCAGCAGCAACAACAACAGCACUAGUAACA---------------GCAAUAAUAAUGCAAUCAUGUC------GCAUUCGC
..........(((((((((((((..((((.....)))).((..........))..))).....---------------(((.......)))...))))))------)..))).. ( -15.00)
>DroSec_CAF1 10201 93 + 1
AAAAAUGCUUGAACGACAUGCUAAAGUUGAAGACCAGCAGCAACAGCAACAACACUAGUAACA---------------GCAAUAAUAAUGCAAUCAUGUC------GCAGUCGC
..........((.((((((((((..((((.....)))).((....))........))).....---------------(((.......)))...))))))------)...)).. ( -16.00)
>DroSim_CAF1 10532 93 + 1
AAAAAUGCUUGAACGACAUGCUAAAGUUGAAGACCAGCAGCAACAGCAACAGCACUAGUAACA---------------GCAAUAAUAAUGCAAUCAUGUC------GCAGUCGC
..........((.(((((((((...((((.....)))).((....))...)))..........---------------(((.......)))....)))))------)...)).. ( -17.00)
>DroWil_CAF1 8610 72 + 1
AAAAAUGCUUAACCGACAUGCUAAAGUUGAAGAGCAACAAC---------------------A---------------GCAAUCCUCCCCCCAUCAUGUC------ACAAUCAU
..............((((((((...((((.....))))...---------------------)---------------)))...............))))------........ (  -8.16)
>DroYak_CAF1 9116 93 + 1
AAAAAUGCUUGAACGACAUGCUAAAGUUGAAGACCAGCGGCAACAGCAACAGCACUAGUAUCA---------------ACAAUAAUAAUGCAAUCAUGUC------GCAGUCGC
..........((.(((((((((...((((.....))))(....))))....(((.((.(((..---------------...))).)).)))....)))))------)...)).. ( -17.60)
>DroAna_CAF1 9268 114 + 1
AAAAAUGCUUGAACGACAUGCUAAAGUUGAAGACCAACAACGCCACUACCAGCACUGGCAACAGCAACCACAAUGGCGGCAAUAAUAAUGCACUCAUGUCGAUGUCGCAGUCGU
.....(((.....(((((((.....((((.....))))..(((((.........(((....))).........)))))(((.......)))...))))))).....)))..... ( -28.67)
>consensus
AAAAAUGCUUGAACGACAUGCUAAAGUUGAAGACCAGCAGCAACAGCAACAGCACUAGUAACA_______________GCAAUAAUAAUGCAAUCAUGUC______GCAGUCGC
.....(((......((((((.....((((.....))))........................................(((.......)))...))))))......)))..... (-10.52 = -10.97 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:30:33 2006