Locus 6595

Sequence ID 2L_DroMel_CAF1
Location 18,519,568 – 18,519,707
Length 139
Max. P 0.894235
window10529 window10530

overview

Window 9

Location 18,519,568 – 18,519,676
Length 108
Sequences 4
Columns 108
Reading direction reverse
Mean pairwise identity 94.81
Mean single sequence MFE -27.62
Consensus MFE -25.29
Energy contribution -25.60
Covariance contribution 0.31
Combinations/Pair 1.03
Mean z-score -1.66
Structure conservation index 0.92
SVM decision value 0.52
SVM RNA-class probability 0.767975
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18519568 108 - 22407834
CAAAUGGGUUAGUGUGGCACUAGCCAGCAAUAAUAACAAAAAAAAAAAACACAAUUGCGGAAGCCAUCAAGUGUUUGGUAUGCGCAUUACUCAUGCGAACGCCCGUUU
.(((((((((((((...)))))))).....................((((((.((.((....)).))...))))))(((...(((((.....)))))...)))))))) ( -28.00)
>DroSec_CAF1 39957 104 - 1
CAAAUGGGUUAGUGUGGCACUAGCCAGCAAUAAUAACAGAA----AAGACACAAUUGCGGAAGCCAUCAAGUGUUUGGUAUGCGCAUUACUCAUGCGAUCGACCGUUU
......((((((((...))))))))(((.............----.((((((.((.((....)).))...))))))(((...(((((.....)))))....)))))). ( -28.50)
>DroSim_CAF1 40861 104 - 1
CAAAUGGGUUAGUGUGGCACUAGCCAGCAAUAAUAACAGAA----AAAACACAAUUGCGGAAGCCAUCAAGUGUUUGGUAUGCGCAUUACUCAUGCGAACGCCCGUUU
.((((((((..((.((((....))))))........((...----.((((((.((.((....)).))...))))))....))(((((.....)))))...)))))))) ( -28.50)
>DroYak_CAF1 39876 103 - 1
CAAAUGGGUUAGUGUGGCACUAGCCUGCAAUAAUAACAGAA-----AAACACAAUUGCGGAAGCCAUCAAAUGUUUGGUAUGCGCAUUACUCAUGCGAACGCCCGUUU
.((((((((..((((((((......))).............-----.........((((.(.((((.........)))).).)))).....)))))....)))))))) ( -25.50)
>consensus
CAAAUGGGUUAGUGUGGCACUAGCCAGCAAUAAUAACAGAA____AAAACACAAUUGCGGAAGCCAUCAAGUGUUUGGUAUGCGCAUUACUCAUGCGAACGCCCGUUU
.(((((((((((((...)))))))).....................((((((.((.((....)).))...))))))(((...(((((.....)))))...)))))))) (-25.29 = -25.60 +   0.31)

alignment

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secondary structure

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dotplot

Postscript

Window 0

Location 18,519,602 – 18,519,707
Length 105
Sequences 4
Columns 105
Reading direction reverse
Mean pairwise identity 93.69
Mean single sequence MFE -24.00
Consensus MFE -20.95
Energy contribution -21.70
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -2.00
Structure conservation index 0.87
SVM decision value 0.98
SVM RNA-class probability 0.894235
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18519602 105 - 22407834
AAAUUACUUACGCCUGCGAAGAAGGCUUACACAAAUGGGUUAGUGUGGCACUAGCCAGCAAUAAUAACAAAAAAAAAAAACACAAUUGCGGAAGCCAUCAAGUGU
....(((((.((....))..((.(((((.(.......((((((((...)))))))).(((((......................)))))).))))).))))))). ( -25.05)
>DroSec_CAF1 39991 101 - 1
AAAUUACUUACGCCUGCGAAGAAAGCUUACACAAAUGGGUUAGUGUGGCACUAGCCAGCAAUAAUAACAGAA----AAGACACAAUUGCGGAAGCCAUCAAGUGU
....(((((.((....))..((..((((.(.......((((((((...)))))))).(((((..........----........)))))).))))..))))))). ( -21.17)
>DroSim_CAF1 40895 101 - 1
AAAUUACUUACGCCUGCGAAGAAGGCUUACACAAAUGGGUUAGUGUGGCACUAGCCAGCAAUAAUAACAGAA----AAAACACAAUUGCGGAAGCCAUCAAGUGU
....(((((.((....))..((.(((((.(.......((((((((...)))))))).(((((..........----........)))))).))))).))))))). ( -25.27)
>DroYak_CAF1 39910 100 - 1
AAAUUACUUGCGCCUGCCAAGAGGGCUUACACAAAUGGGUUAGUGUGGCACUAGCCUGCAAUAAUAACAGAA-----AAACACAAUUGCGGAAGCCAUCAAAUGU
..((((.((((((((.......))))..........(((((((((...))))))))))))))))).......-----..........((....)).......... ( -24.50)
>consensus
AAAUUACUUACGCCUGCGAAGAAGGCUUACACAAAUGGGUUAGUGUGGCACUAGCCAGCAAUAAUAACAGAA____AAAACACAAUUGCGGAAGCCAUCAAGUGU
....(((((.((....))..((.(((((.(.......((((((((...)))))))).(((((......................)))))).))))).))))))). (-20.95 = -21.70 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:15:12 2006