Locus 9575

Sequence ID 3R_DroMel_CAF1
Location 25,292,483 – 25,292,577
Length 94
Max. P 0.593817
window15310

overview

Window 0

Location 25,292,483 – 25,292,577
Length 94
Sequences 6
Columns 116
Reading direction forward
Mean pairwise identity 80.41
Mean single sequence MFE -34.55
Consensus MFE -22.85
Energy contribution -23.30
Covariance contribution 0.45
Combinations/Pair 1.16
Mean z-score -1.42
Structure conservation index 0.66
SVM decision value 0.12
SVM RNA-class probability 0.593817
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 25292483 94 + 27905053
AGCCCGACCACGUGCCAACCCGCAUUUAGACACGCCCAC-UCCAC-------UCAACGU---------CAGUGGGCGGUGG-----GAGAGAGAUAGAAAAAUGUUGCCUCGGCGA
.(((...((((((((......)))).......(((((((-(..((-------.....))---------.))))))))))))-----..(((.((((......))))..)))))).. ( -32.90)
>DroSec_CAF1 149541 94 + 1
AGCCCAACCACGUGCCAACCCGCAUUUAGACACGCCCAC-UCCAC-------UCCACGU---------CGGUGGGCGGUGG-----GAGGGAGAUAGAAAAAUGUUGCCUCGGCGA
.(((...((((((((......)))).......(((((((-.(.((-------.....))---------.))))))))))))-----((((..((((......)))).))))))).. ( -36.10)
>DroSim_CAF1 149623 94 + 1
AGCCCAACCACGUGCCAACCCGCAUUUAGACACGCCCAC-UCCAC-------UCCACGU---------CGGUGGGCGGUGG-----GAGGGAGAUAGAAAAAUGUUGCCUCGGCGA
.(((...((((((((......)))).......(((((((-.(.((-------.....))---------.))))))))))))-----((((..((((......)))).))))))).. ( -36.10)
>DroEre_CAF1 168954 87 + 1
AGCCCAACCACGUGCCAACCCGCAUUUAGACACGCCCAC-UCCAC-------UUCUG----------------GGCGGUGG-----GAGGUAGAUAGAAAAAUGUUGCCUCGGCGA
.(((...((((((((......)))).......((((((.-.....-------...))----------------))))))))-----((((((.(((......)))))))))))).. ( -32.20)
>DroYak_CAF1 155185 102 + 1
AGCCCAACCACGUGCCAACCCGCAUUUAGACACGCCCAC-UCCAC-------UUCUGGCUAGCUGAG-CGAUGGGCGGUGG-----GAGGUAGAUAGAAAAAUGUUGCCUCGGCGA
.(((...((((((((......)))).......((((((.-((((.-------...))(((.....))-)))))))))))))-----((((((.(((......)))))))))))).. ( -35.10)
>DroAna_CAF1 144765 116 + 1
CGCUCAACCACGUGCCAACCCGCAUUUAGACACGCCUCUUUCCAAACGGGUCCUGUGACAAGGGGUGGGAAUGGGAGGUGGAUGAAGGGACAGAUAGAAAAAUGUUGCCUCGGCGA
((((((.((((.(.(((..(((........).((((((((.((....))(((....)))))))))))))..))).).)))).))).(((...((((......)))).)))..))). ( -34.90)
>consensus
AGCCCAACCACGUGCCAACCCGCAUUUAGACACGCCCAC_UCCAC_______UCCACGU_________CGGUGGGCGGUGG_____GAGGGAGAUAGAAAAAUGUUGCCUCGGCGA
.(((...((((((((......)))).......(((((((...............................))))))))))).....(((...((((......))))..)))))).. (-22.85 = -23.30 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:37:28 2006