Locus 2621

Sequence ID 3L_DroMel_CAF1
Location 7,232,595 – 7,232,705
Length 110
Max. P 0.993401
window4107 window4108

overview

Window 7

Location 7,232,595 – 7,232,705
Length 110
Sequences 4
Columns 110
Reading direction forward
Mean pairwise identity 91.82
Mean single sequence MFE -28.35
Consensus MFE -26.08
Energy contribution -26.02
Covariance contribution -0.06
Combinations/Pair 1.10
Mean z-score -2.66
Structure conservation index 0.92
SVM decision value 2.40
SVM RNA-class probability 0.993401
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7232595 110 + 23771897
CUAAACUAAACACUGCGCCACUUUUACGACCUCGUAAACCCCAUAGUCGCAGUAAUCUAUUGAUCUACAGACUAACAUAAAGAUCGAGUUGCAAACAAGUGGUGCAAUGC
..........((.((((((((((((.((((.(((.........(((((...((((((....))).))).)))))..........))))))).))..)))))))))).)). ( -28.51)
>DroSec_CAF1 14215 110 + 1
CUAAACCAAACACUGCGCCACUUUUACGACCUCGUAAACCCCAUAGUCGCAGUAAUCUAUUGAUCUACGGACGAACAUAAAGAUCGAGUUGCAAACAAGUGGUGCAAUGC
..........((.(((((((((((((((....)))))..............(((((...(((((((..............))))))))))))....)))))))))).)). ( -28.24)
>DroSim_CAF1 14165 110 + 1
CUAAACUAAACACUGCGCCAGUUUUACGACCUCGUAAACCCCAUAGUCGCAGUAAUCUAUUGAUCUACAGACGAACAUAAAGAUCGAGUUGCAAACAAGUGGUGCAAUGC
..........((.(((((((.(((((((....)))))..............(((((...(((((((..............))))))))))))....)).))))))).)). ( -24.34)
>DroEre_CAF1 14625 110 + 1
CUGAACUAAACAGUUCGCCACUUUUACGACCUCGUAAACCCCAAUGCGUCUGUAAUCUAUUGAUCUACUGACUAUCAUAAGGAUCGGGUUGCAAACAAGUGGCGCAAUGC
..(((((....)))))((((((((((((....)))))..........((.((((((((...(((((..((.....))...))))))))))))).)))))))))....... ( -32.30)
>consensus
CUAAACUAAACACUGCGCCACUUUUACGACCUCGUAAACCCCAUAGUCGCAGUAAUCUAUUGAUCUACAGACGAACAUAAAGAUCGAGUUGCAAACAAGUGGUGCAAUGC
..........((.(((((((((((((((....)))))..............(((((...(((((((..............))))))))))))....)))))))))).)). (-26.08 = -26.02 +  -0.06)

alignment

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secondary structure

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dotplot

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Window 8

Location 7,232,595 – 7,232,705
Length 110
Sequences 4
Columns 110
Reading direction reverse
Mean pairwise identity 91.82
Mean single sequence MFE -34.92
Consensus MFE -27.08
Energy contribution -28.95
Covariance contribution 1.87
Combinations/Pair 1.05
Mean z-score -2.35
Structure conservation index 0.78
SVM decision value 0.78
SVM RNA-class probability 0.849842
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7232595 110 - 23771897
GCAUUGCACCACUUGUUUGCAACUCGAUCUUUAUGUUAGUCUGUAGAUCAAUAGAUUACUGCGACUAUGGGGUUUACGAGGUCGUAAAAGUGGCGCAGUGUUUAGUUUAG
(((((((.((((((..((((..(((((((((.....(((((.(((((((....)))..))))))))).)))))...))))...)))))))))).)))))))......... ( -35.10)
>DroSec_CAF1 14215 110 - 1
GCAUUGCACCACUUGUUUGCAACUCGAUCUUUAUGUUCGUCCGUAGAUCAAUAGAUUACUGCGACUAUGGGGUUUACGAGGUCGUAAAAGUGGCGCAGUGUUUGGUUUAG
(((((((.((((((..((((..((((..(((((((.((((..((.((((....)))))).)))).)))))))....))))...)))))))))).)))))))......... ( -35.60)
>DroSim_CAF1 14165 110 - 1
GCAUUGCACCACUUGUUUGCAACUCGAUCUUUAUGUUCGUCUGUAGAUCAAUAGAUUACUGCGACUAUGGGGUUUACGAGGUCGUAAAACUGGCGCAGUGUUUAGUUUAG
(((((((.(((....(((((..((((..(((((((.((((..((.((((....)))))).)))).)))))))....))))...)))))..))).)))))))......... ( -32.70)
>DroEre_CAF1 14625 110 - 1
GCAUUGCGCCACUUGUUUGCAACCCGAUCCUUAUGAUAGUCAGUAGAUCAAUAGAUUACAGACGCAUUGGGGUUUACGAGGUCGUAAAAGUGGCGAACUGUUUAGUUCAG
.......(((((((..((((.((((((((((.(((...(((.((.((((....)))))).))).))).)))))...)).))).)))))))))))(((((....))))).. ( -36.30)
>consensus
GCAUUGCACCACUUGUUUGCAACUCGAUCUUUAUGUUAGUCUGUAGAUCAAUAGAUUACUGCGACUAUGGGGUUUACGAGGUCGUAAAAGUGGCGCAGUGUUUAGUUUAG
(((((((.((((((..((((..((((..(((((((.((((..((.((((....)))))).)))).)))))))....))))...)))))))))).)))))))......... (-27.08 = -28.95 +   1.87)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:37:45 2006