Locus 4046

Sequence ID 2R_DroMel_CAF1
Location 13,357,445 – 13,357,537
Length 92
Max. P 0.969562
window6520

overview

Window 0

Location 13,357,445 – 13,357,537
Length 92
Sequences 6
Columns 119
Reading direction forward
Mean pairwise identity 73.58
Mean single sequence MFE -12.95
Consensus MFE -9.50
Energy contribution -9.75
Covariance contribution 0.25
Combinations/Pair 1.06
Mean z-score -1.60
Structure conservation index 0.73
SVM decision value 1.64
SVM RNA-class probability 0.969562
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13357445 92 + 20766785
CCAAUAAUUUAUUUUUUGUUAC-UGUUGGAAAACAAUUCCGCGAUAAAUAGAAAA-GCGAAAAAAAAACACAAAAAAAUCGUGAAAAUGCA------------ACU-------------
...........((((((((...-((((....))))....(((.............-)))..........))))))))..(((....)))..------------...------------- ( -10.82)
>DroVir_CAF1 66287 76 + 1
CCAAUAAUUUAUUUUUUGUUACCUGUUGGA-AACGAUUCCGCGAAAAAUAGUAAAAGUUAAAA-----------------GUAAAACUGAA------------ACU-------------
.........((((((((((.....((((..-..))))...))))))))))((...((((....-----------------....))))...------------)).------------- ( -13.00)
>DroPse_CAF1 54507 113 + 1
CCAAUAAUUUAUUUUUUGUUAC-UGUUGGA-AACGAUUCCGCGAAAAAUAGAAAA-GCAAAAAACCAACA-AAAAAAA--GUGAAAAUCAAACUGAAACUGAAACUGAUACUGAAACUG
.......((((((((((((...-.((((..-..))))...))))))))))))...-..............-......(--((....((((...............))))......))). ( -14.36)
>DroEre_CAF1 57258 91 + 1
CCAAUAAUUUAUUUUUUGUUAC-UGUUGGAAAACAAUUCCGCGAUAAAUAGAAAA-GCGAAAA-AAACCACAAAAAAAUCGUGAAAAUGCA------------ACU-------------
...........((((((((...-((((....))))....(((.............-)))....-.....))))))))..(((....)))..------------...------------- ( -10.82)
>DroAna_CAF1 56479 80 + 1
CCAAUAAUUUAUUUUUUGUUAC-UGUUGGA-AACAAUUCCGCGAAAAAUAGAAAA-GG--AAAAACAACA-AAAAAAAUC--------GCA------------ACU-------------
.......((((((((((((...-.((((..-..))))...))))))))))))...-..--..........-.........--------...------------...------------- ( -14.50)
>DroPer_CAF1 54723 100 + 1
CCAAUAAUUUAUUUUUUGUUAC-UGUUGGA-AACGAUUCCGCGAAAAAUAGAAAA-GCAAAAAACCAACA-AAAAAAA--GUGAAAAUCAAACUGAAACUGAAACU-------------
.......((((((((((((...-.((((..-..))))...))))))))))))...-..............-.......--..........................------------- ( -14.20)
>consensus
CCAAUAAUUUAUUUUUUGUUAC_UGUUGGA_AACAAUUCCGCGAAAAAUAGAAAA_GCAAAAAAACAACA_AAAAAAA__GUGAAAAUGAA____________ACU_____________
.......((((((((((((.....((((.....))))...))))))))))))................................................................... ( -9.50 =  -9.75 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:24 2006