Locus 1172

Sequence ID 3R_DroMel_CAF1
Location 3,551,751 – 3,551,865
Length 114
Max. P 0.990072
window1920 window1921

overview

Window 0

Location 3,551,751 – 3,551,865
Length 114
Sequences 4
Columns 117
Reading direction forward
Mean pairwise identity 94.71
Mean single sequence MFE -27.47
Consensus MFE -25.21
Energy contribution -25.71
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -3.11
Structure conservation index 0.92
SVM decision value 2.19
SVM RNA-class probability 0.990072
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3551751 114 + 27905053
UUUUGUUGUCAGCAUCAAAAAUAUUUUCCCUGCCGCAAAGAAAAACAACAAAUAAAACCAGAA--AAGAAA-AAAAUUCGGCGGCAGGCAGGAAAAAGCUGUUGAUAGAGAACAGAU
.((((((.((...(((((.....(((((((((((((...(((.....................--......-....))).)))))))...)))))).....))))).)).)))))). ( -27.78)
>DroSec_CAF1 10614 116 + 1
UUUUGUUGUCAGCAUCAAAAAUAUUUUCCCUGCCGCAAAGAAAAACAACAGAUAAAACCAGCAGAAGGAAA-AAAAUUGGGCGGCAGGCAGGAAAAAGCUGUUGAUAGAGAACAGAU
.((((((.((...(((((.....(((((((((((((.........(....)......((((..........-....)))))))))))...)))))).....))))).)).)))))). ( -28.04)
>DroSim_CAF1 10880 117 + 1
UUUUGUUGUCAGCAUCAAAAAUAUUUUCCCUGCCGCAAAGAAAAACAACAGAUAAAACCAGCAGAAGGAAAAAAAAUUGGGCGGCAGGCAGGAAAAAGCUGUUGAUAGAGAACAGAU
.((((((.((...(((((.....(((((((((((((.........(....)......((((...............)))))))))))...)))))).....))))).)).)))))). ( -27.96)
>DroEre_CAF1 11061 114 + 1
UUUUGUUGUCAGCAUCAAAAAUAUUUUCCGUGCCGCAAAGAAAAACAACAACUAAAACCAGAAGA--GGAA-AAAAUUGGGCGGCAGGCAGGAAAAAGCUGUUGAUAGAGAACAGAU
.((((((.((...(((((.....((((((.((((((...(.....)...........((......--))..-........))))))....)))))).....))))).)).)))))). ( -26.10)
>consensus
UUUUGUUGUCAGCAUCAAAAAUAUUUUCCCUGCCGCAAAGAAAAACAACAAAUAAAACCAGAAGAAGGAAA_AAAAUUGGGCGGCAGGCAGGAAAAAGCUGUUGAUAGAGAACAGAU
.((((((.((...(((((.....(((((((((((((...(.....)...........((((...............)))))))))))...)))))).....))))).)).)))))). (-25.21 = -25.71 +   0.50)

alignment

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secondary structure

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dotplot

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Window 1

Location 3,551,751 – 3,551,865
Length 114
Sequences 4
Columns 117
Reading direction reverse
Mean pairwise identity 94.71
Mean single sequence MFE -24.93
Consensus MFE -21.70
Energy contribution -21.95
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -2.43
Structure conservation index 0.87
SVM decision value 1.32
SVM RNA-class probability 0.941673
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3551751 114 - 27905053
AUCUGUUCUCUAUCAACAGCUUUUUCCUGCCUGCCGCCGAAUUUU-UUUCUU--UUCUGGUUUUAUUUGUUGUUUUUCUUUGCGGCAGGGAAAAUAUUUUUGAUGCUGACAACAAAA
...((((.((((((((.((..((((((...((((((((((((...-..((..--....))....)))))............)))))))))))))..)).))))))..)).))))... ( -24.70)
>DroSec_CAF1 10614 116 - 1
AUCUGUUCUCUAUCAACAGCUUUUUCCUGCCUGCCGCCCAAUUUU-UUUCCUUCUGCUGGUUUUAUCUGUUGUUUUUCUUUGCGGCAGGGAAAAUAUUUUUGAUGCUGACAACAAAA
...((((.((((((((.((..((((((...(((((((.((((...-...((.......))........)))).........)))))))))))))..)).))))))..)).))))... ( -25.04)
>DroSim_CAF1 10880 117 - 1
AUCUGUUCUCUAUCAACAGCUUUUUCCUGCCUGCCGCCCAAUUUUUUUUCCUUCUGCUGGUUUUAUCUGUUGUUUUUCUUUGCGGCAGGGAAAAUAUUUUUGAUGCUGACAACAAAA
...((((.((((((((.((..((((((...(((((((.((((.......((.......))........)))).........)))))))))))))..)).))))))..)).))))... ( -25.46)
>DroEre_CAF1 11061 114 - 1
AUCUGUUCUCUAUCAACAGCUUUUUCCUGCCUGCCGCCCAAUUUU-UUCC--UCUUCUGGUUUUAGUUGUUGUUUUUCUUUGCGGCACGGAAAAUAUUUUUGAUGCUGACAACAAAA
...((((.((((((((.((..((((((....((((((.(((((..-..((--......))....)))))............)))))).))))))..)).))))))..)).))))... ( -24.52)
>consensus
AUCUGUUCUCUAUCAACAGCUUUUUCCUGCCUGCCGCCCAAUUUU_UUUCCUUCUGCUGGUUUUAUCUGUUGUUUUUCUUUGCGGCAGGGAAAAUAUUUUUGAUGCUGACAACAAAA
...((((.((((((((.((..((((((...(((((((............................................)))))))))))))..)).))))))..)).))))... (-21.70 = -21.95 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:02:47 2006