Locus 10176

Sequence ID 3R_DroMel_CAF1
Location 27,304,441 – 27,304,543
Length 102
Max. P 0.919869
window16205

overview

Window 5

Location 27,304,441 – 27,304,543
Length 102
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 72.57
Mean single sequence MFE -27.96
Consensus MFE -9.31
Energy contribution -9.95
Covariance contribution 0.64
Combinations/Pair 1.26
Mean z-score -2.39
Structure conservation index 0.33
SVM decision value 1.13
SVM RNA-class probability 0.919869
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27304441 102 + 27905053
AAGCACUCAGCUCUCACUUU-UCCUAAUUAA--CAGGAGACCACUUGAAUACCCUCUAAACAC---AGGGUAUCAGGCUU---------UUUGGUACCACAAACGUAGCG---AGCAUGA
......(((((((.(((..(-((((......--.)))))(((((((((.((((((........---)))))))))))...---------..)))).........)).).)---))).))) ( -25.90)
>DroSec_CAF1 9411 101 + 1
AAGCACUCAGCUCUCACUUU-UCCUAAUUAA--CAAGAGACCACUUGAAUACCCUCUAAACAC---AGGGUAUCAGGGUG----------UUAGUACCACGAACCUAGCG---AGCAUGA
......(((((((.......-((((......--((((......)))).(((((((........---))))))).)))).(----------((((..........))))))---))).))) ( -23.10)
>DroSim_CAF1 9834 101 + 1
AAGCACUCAGCUCUCACUUU-UCCUAAUUAC--CAAGGGACCACUUGAAUACCCUCUAAACAC---AGGGUAUCAGGGUG----------UUAGUACCACAAACCUAGCG---AGCAUGA
......(((((((......(-((((......--..)))))...(((((.((((((........---)))))))))))..(----------((((..........))))))---))).))) ( -25.80)
>DroEre_CAF1 9655 104 + 1
AAGCACUCAGCUCUCACUUU-UCCUAAUUAA--CAAGAGUCCACUUGAAUACCCUUUAAACAG---UGGGUAUCAGUAGUAC-------UUUAGUACUACAAACGUGGCG---AGCAUGG
.........((((..(((((-(.........--.))))))((((.(((.(((((.........---.))))))))(((((((-------....)))))))....)))).)---))).... ( -29.50)
>DroYak_CAF1 5721 101 + 1
GAGCACUCAGCUCUCACUUU-UCCUAAUUAA--CAAGAGUCCACUUGAAUACCCUCUAAACAC---GGGGUAUCAGGGUUUC-------U---AUACUAAAAAAGUGGCC---AGCAUGA
((((.....))))(((((((-(.........--..((((....(((((.((((((........---)))))))))))..)))-------)---.......))))))))..---....... ( -23.57)
>DroAna_CAF1 10858 120 + 1
CACCCUCUAGCUCUCACUUUUUCCCAAUCCAUUCGGGGGACGUUUCAAGUUCCCUUGGAAAAGGGAAGAGUAUCUGCAGAACCGCCACCUCCAAUACUUUGUCCGCGGUGUGAAACGGGA
..((((((.((....(((((((((...((((...(((((((.......)))))))))))...)))))))))....)))))(((((......(((....)))...))))).......))). ( -39.90)
>consensus
AAGCACUCAGCUCUCACUUU_UCCUAAUUAA__CAAGAGACCACUUGAAUACCCUCUAAACAC___AGGGUAUCAGGGUU_________UUUAGUACCACAAACGUAGCG___AGCAUGA
..((.....((((((.....................)))....((((.(((((((...........))))))))))).............................))).....)).... ( -9.31 =  -9.95 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:50:42 2006