Locus 2935

Sequence ID 3L_DroMel_CAF1
Location 8,393,607 – 8,393,765
Length 158
Max. P 0.988000
window4588 window4589 window4590

overview

Window 8

Location 8,393,607 – 8,393,725
Length 118
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 96.67
Mean single sequence MFE -28.25
Consensus MFE -27.71
Energy contribution -27.60
Covariance contribution -0.11
Combinations/Pair 1.06
Mean z-score -2.86
Structure conservation index 0.98
SVM decision value 2.10
SVM RNA-class probability 0.988000
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8393607 118 + 23771897
A--UGUGUAUAUGCAUGCGAGCAUAUAUCACAGCAUCCAAAACUAAUUGAUCUUUCACCCAUCAAUCUCCGAUGAAGUGCGGUUAUCAAUUAGCCAAACGAUCGCGCUUACAAGUCAAAU
.--(((((((((((......))))))).))))..............(((((........((((.......))))((((((((((...............))))))))))....))))).. ( -27.96)
>DroSec_CAF1 824 120 + 1
AUAUGUAUAUAUGCAUGCGAGCAUAUAUCACAGCAUCCAAAACUAAUUGAUCUUUCACCCAUCAAUCUCCGAUGAAGUGCGGUUAUCAAUUAGCCAAAUGAUCGCGCUUACAAGUCAAAC
...(((((((((((......)))))))).)))..............(((((........((((.......))))((((((((((((...........))))))))))))....))))).. ( -28.40)
>DroSim_CAF1 808 120 + 1
AUAUGUAUGUAUGCAUGCGAGCAUAUAUCACAGCAUCCAAAACUAAUUGAUCUUUCACCCAUCAAUCUCCGAUGAAGUGCGGUUAUCAAUUAGCCAAAUGAUCGCGCUUACAAGUCAAAC
...(((((((((((......)))))))).)))..............(((((........((((.......))))((((((((((((...........))))))))))))....))))).. ( -28.40)
>consensus
AUAUGUAUAUAUGCAUGCGAGCAUAUAUCACAGCAUCCAAAACUAAUUGAUCUUUCACCCAUCAAUCUCCGAUGAAGUGCGGUUAUCAAUUAGCCAAAUGAUCGCGCUUACAAGUCAAAC
...(((((((((((......)))))))).)))..............(((((........((((.......))))((((((((((((...........))))))))))))....))))).. (-27.71 = -27.60 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 9

Location 8,393,607 – 8,393,725
Length 118
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 96.67
Mean single sequence MFE -35.33
Consensus MFE -34.01
Energy contribution -33.90
Covariance contribution -0.11
Combinations/Pair 1.05
Mean z-score -2.54
Structure conservation index 0.96
SVM decision value 1.61
SVM RNA-class probability 0.967630
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8393607 118 - 23771897
AUUUGACUUGUAAGCGCGAUCGUUUGGCUAAUUGAUAACCGCACUUCAUCGGAGAUUGAUGGGUGAAAGAUCAAUUAGUUUUGGAUGCUGUGAUAUAUGCUCGCAUGCAUAUACACA--U
...............(((.(((...(((((((((((.....((((.(((((.....)))))))))....))))))))))).))).)))((((.(((((((......)))))))))))--. ( -35.70)
>DroSec_CAF1 824 120 - 1
GUUUGACUUGUAAGCGCGAUCAUUUGGCUAAUUGAUAACCGCACUUCAUCGGAGAUUGAUGGGUGAAAGAUCAAUUAGUUUUGGAUGCUGUGAUAUAUGCUCGCAUGCAUAUAUACAUAU
(((((.....)))))(((.(((...(((((((((((.....((((.(((((.....)))))))))....))))))))))).))).)))((((((((((((......)))))))).)))). ( -37.20)
>DroSim_CAF1 808 120 - 1
GUUUGACUUGUAAGCGCGAUCAUUUGGCUAAUUGAUAACCGCACUUCAUCGGAGAUUGAUGGGUGAAAGAUCAAUUAGUUUUGGAUGCUGUGAUAUAUGCUCGCAUGCAUACAUACAUAU
(((((.....)))))(((.(((...(((((((((((.....((((.(((((.....)))))))))....))))))))))).))).)))((((((.(((((......))))).)).)))). ( -33.10)
>consensus
GUUUGACUUGUAAGCGCGAUCAUUUGGCUAAUUGAUAACCGCACUUCAUCGGAGAUUGAUGGGUGAAAGAUCAAUUAGUUUUGGAUGCUGUGAUAUAUGCUCGCAUGCAUAUAUACAUAU
...............(((.(((...(((((((((((.....((((.(((((.....)))))))))....))))))))))).))).)))((((.(((((((......)))))))))))... (-34.01 = -33.90 +  -0.11)

alignment

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secondary structure

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dotplot

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Window 0

Location 8,393,645 – 8,393,765
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 97.78
Mean single sequence MFE -32.47
Consensus MFE -32.27
Energy contribution -32.17
Covariance contribution -0.11
Combinations/Pair 1.05
Mean z-score -1.45
Structure conservation index 0.99
SVM decision value 0.14
SVM RNA-class probability 0.602961
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8393645 120 - 23771897
GGGUUACAUCGUUUAAAGUUGACCCGAAGCGAAAUGAUUUAUUUGACUUGUAAGCGCGAUCGUUUGGCUAAUUGAUAACCGCACUUCAUCGGAGAUUGAUGGGUGAAAGAUCAAUUAGUU
((((((...(.......).)))))).((((((..((.(((((.......)))))))...))))))(((((((((((.....((((.(((((.....)))))))))....))))))))))) ( -30.00)
>DroSec_CAF1 864 120 - 1
GGGUUACAUCGUUUAAAGUUGACCCGGAGUGAAAUGAUUUGUUUGACUUGUAAGCGCGAUCAUUUGGCUAAUUGAUAACCGCACUUCAUCGGAGAUUGAUGGGUGAAAGAUCAAUUAGUU
((((((...(.......).))))))......((((((((((((((.....)))))).))))))))(((((((((((.....((((.(((((.....)))))))))....))))))))))) ( -33.30)
>DroSim_CAF1 848 120 - 1
GGGUUACAUCGUUUAAAGUUGACCCGGAGCGAAAUGAUUUGUUUGACUUGUAAGCGCGAUCAUUUGGCUAAUUGAUAACCGCACUUCAUCGGAGAUUGAUGGGUGAAAGAUCAAUUAGUU
((((((...(.......).))))))..(((.((((((((((((((.....)))))).)))))))).)))(((((((.....((((.(((((.....)))))))))....))))))).... ( -34.10)
>consensus
GGGUUACAUCGUUUAAAGUUGACCCGGAGCGAAAUGAUUUGUUUGACUUGUAAGCGCGAUCAUUUGGCUAAUUGAUAACCGCACUUCAUCGGAGAUUGAUGGGUGAAAGAUCAAUUAGUU
((((((...(.......).))))))...((.((((((((((((((.....)))))).)))))))).))((((((((.....((((.(((((.....)))))))))....))))))))... (-32.27 = -32.17 +  -0.11)

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 10:45:33 2006