Locus 143

Sequence ID 3L_DroMel_CAF1
Location 438,937 – 439,046
Length 109
Max. P 0.936489
window202 window203

overview

Window 2

Location 438,937 – 439,046
Length 109
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 93.76
Mean single sequence MFE -34.50
Consensus MFE -32.28
Energy contribution -31.72
Covariance contribution -0.56
Combinations/Pair 1.27
Mean z-score -1.39
Structure conservation index 0.94
SVM decision value 1.25
SVM RNA-class probability 0.936489
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 438937 109 + 23771897
UGGCUGGGCAAUUUAGUGUUUUCGCCUUCUCAGAUUUGCGUAAUUCGCGUUGUUCGGGUAAAUGUUUUCGAACAAAUCUUGUGGAGGCCGCCCGAAGGUCGCCUUAACA
.(((.((((......(......)((((((.((((((((((.....)))...(((((((........)))))))))))).)).)))))).))))(.....))))...... ( -35.50)
>DroSec_CAF1 19937 109 + 1
UGGCUGGGCAAUUUAGUGUUUUCGCCUUCUCGGAUUUGCGUAAUUUGCGUUGUUCGGGUAAAUGUUUUUGAACAAAUCUUAUGGAGGCCGCCCGAAGGUCGCCUUAACA
.(((.((((......(......)((((((..((((((((((.....)))).(((((((........)))))))))))))...)))))).))))(.....))))...... ( -31.30)
>DroSim_CAF1 20208 109 + 1
UGGCUGGGCAAUUUAGUGUUUUCGCCUUCUCGGAUUUGCGUAAUUCGCGUUGUUCGGGUAAAUGUUUUCGAACAAAUCUUGUGGAGGCCGCCCGAAGGUCGCCUUAACA
.(((.((((......(......)((((((.((((((((((.....)))...(((((((........)))))))))))).)).)))))).))))(.....))))...... ( -34.80)
>DroEre_CAF1 22004 109 + 1
UGGCUGCGCAAUUUAGUGUUUUCGCCUUCUCGGAUUUGCGUAAUUCGCGUUGUUCGGAUACAAGUUUCCGACCAAAUCCCGUGGAGGCCGCCCGAAGGUCGCCUCAACA
.(((.((((......))))....))).....(((((((((.....)))...(.(((((........))))).))))))).((.(((((.(((....))).))))).)). ( -37.10)
>DroYak_CAF1 20573 109 + 1
UAGCUGGGCAAUUUAGUGUUUUCGCCUUCUCGGAUUUGCGUAAUUCGCGUUGUUCGAGUAAAUGUUUUCGAACAAAUAUCGUGGAGGCCGCCCGAAGGUCGCCUCAACA
..(.(((((..............((((((.(((....(((.....))).(((((((((........)))))))))...))).)))))).(((....))).))).)).). ( -33.80)
>consensus
UGGCUGGGCAAUUUAGUGUUUUCGCCUUCUCGGAUUUGCGUAAUUCGCGUUGUUCGGGUAAAUGUUUUCGAACAAAUCUUGUGGAGGCCGCCCGAAGGUCGCCUUAACA
.(((.((((......(......)((((((.(((....(((.....))).(((((((((........)))))))))...))).)))))).))))(.....))))...... (-32.28 = -31.72 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 438,937 – 439,046
Length 109
Sequences 5
Columns 109
Reading direction reverse
Mean pairwise identity 93.76
Mean single sequence MFE -29.41
Consensus MFE -23.24
Energy contribution -23.68
Covariance contribution 0.44
Combinations/Pair 1.05
Mean z-score -1.54
Structure conservation index 0.79
SVM decision value 0.09
SVM RNA-class probability 0.579483
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 438937 109 - 23771897
UGUUAAGGCGACCUUCGGGCGGCCUCCACAAGAUUUGUUCGAAAACAUUUACCCGAACAACGCGAAUUACGCAAAUCUGAGAAGGCGAAAACACUAAAUUGCCCAGCCA
......((((.....)(((((((((.(...(((((((((((............)))))...(((.....)))))))))..).))))(....).......))))).))). ( -29.70)
>DroSec_CAF1 19937 109 - 1
UGUUAAGGCGACCUUCGGGCGGCCUCCAUAAGAUUUGUUCAAAAACAUUUACCCGAACAACGCAAAUUACGCAAAUCCGAGAAGGCGAAAACACUAAAUUGCCCAGCCA
......((((.....)(((((((((.(.......((((((..............)))))).((.......))........).))))(....).......))))).))). ( -22.24)
>DroSim_CAF1 20208 109 - 1
UGUUAAGGCGACCUUCGGGCGGCCUCCACAAGAUUUGUUCGAAAACAUUUACCCGAACAACGCGAAUUACGCAAAUCCGAGAAGGCGAAAACACUAAAUUGCCCAGCCA
......((((.....)(((((((((.(.......(((((((............))))))).(((.....)))........).))))(....).......))))).))). ( -27.10)
>DroEre_CAF1 22004 109 - 1
UGUUGAGGCGACCUUCGGGCGGCCUCCACGGGAUUUGGUCGGAAACUUGUAUCCGAACAACGCGAAUUACGCAAAUCCGAGAAGGCGAAAACACUAAAUUGCGCAGCCA
.((.(((((..((....))..))))).)).(((((((.(((((........))))).)...(((.....))))))))).....(((.....((......))....))). ( -34.60)
>DroYak_CAF1 20573 109 - 1
UGUUGAGGCGACCUUCGGGCGGCCUCCACGAUAUUUGUUCGAAAACAUUUACUCGAACAACGCGAAUUACGCAAAUCCGAGAAGGCGAAAACACUAAAUUGCCCAGCUA
.((((.(((((((....))..((((.(.((....((((((((..........)))))))).(((.....))).....)).).))))............))))))))).. ( -33.40)
>consensus
UGUUAAGGCGACCUUCGGGCGGCCUCCACAAGAUUUGUUCGAAAACAUUUACCCGAACAACGCGAAUUACGCAAAUCCGAGAAGGCGAAAACACUAAAUUGCCCAGCCA
......((((.((....))).((((.(.......(((((((............))))))).(((.....)))........).))))...................))). (-23.24 = -23.68 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:33:42 2006