Locus 7004

Sequence ID 3L_DroMel_CAF1
Location 18,928,587 – 18,928,691
Length 104
Max. P 0.693359
window11363

overview

Window 3

Location 18,928,587 – 18,928,691
Length 104
Sequences 4
Columns 106
Reading direction reverse
Mean pairwise identity 75.08
Mean single sequence MFE -38.17
Consensus MFE -17.73
Energy contribution -20.10
Covariance contribution 2.37
Combinations/Pair 1.05
Mean z-score -2.28
Structure conservation index 0.46
SVM decision value 0.33
SVM RNA-class probability 0.693359
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 18928587 104 - 23771897
AUGUGCAAUCAGACCGACACGUAUGUGCUACGUGUGUGCGUGUAUUGAUGUGUU-GGUGUGCCGGUGUGGGUGGCUCCUC-GCCGCCCAUCGAACACCACCCACCA
..(((....((.((((((((((..((((.((((....))))))))..)))))))-))).))..((((((((((((.....-))))))).....)))))...))).. ( -44.70)
>DroSec_CAF1 63287 87 - 1
AUGUGCAAUCAGACCGACACGUAUGUGCUACGUGUGUGCGUGUGUUG-----------------GUGUGGGUGGCUCCUC-CCCGC-CAUCGAAAAAUACCCACCA
..(((....((.(((((((((..((..(.....)..))..)))))))-----------------)).))((((((.....-...))-))))..........))).. ( -29.90)
>DroSim_CAF1 63970 81 - 1
AUGUGCAAUCAGACCGACACGUAUGUGCUACGUGUGUGCGUGUAUUG-----------------GUGUGGGUGGGUCCUC-CCCGCCCAUCGAAAA-------CCA
........((..(((.(((((((((..(...)..)))))))))...)-----------------))(((((((((.....-))))))))).))...-------... ( -31.30)
>DroYak_CAF1 63214 106 - 1
AUGUGCAAUCAGACAGACACGUAUGUGCUACGUGUGUGCGUGUGUUGGUGGGUGGGGUCUGGUGGUGCCCCUCCCCCCUCCUCCUCCCAUCGAACCCCACCCACCG
..(..((....(.((.(((((((.....))))))).))).))..).((((((((((((.((((((.....................)))))).)))))))))))). ( -46.80)
>consensus
AUGUGCAAUCAGACCGACACGUAUGUGCUACGUGUGUGCGUGUAUUG_________________GUGUGGGUGGCUCCUC_CCCGCCCAUCGAAAACCACCCACCA
........((......(((((((((..(...)..))))))))).......................(((((((((......))))))))).))............. (-17.73 = -20.10 +   2.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:35:20 2006