Locus 5170

Sequence ID 2R_DroMel_CAF1
Location 16,828,476 – 16,828,590
Length 114
Max. P 0.638141
window8266

overview

Window 6

Location 16,828,476 – 16,828,590
Length 114
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 70.50
Mean single sequence MFE -21.99
Consensus MFE -11.00
Energy contribution -11.52
Covariance contribution 0.52
Combinations/Pair 1.45
Mean z-score -1.66
Structure conservation index 0.50
SVM decision value 0.22
SVM RNA-class probability 0.638141
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 16828476 114 + 20766785
CCUUUUGGGUUUUGAGUAGCUCAUCUGCAU------UAGCCUUACUUUCCUUUUGCUCUUCGGCAGCCACGUCCUCCUCCUUCUUGAUGGCCGCUCCAUCAAUUGUAUUGCUUGCUGAUA
......(((((......)))))(((.(((.------.(((..(((.........((((....).)))................(((((((.....)))))))..)))..)))))).))). ( -24.80)
>DroGri_CAF1 25280 106 + 1
CCUUUUCCUGCUCACGCAGCUCAACACCAC------UUGGUUUA---UCCUUUUGCUCCUCAGCCGUAAUUUCCUCUUCCUUUUUAAUGGCAGCCCCAUCAAUUGUU-----UGCUGUGC
..............((((((..((((((..------..)))...---...............(((((...................))))).............)))-----.)))))). ( -16.41)
>DroEre_CAF1 22457 120 + 1
CCUUUUGGGUUUUCAGUAGUUCAUCUGCAUUAGCAUUAGCCUUACUUUCCUUUUGCUCCUCGGCAGCCACUUCCUCCUCCUUCUUGAUGGCCGCUCCAUCAAUUGUAUUGCUUGCUGAUA
((....)).......((((.....))))(((((((..(((..(((.......(((((....))))).................(((((((.....)))))))..)))..)))))))))). ( -26.60)
>DroMoj_CAF1 27722 106 + 1
CUUUUUCUUGUUUGAGCAAAUCGACUACCA------UUAUUUUA---UCCUUUAGCUCCUCGGCCGUAAUUUCCUCCUCCUUUUUGAUGGCUGCUCCAUCUAUGGUC-----UGCUGUGC
.............((((.((..((......------........---))..)).))))...(((((((.................(((((.....))))))))))))-----........ ( -13.76)
>DroAna_CAF1 24377 114 + 1
CUUUUUGCGUCUUCAGGAGCUCAUCUGCGC------UGGCCUUGCUCUCCUUCUGCUCCUCGGCUGCCACCUCCUCCUCCUUCUUGAUGGCAGCCCCAUCAAUCGUAUUACUCGCCACUA
......(((.....((((((......(.((------.......)).).......)))))).((((((((.(..............).)))))))).................)))..... ( -28.36)
>consensus
CCUUUUGCGUUUUCAGCAGCUCAUCUGCAC______UAGCCUUACU_UCCUUUUGCUCCUCGGCAGCCACUUCCUCCUCCUUCUUGAUGGCAGCUCCAUCAAUUGUAUU_CUUGCUGAUA
..............((((((.....((((.........................(((....)))...................(((((((.....))))))).))))......)))))). (-11.00 = -11.52 +   0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:38:17 2006