Locus 3945

Sequence ID X_DroMel_CAF1
Location 10,501,118 – 10,501,221
Length 103
Max. P 0.863912
window6479

overview

Window 9

Location 10,501,118 – 10,501,221
Length 103
Sequences 5
Columns 103
Reading direction forward
Mean pairwise identity 87.96
Mean single sequence MFE -25.80
Consensus MFE -18.50
Energy contribution -20.38
Covariance contribution 1.88
Combinations/Pair 1.12
Mean z-score -2.35
Structure conservation index 0.72
SVM decision value 0.84
SVM RNA-class probability 0.863912
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10501118 103 + 22224390
AAAAUAAGGGCACUAUCAGCAUCGAAAGUAGAGUGGAGCCUAUUGAACGGCGAAAGGAAAUCGAAGGAAAUUCUACUUGGCUGACAAUUGAACUGACUUAAUU
......((..((...(((((.....(((((((((....(((.((((....(....)....)))))))..))))))))).)))))....))..))......... ( -25.70)
>DroSec_CAF1 32181 103 + 1
AAAAUAAGGGCACUAUCAGCAUCGAAAGUAGAGUGGAGCCUAUUGAGCGGCGAAAGGAAAUCGAGGGAAAUUCUACUUGGCUGACAAUUGAACUGACUUAAUU
......((..((...(((((.....(((((((((....(((.((((....(....)....)))))))..))))))))).)))))....))..))......... ( -26.50)
>DroSim_CAF1 32638 103 + 1
AAAAUAAGGGCACUAUCAGCAUCGAAAGUAGAGUGGAGCCUAUUGAGCGGCGAAAGGAAAUCGAGGGAAAUUCUACUUGGCUGACAAUUGAACUGGCUUAAUU
......((..((...(((((.....(((((((((....(((.((((....(....)....)))))))..))))))))).)))))....))..))......... ( -26.50)
>DroEre_CAF1 33957 103 + 1
AAAAUAAGGGCACUAUCAGCAUCCAAGGUAGAGUGGAGCCUAUUGAGAACCGAAAGGAAAUCGAAGGAAAUUCUACUUGGCUGACAAUUGAACAGACUUAAUU
.......(..((...(((((.....(((((((((....(((.((((...((....))...)))))))..))))))))).)))))....))..).......... ( -29.40)
>DroYak_CAF1 35228 89 + 1
AAAAUAAGGCCACUGG--------------AAAUGGAGCCUAUUGAACACCGAAAGGAAAUCGAGGGAAAUUCAACUUGGCUGACAAUUGAACUGGCUUAAUU
......((((((.(..--------------((.((.((((..(((((..((....))...((....))..)))))...))))..)).))..).)))))).... ( -20.90)
>consensus
AAAAUAAGGGCACUAUCAGCAUCGAAAGUAGAGUGGAGCCUAUUGAGCGGCGAAAGGAAAUCGAGGGAAAUUCUACUUGGCUGACAAUUGAACUGACUUAAUU
......((..((...(((((.....(((((((((....(((.((((....(....)....)))))))..))))))))).)))))....))..))......... (-18.50 = -20.38 +   1.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:26 2006