Locus 6020

Sequence ID 2R_DroMel_CAF1
Location 18,921,430 – 18,921,529
Length 99
Max. P 0.682307
window9653

overview

Window 3

Location 18,921,430 – 18,921,529
Length 99
Sequences 6
Columns 118
Reading direction reverse
Mean pairwise identity 79.16
Mean single sequence MFE -24.78
Consensus MFE -13.80
Energy contribution -14.00
Covariance contribution 0.20
Combinations/Pair 1.25
Mean z-score -1.90
Structure conservation index 0.56
SVM decision value 0.31
SVM RNA-class probability 0.682307
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18921430 99 - 20766785
CUAUAAAUC---GCCGACUAGUGUUUAACUAGG-------------GCCUGCGGUUAAAUAUUGAUCAACGCCCUC---GUGUUGGCCAGGCAACAACAUCAACAGCAAGCAAUCAAU
.........---(((..(((((.....)))))(-------------(((...(((((.....)))))(((((....---))))))))).))).......................... ( -24.30)
>DroSec_CAF1 20654 99 - 1
CUAUAAAUC---GCCAACAAGUGUUUAACUAGG-------------GCGUGCGGUUAAAUAUUGAUCAACGCCCUC---GUGUCGGCCAGCCAACAACAUCAACAACAAGCAAUCAAU
.........---(((.((((((.....)))(((-------------((((..(((((.....))))).))))))).---.))).)))............................... ( -22.50)
>DroSim_CAF1 23741 90 - 1
CUAUAAAUC---GCCGACUAGUGUUUAACUAGG-------------GCGUGCGGUUAAAUAUUGAUCAACGCCCUC---GUGUCGGCCAGCCAAC---------AACAAGCAAUCAAU
.........---((((((((((.....))))((-------------((((..(((((.....))))).))))))..---..))))))........---------.............. ( -27.70)
>DroEre_CAF1 22012 90 - 1
CAAUAAAUC---GCCGACUAGUAUUUAACUAGG-------------GCGUGCGGUUAAAUAUUGAUCAACGCCCCC---GUGUCGGCCAACCGAA---------AACAAGCAAUCAAU
.........---((((((((((.....))))((-------------((((..(((((.....))))).))))))..---..))))))........---------.............. ( -26.40)
>DroYak_CAF1 21950 90 - 1
CAAUAAAUC---GCCGGCUAGUAUUUAACUAGG-------------GAGUGCGGUUAAAUAUUGAUCAACGCCCCC---GUGUCGGCCAACCAAA---------AACAAGCAAUCAAU
.........---((((((((((.....))))((-------------(.(((.(((((.....)))))..))).)))---..))))))........---------.............. ( -21.40)
>DroAna_CAF1 21685 109 - 1
CAAUAAAUCCUUCCCGGCUGGUAUUUAACUAGAAAGUUGGAUGAGUGAGUGUGGUCGAAUAUUGAUCAACGCCGUAUUGCUGUUGGCCAACCCAC---------AACGAGCAAUCAAU
..............((((...(((((((((....))))))))).....((.(((((((...))))))))))))).((((((((((.........)---------))).)))))).... ( -26.40)
>consensus
CAAUAAAUC___GCCGACUAGUAUUUAACUAGG_____________GCGUGCGGUUAAAUAUUGAUCAACGCCCUC___GUGUCGGCCAACCAAC_________AACAAGCAAUCAAU
............((((((((((.....))))...............((((..((((((...)))))).)))).........))))))............................... (-13.80 = -14.00 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:00:34 2006