Locus 3746

Sequence ID X_DroMel_CAF1
Location 9,957,304 – 9,957,422
Length 118
Max. P 0.557770
window6154

overview

Window 4

Location 9,957,304 – 9,957,422
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.15
Mean single sequence MFE -28.96
Consensus MFE -23.34
Energy contribution -23.58
Covariance contribution 0.24
Combinations/Pair 1.03
Mean z-score -1.45
Structure conservation index 0.81
SVM decision value 0.05
SVM RNA-class probability 0.557770
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 9957304 118 + 22224390
AAAAAAUAAGUCAAAACGAGACCAGAAAAAUAUGCUUCCCGGUUAUGCAAUCCCGAUUGUCUGCAGGCCAAAACGAAACGGUUUU-UGUUUC-AGCGCAGGCGAUUUUUAAUUGCAUGUU
...................((((.(((........)))..))))(((((((...((((((((((..((..((((((((....)))-))))).-.))))))))))))....)))))))... ( -29.70)
>DroSec_CAF1 25318 112 + 1
-----AUAAGUCAAAACGAGACCAGAA--AUAUGUUUCCCGGUUAUGCAAUCCCGAUUGUCUGCAGGCCAAAACGAAACGGUUUUGUGUUUC-AGCGCAGGCGAUUUUUAAUUGCAUGUU
-----..............((((.(((--(....))))..))))(((((((...((((((((((((((((((((......)))))).)))).-...))))))))))....)))))))... ( -30.70)
>DroSim_CAF1 6515 117 + 1
AAAAAAUAAGUCAAAACGAGACCAGAA--AUAUGUUUCCCGGUUAUGCAAUCCCGAUUGUCUGCAGGCCAAAACGAAACGGUUUUUUGUUUC-AGCGCAGGCGAUUUUUAAUUGCAUGUU
...................((((.(((--(....))))..))))(((((((...((((((((((..((..((((((((.....)))))))).-.))))))))))))....)))))))... ( -30.70)
>DroEre_CAF1 19989 116 + 1
AAAAAAUAAGUCAAAACGAGACCAGAA--AUAUGUUUCCCGGUUAUGCAAUCCCGAUUGUCUGCGGGCCAAAACGAAACGGUUUU-UGUUUU-AGCGCAGCCGAUUUUUAAUUACAUGUU
.((((((..........(((((.(...--.)..))))).(((((.(((...((((........))))..(((((((((....)))-))))))-.))).)))))))))))........... ( -23.60)
>DroYak_CAF1 19713 117 + 1
AAAAAAUAAGCGAAAACGAGACCAGAA--AUAUGUUUCCCGGUUAUGCAAUCCCGAUUGUCUGCAGGCCAAAACGAAACGGUUUU-UGUUUUCAGCGCAGGCGAUUUUUAAUUGCAUGUU
...................((((.(((--(....))))..))))(((((((...((((((((((..((.(((((((((....)))-))))))..))))))))))))....)))))))... ( -30.10)
>consensus
AAAAAAUAAGUCAAAACGAGACCAGAA__AUAUGUUUCCCGGUUAUGCAAUCCCGAUUGUCUGCAGGCCAAAACGAAACGGUUUU_UGUUUC_AGCGCAGGCGAUUUUUAAUUGCAUGUU
...................((((.(((........)))..))))(((((((...(((((((((((((((..........)))))...((.....))))))))))))....)))))))... (-23.34 = -23.58 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:24 2006