Locus 3070

Sequence ID 3L_DroMel_CAF1
Location 8,860,804 – 8,860,909
Length 105
Max. P 0.862562
window4790

overview

Window 0

Location 8,860,804 – 8,860,909
Length 105
Sequences 6
Columns 105
Reading direction forward
Mean pairwise identity 77.73
Mean single sequence MFE -31.32
Consensus MFE -14.21
Energy contribution -14.49
Covariance contribution 0.28
Combinations/Pair 1.21
Mean z-score -2.42
Structure conservation index 0.45
SVM decision value 0.83
SVM RNA-class probability 0.862562
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8860804 105 + 23771897
ACGUGCAAACUGCAUCUCCUCAAGAUGCACUACUGCCCCAACUGCAAUGGACACCAUUCAAGUUCUAGGAGCGAAACGAAAUUGUGCUACGGCUACUGCAAGAAC
.((((((...(((((((.....)))))))....(((((.((((..(((((...)))))..))))...)).)))...........))).)))((....))...... ( -24.30)
>DroVir_CAF1 141355 99 + 1
ACGUGCCAGCUGCAUCUGCUCAAGAUGCACUACUGCCCCAACUGCAAUGGCCAUCCGGAGU------ACAGCAGGCCCAAGGUCUGCUACAGCUACUGCAUGAAU
.(((((.(((((....(((((..((((..(((.(((.......))).))).))))..))))------).((((((((...)))))))).)))))...)))))... ( -37.40)
>DroPse_CAF1 147917 99 + 1
ACGUGCAAGAUGCAUCUCCUCAAGAUGCACUACUGCCCCAACUGCAACGGCCACCAGACGC------GGGGCCAACCGCAGAUCUGCAACGGCUACUGCAUGAAU
.((((((((.(((((((.....)))))))))...(((...........((((.((......------))))))....(((....)))...)))...))))))... ( -35.00)
>DroGri_CAF1 122265 99 + 1
ACGUGCAAAUUGCAUCUACUCAAGAUGCACUACUGUCCCAACUGUAAUGGGCACCAGGAGC------ACAACAGGCCCAAGGUCUGCUACAGCUACUGCAUGAAU
.((((((...(((((((.....)))))))...(((.((((.......))))...))).(((------....((((((...)))))).....)))..))))))... ( -31.10)
>DroAna_CAF1 119475 102 + 1
ACCUGCAAGAUGCAUCUCCUUAAGAUGCACUACUGCCCCAAUUGCAACGCCCACCAGCCG---UCCAGCAAGGAGACAAAAGUCUGUCACGGUUAUUGCAUGAAC
.(.(((((..(((((((.....)))))))....(((.......))).........(((((---(((.....)))((((......)))).))))).))))).)... ( -25.10)
>DroPer_CAF1 139496 99 + 1
ACGUGCAAGAUGCAUCUCCUCAAGAUGCACUACUGCCCCAACUGCAACGGCCACCAGACGC------GGGGCCAGCCGCAGAUCUGCAACGGCUACUGCAUGAAU
.((((((((.(((((((.....)))))))))...(((...........((((.((......------))))))....(((....)))...)))...))))))... ( -35.00)
>consensus
ACGUGCAAGAUGCAUCUCCUCAAGAUGCACUACUGCCCCAACUGCAACGGCCACCAGACGC______GCAGCAAGCCGAAGGUCUGCUACGGCUACUGCAUGAAU
.((((((...(((((((.....))))))).....(((......(((......................................)))...)))...))))))... (-14.21 = -14.49 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:49 2006