Locus 8079

Sequence ID 3R_DroMel_CAF1
Location 21,696,966 – 21,697,061
Length 95
Max. P 0.999883
window13008 window13009

overview

Window 8

Location 21,696,966 – 21,697,061
Length 95
Sequences 5
Columns 95
Reading direction forward
Mean pairwise identity 93.05
Mean single sequence MFE -24.45
Consensus MFE -21.52
Energy contribution -21.56
Covariance contribution 0.04
Combinations/Pair 1.15
Mean z-score -3.19
Structure conservation index 0.88
SVM decision value 4.37
SVM RNA-class probability 0.999883
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21696966 95 + 27905053
ACACGUAGGGGCUUUAUAAAGAUUCAACCAUAAUUUAAUUUAGGUUGAAUCGGAGCUUCAGCAAGCCUACAACUUGGUUAAGCAUAAAAAUAUUU
.......((((((((.....(((((((((.(((......)))))))))))))))))))).((.((((........))))..))............ ( -25.20)
>DroSec_CAF1 19959 95 + 1
ACUCGUAGGCGCUCUAUAAUGAUUAAACCAUAAUUUAAUUUAGGUUGAAUCGGAGCUUCAGCAAGCCUACAACUUGGUUAAGCAUAAAAAUAUUU
....(((((((((((.....((((.((((.(((......))))))).)))))))))........))))))......................... ( -20.40)
>DroSim_CAF1 35705 95 + 1
ACACGUAGGCGCUUUAUAAUGAUUCAACCAUAAUUUAAUUUAGGUUGAAUCGGAGCUUCAACAAGCCUACAACUUGGUUAAGCAUAAAAAUAUUU
....((((((((((.....((((((((((.(((......)))))))))))))))))........))))))......................... ( -24.30)
>DroEre_CAF1 20883 94 + 1
ACACGUAGGAGCUUUAUCAAGAUUCAACCAUAAUAUAAUUUAGGUUGAAUCAGAGCUUCAGCAAGCCUACGACUUUGUUAAGCAUAAAAAUAUU-
...((((((.(((...((..(((((((((.(((......)))))))))))).)).....)))...)))))).......................- ( -24.70)
>DroYak_CAF1 21157 95 + 1
ACACGUAGGGGCUUUAUAAAGAUUCAACCAUAAUUUAAUUUAGGUUGAAUCGGAGCUUCAGCAGGCCUACGACUUUGUUAAGCAUAAAGAUAUUU
...((((((.(((.......(((((((((.(((......))))))))))))........)))...)))))).((((((.....))))))...... ( -27.66)
>consensus
ACACGUAGGCGCUUUAUAAAGAUUCAACCAUAAUUUAAUUUAGGUUGAAUCGGAGCUUCAGCAAGCCUACAACUUGGUUAAGCAUAAAAAUAUUU
....((.((((((((.....(((((((((.(((......)))))))))))))))))))).))..((..((......))...))............ (-21.52 = -21.56 +   0.04)

alignment

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secondary structure

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dotplot

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Window 9

Location 21,696,966 – 21,697,061
Length 95
Sequences 5
Columns 95
Reading direction reverse
Mean pairwise identity 93.05
Mean single sequence MFE -22.37
Consensus MFE -20.62
Energy contribution -20.42
Covariance contribution -0.20
Combinations/Pair 1.08
Mean z-score -2.41
Structure conservation index 0.92
SVM decision value 4.04
SVM RNA-class probability 0.999770
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21696966 95 - 27905053
AAAUAUUUUUAUGCUUAACCAAGUUGUAGGCUUGCUGAAGCUCCGAUUCAACCUAAAUUAAAUUAUGGUUGAAUCUUUAUAAAGCCCCUACGUGU
......((((((((((...(((((.....)))))...))))...((((((((((((......))).)))))))))...))))))........... ( -21.60)
>DroSec_CAF1 19959 95 - 1
AAAUAUUUUUAUGCUUAACCAAGUUGUAGGCUUGCUGAAGCUCCGAUUCAACCUAAAUUAAAUUAUGGUUUAAUCAUUAUAGAGCGCCUACGAGU
.......................((((((((..((....))...((((.(((((((......))).)))).))))..........)))))))).. ( -19.60)
>DroSim_CAF1 35705 95 - 1
AAAUAUUUUUAUGCUUAACCAAGUUGUAGGCUUGUUGAAGCUCCGAUUCAACCUAAAUUAAAUUAUGGUUGAAUCAUUAUAAAGCGCCUACGUGU
.......(((((((((...(((((.....)))))...))))...((((((((((((......))).)))))))))...)))))((((....)))) ( -23.30)
>DroEre_CAF1 20883 94 - 1
-AAUAUUUUUAUGCUUAACAAAGUCGUAGGCUUGCUGAAGCUCUGAUUCAACCUAAAUUAUAUUAUGGUUGAAUCUUGAUAAAGCUCCUACGUGU
-...........((((....))))((((((...(((....(...((((((((((((......))).)))))))))..)....))).))))))... ( -24.70)
>DroYak_CAF1 21157 95 - 1
AAAUAUCUUUAUGCUUAACAAAGUCGUAGGCCUGCUGAAGCUCCGAUUCAACCUAAAUUAAAUUAUGGUUGAAUCUUUAUAAAGCCCCUACGUGU
............((((....))))((((((...(((........((((((((((((......))).))))))))).......))).))))))... ( -22.66)
>consensus
AAAUAUUUUUAUGCUUAACCAAGUUGUAGGCUUGCUGAAGCUCCGAUUCAACCUAAAUUAAAUUAUGGUUGAAUCUUUAUAAAGCCCCUACGUGU
............((((....))))((((((...(((........((((((((((((......))).))))))))).......))).))))))... (-20.62 = -20.42 +  -0.20)

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 13:02:08 2006