Locus 3318

Sequence ID 3R_DroMel_CAF1
Location 8,914,282 – 8,914,391
Length 109
Max. P 0.948519
window5349 window5350

overview

Window 9

Location 8,914,282 – 8,914,391
Length 109
Sequences 5
Columns 109
Reading direction forward
Mean pairwise identity 87.43
Mean single sequence MFE -36.90
Consensus MFE -28.68
Energy contribution -28.60
Covariance contribution -0.08
Combinations/Pair 1.08
Mean z-score -2.27
Structure conservation index 0.78
SVM decision value 1.38
SVM RNA-class probability 0.948519
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8914282 109 + 27905053
GUUUCCAAUUAAAAGGUGUGCGCCACUGCUACUUCCCAGUGGAGUUCUAAACCACAAAGCGAUCGAUCAGCUGCUCUGCACAGCUGAUUUAUUUCGCGCGCUUUUCAUG
...........(((((((((((((((((........))))))..................(((.(((((((((.......))))))))).))).))))))))))).... ( -34.50)
>DroSec_CAF1 35940 109 + 1
GUUUCCAAUUAAAAGGUGUGCGCCACCGCUACUGCCCAGUGGAGUUCUAAACCACGAAGCGAUCGAUCAGCUGCACUGCGCAGCUGUUUUAGUUCGCGCGCUUUUCCUG
...........((((((((((.((((.((....))...)))).(..(((((...(((.....)))..(((((((.....))))))).)))))..))))))))))).... ( -35.10)
>DroSim_CAF1 36067 109 + 1
GUUUCCAAUUAAAAGGUGUACGCCACCGCUACUUACCAGUGGAGUUCUAAACCACGAAGCGAUCGAUCAGCUGCUCUGCGCAGCUGAUUUAGUUCGCGCGCUUUUCAUG
...........((((((((......(((((.......)))))................((((..((((((((((.....))))))))))....)))))))))))).... ( -34.20)
>DroEre_CAF1 36902 109 + 1
GUCUGCCAUCAAAAGGUGUGUGCCACUGCUACUGCCUAGCGGAGUUUCACACCACUGAACGAUCGAUCAGCUGCUCAGCACAGCUGAUUAAGUUCGGGCGCUUUUCAUG
....(((.......((((((.((..((((((.....)))))).))..))))))..(((((....(((((((((.......)))))))))..)))))))).......... ( -39.10)
>DroYak_CAF1 42130 109 + 1
GUUUGCCAUCGAAAGGUGUGCGCCUCCGCUACUACCCAGCGGAGUUCUAAACCACUAAGCGAUCGAUCAGCUGCUCAGCACAGCUGAUUCAGUUCGCGCGCUUUUCAGG
......((((....)))).(((((((((((.......)))))))..............((((..(((((((((.......)))))))))....))))))))........ ( -41.60)
>consensus
GUUUCCAAUUAAAAGGUGUGCGCCACCGCUACUGCCCAGUGGAGUUCUAAACCACGAAGCGAUCGAUCAGCUGCUCUGCACAGCUGAUUUAGUUCGCGCGCUUUUCAUG
...........((((((((......(((((.......)))))................((((..(((((((((.......)))))))))....)))))))))))).... (-28.68 = -28.60 +  -0.08)

alignment

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secondary structure

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dotplot

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Window 0

Location 8,914,282 – 8,914,391
Length 109
Sequences 5
Columns 109
Reading direction reverse
Mean pairwise identity 87.43
Mean single sequence MFE -36.62
Consensus MFE -27.30
Energy contribution -27.26
Covariance contribution -0.04
Combinations/Pair 1.14
Mean z-score -1.63
Structure conservation index 0.75
SVM decision value 0.13
SVM RNA-class probability 0.599158
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8914282 109 - 27905053
CAUGAAAAGCGCGCGAAAUAAAUCAGCUGUGCAGAGCAGCUGAUCGAUCGCUUUGUGGUUUAGAACUCCACUGGGAAGUAGCAGUGGCGCACACCUUUUAAUUGGAAAC
........((((((((.....(((((((((.....)))))))))...)))).................(((((........)))))))))...((........)).... ( -33.40)
>DroSec_CAF1 35940 109 - 1
CAGGAAAAGCGCGCGAACUAAAACAGCUGCGCAGUGCAGCUGAUCGAUCGCUUCGUGGUUUAGAACUCCACUGGGCAGUAGCGGUGGCGCACACCUUUUAAUUGGAAAC
........(.((((.........(((((((.....)))))))((((..((((..((((.........))))..))).)...)))).)))).).((........)).... ( -34.10)
>DroSim_CAF1 36067 109 - 1
CAUGAAAAGCGCGCGAACUAAAUCAGCUGCGCAGAGCAGCUGAUCGAUCGCUUCGUGGUUUAGAACUCCACUGGUAAGUAGCGGUGGCGUACACCUUUUAAUUGGAAAC
(((((..((((..(((......((((((((.....)))))))))))..))))))))).....(.((.((((((.(....).)))))).)).).((........)).... ( -36.70)
>DroEre_CAF1 36902 109 - 1
CAUGAAAAGCGCCCGAACUUAAUCAGCUGUGCUGAGCAGCUGAUCGAUCGUUCAGUGGUGUGAAACUCCGCUAGGCAGUAGCAGUGGCACACACCUUUUGAUGGCAGAC
(((.((((((((..(((((..(((((((((.....)))))))))..)..)))).)))(((((..(((..((((.....)))))))..)))))..))))).)))...... ( -38.20)
>DroYak_CAF1 42130 109 - 1
CCUGAAAAGCGCGCGAACUGAAUCAGCUGUGCUGAGCAGCUGAUCGAUCGCUUAGUGGUUUAGAACUCCGCUGGGUAGUAGCGGAGGCGCACACCUUUCGAUGGCAAAC
........((((((((..(((.((((((((.....))))))))))).))))..............((((((((.....))))))))))))...((.......))..... ( -40.70)
>consensus
CAUGAAAAGCGCGCGAACUAAAUCAGCUGUGCAGAGCAGCUGAUCGAUCGCUUAGUGGUUUAGAACUCCACUGGGAAGUAGCGGUGGCGCACACCUUUUAAUUGGAAAC
........((((((((.....(((((((((.....)))))))))...))))...((((.........))))...............))))................... (-27.30 = -27.26 +  -0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:18 2006