Locus 2234

Sequence ID 2R_DroMel_CAF1
Location 8,255,396 – 8,255,498
Length 102
Max. P 0.810483
window3679

overview

Window 9

Location 8,255,396 – 8,255,498
Length 102
Sequences 6
Columns 112
Reading direction forward
Mean pairwise identity 85.13
Mean single sequence MFE -29.02
Consensus MFE -25.35
Energy contribution -25.57
Covariance contribution 0.22
Combinations/Pair 1.11
Mean z-score -1.81
Structure conservation index 0.87
SVM decision value 0.65
SVM RNA-class probability 0.810483
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 8255396 102 + 20766785
UCCCAUCCGCGCCCA----------CGCCCACACACAUUUUUUGGCCAACGAUUUCCGCAGCCAAAUGGCCAACCGCCGCCUGCUGUUCCUGAUUUUCACAGGAAGCGGCGG
..(((...(((....----------)))............((((((...((.....))..)))))))))....(((((((......((((((.......))))))))))))) ( -31.00)
>DroSec_CAF1 42731 102 + 1
UCCCAUCCGCGCCCA----------CGCCCACACACAUUUUUUGGCCAACGAUUUCCGCAGCCAAAUGGCCAACCGCCGCCUUCUGUUCCUGAUUUUCACAGGAAGCGGCGU
..(((...(((....----------)))............((((((...((.....))..))))))))).....((((((.((((((...........)))))).)))))). ( -28.60)
>DroSim_CAF1 45077 102 + 1
UCCCAUCCGCGCCCA----------CGCCCACACACAUUUUUUGGCCAACGAUUUCCGCAGCCAAAUGGCCAACCGCCGCCUGCUGUUCCUGAUUUUCACAGGAAGCGGCGG
..(((...(((....----------)))............((((((...((.....))..)))))))))....(((((((......((((((.......))))))))))))) ( -31.00)
>DroEre_CAF1 42518 96 + 1
UCCAUU------CCA----------CGCCCACACACAUUUUUUGGCCAACGAUUUCCGCAGCCAAAUGGCCACCCGCCGCCUGCUGUUCCUGAUUUUCACAGGAAGCGGCGG
......------...----------.(((...........((((((...((.....))..)))))).)))...(((((((......((((((.......))))))))))))) ( -28.30)
>DroYak_CAF1 44354 96 + 1
UCCAUU------CCA----------CGCCCACACACAUUUUUUGGCCAACGAUUUCCGCAGCCAAAUGGCCAACCGCCGCCCGCUGUUCCUGAUUUUCACAGGAAGCGGCGG
......------...----------.((............((((((...((.....))..)))))).(((.....)))))((((((((((((.......)))).)))))))) ( -28.90)
>DroAna_CAF1 45172 105 + 1
-----GCCUAGCCCACCUCCUGCUCCACCCACUACCA-UUUUUGGCCAAUGAUUUCCGCAGCCAAAUGGCCACCCGCUGCCUGCUUC-UCUGCUUUCCACAGGAAGCGGCGG
-----.....(((......((((...........(((-....)))............))))......)))......(((((.(((((-.(((.......))))))))))))) ( -26.30)
>consensus
UCCCAUCCGCGCCCA__________CGCCCACACACAUUUUUUGGCCAACGAUUUCCGCAGCCAAAUGGCCAACCGCCGCCUGCUGUUCCUGAUUUUCACAGGAAGCGGCGG
..........................................((((((..................)))))).(((((((......((((((.......))))))))))))) (-25.35 = -25.57 +   0.22)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:24:30 2006