Locus 3404

Sequence ID 3L_DroMel_CAF1
Location 9,985,396 – 9,985,509
Length 113
Max. P 0.948215
window5323

overview

Window 3

Location 9,985,396 – 9,985,509
Length 113
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 89.74
Mean single sequence MFE -22.82
Consensus MFE -18.16
Energy contribution -18.40
Covariance contribution 0.24
Combinations/Pair 1.06
Mean z-score -2.11
Structure conservation index 0.80
SVM decision value 1.38
SVM RNA-class probability 0.948215
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 9985396 113 + 23771897
UUUAUUUACUCACCAUCUGCUUGUCCAGAAA-----CCCACUUAUUUUGCCUUUAAGUGAGCUCCCCGGGCAAACAGCUACUCUAAACUUUUCACUUCGAACUAAACUGGAUAGCAUC
.................((((.((((((...-----..((((((.........)))))).(((.....)))...................................)))))))))).. ( -21.50)
>DroSec_CAF1 38108 118 + 1
UUUUUUUAUUCACCAUCAGCUUGUCCAGAAUUUUUGUCCACUUAUUCUGCCGUUAAGUGAGCUCCCCGGGCAAACAGCUACUCUGAACUUUCCACUUCCAUCUAAACUGGAUAGCAUC
..................(((.((((((.......(..((((((.........))))))..).....(((....(((.....))).....))).............)))))))))... ( -21.70)
>DroSim_CAF1 47233 113 + 1
UUUAUUUAUUCACCAUCAGCUUGUCCAGAAA-----CCCACUUAUUCUGCCGUUAAGUGAGCUCCCCGGGCAAACAGCUACUCUAAACUUUCCAUUUCCAUCUAAACUGGAUAGCAUC
..................(((.((((((...-----..((((((.........)))))).(((.....)))...................................)))))))))... ( -21.10)
>DroEre_CAF1 40387 113 + 1
UUUAUUUAUUCAGCUUCAGCUUGUCCAGAAA-----CCCACUUAUUCCGCCUUUAAGUGAGCUCCCGGGGCAAAAAGCUACUCUAAAGCUUCCACUUCCAUCUAAACUGGAUAGCAUC
..................(((.((((((...-----..((((((.........)))))).......((((....(((((.......)))))....)))).......)))))))))... ( -24.30)
>DroYak_CAF1 38795 113 + 1
UUUAUUUAUUCAGCAUCAGCUUGUCCGGAAA-----CCCACUUAUUCUGCCUUUAAGUGAGCUUCCGGGGCAAACAGCUACUCUAAACUUUCCACUUCCAUCUAAACUGAAUAGGAUC
....(((((((((...........((((((.-----(.((((((.........)))))).).))))))(((.....)))...........................)))))))))... ( -25.50)
>consensus
UUUAUUUAUUCACCAUCAGCUUGUCCAGAAA_____CCCACUUAUUCUGCCUUUAAGUGAGCUCCCCGGGCAAACAGCUACUCUAAACUUUCCACUUCCAUCUAAACUGGAUAGCAUC
..................(((.((((((..........((((((.........)))))).(((.....)))...................................)))))))))... (-18.16 = -18.40 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:21 2006