Locus 1490

Sequence ID 3L_DroMel_CAF1
Location 4,329,297 – 4,329,411
Length 114
Max. P 0.505182
window2321

overview

Window 1

Location 4,329,297 – 4,329,411
Length 114
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 83.80
Mean single sequence MFE -30.02
Consensus MFE -20.51
Energy contribution -22.07
Covariance contribution 1.56
Combinations/Pair 1.07
Mean z-score -1.87
Structure conservation index 0.68
SVM decision value -0.06
SVM RNA-class probability 0.505182
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 4329297 114 + 23771897
UCCAAGUAACCUCGAAACGUGCCAAAACCGCAAAGAUCUGUCAUCUUAAACAGA-----GCAGCUGCUCCAG-ACGCAGUCAGCAAACAGUUGACAAUUGGCGCUCGUUAGGUGAACACA
.....((.(((((((...(((((((....((.(((((.....))))).....((-----((....))))...-..)).((((((.....))))))..))))))))))..))))..))... ( -33.60)
>DroSec_CAF1 15871 115 + 1
UCCAAGUAACCUCGAAACGUGCCAAAACCGCAAAGAUCUGUCAUAUUGUACAGA-----GCAGCUGGUCCAAAACCCAGUCAGCAAACAGUUGACAAUUGGCGCUCGUUAGGUGAACACA
.....((.(((((((...(((((((.(((((.....((((((.....).)))))-----...)).)))..........((((((.....))))))..))))))))))..))))..))... ( -32.30)
>DroSim_CAF1 14436 120 + 1
UCCAAGUAACCUCGAAACGUGCCAAAACCGCAAAGAUCUGUCAUAUUGUACAGAGCAGAGCAGCUGGUCCAAAACCCAGUAAGCAAACAGUUGACAAUUGGCGCUCGUUAGGUUAACACA
......(((((((((...(((((((....((.....((((((.....).))))).....)).(((((........))))).................))))))))))..))))))..... ( -30.50)
>DroEre_CAF1 15826 111 + 1
UCCAAGUAACCUCGAAACGUGCCAAAACCGCAAAGAUCUGUCAUAU---ACAGA-----GCAGCUGGUCCAA-ACCAAUUCAGCAAACAGUUGACAAUUGGCGCUCGUUAGGCGAACACA
.....((..((((((...(((((((.(((((.....(((((.....---)))))-----...)).)))....-......(((((.....)))))...))))))))))..)))...))... ( -25.30)
>DroYak_CAF1 14985 111 + 1
UCCAAGUAACCUCGAAACGUGCCAAAACCGCAAAGAUCUGUCAUAU---ACAGA-----GCAGCUGGUCCAA-ACCAAGUCAGCAAACAGUUGACAAUUGGCGCUCGUUAGGUGCACACA
.....((.(((((((...(((((((.(((((.....(((((.....---)))))-----...)).)))....-.....((((((.....))))))..))))))))))..))))..))... ( -32.30)
>DroAna_CAF1 15786 108 + 1
UCCAAGUAACCUCGAAACGUGCCAAAGCUGUAUAGAUCUCUA-GCUACUAUAUG-----GCAGCA-----AG-AGGUGGCCCGCGAAUAGUUGACAAUUGCGGCUCAUUAGGCCCUCAUA
........(((((......(((....(((((((((.......-....)))))))-----)).)))-----.)-))))((((....((((((((.(....)))))).))).))))...... ( -26.10)
>consensus
UCCAAGUAACCUCGAAACGUGCCAAAACCGCAAAGAUCUGUCAUAUU_UACAGA_____GCAGCUGGUCCAA_ACCCAGUCAGCAAACAGUUGACAAUUGGCGCUCGUUAGGUGAACACA
........(((((((...(((((((....((.....(((((........))))).....)).................((((((.....))))))..))))))))))..))))....... (-20.51 = -22.07 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:09:02 2006