Locus 8591

Sequence ID 3R_DroMel_CAF1
Location 22,981,240 – 22,981,358
Length 118
Max. P 0.548761
window13802 window13803

overview

Window 2

Location 22,981,240 – 22,981,358
Length 118
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 87.52
Mean single sequence MFE -32.73
Consensus MFE -26.69
Energy contribution -28.88
Covariance contribution 2.19
Combinations/Pair 1.12
Mean z-score -1.41
Structure conservation index 0.82
SVM decision value 0.03
SVM RNA-class probability 0.548761
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22981240 118 + 27905053
AUUGUUAUUUCUGAUGGAACU--UUUGGUAAUCCUAAACUAAUCAACAGGUGCUUAUUGGUGCCUCGGCUGCUGCCGGCAUUUUCACACCGGAAAUCCUGCGCACCAUGGCGGAUAACAA
.((((((((((((.(((....--(((((.....)))))....))).))))((((...((((((..((((....))))(((.((((......))))...))))))))).)))))))))))) ( -35.30)
>DroSec_CAF1 12151 118 + 1
AUUGUUAUUUCUGAUGAAACU--UUUGAUAAUCUUUAACUGAUCAACAGGUGCUUAUUGGUGCUUCGGCUGCUGCCGGCAUUUUCACACCGGAGAUCCUGCGCACCAUGGCGGAUAACAA
.((((((((((((.(((..(.--.((((......))))..).))).))))((((...((((((..((((....))))(((.((((......))))...))))))))).)))))))))))) ( -34.90)
>DroEre_CAF1 6082 117 + 1
AGUGCUAUUUCUAAAGAU-CC--UUUGGUUAUAUCAAACUAAUCAACAGGUGCUUAUUGGAGCCUCGGCUGCUGCCGGCAUUUUCACACCGGAGAUCCUGCGCACCAUGGCCGAUAACAA
.(.(((((..........-..--.(((((((........)))))))..(((((.....(.(((....))).).((.((.((((((.....)))))))).)))))))))))))........ ( -30.40)
>DroYak_CAF1 12720 119 + 1
AGUGCUAUUUCUGAAAGU-UUUUUUUACUUACAUCAAACUAAUCAACAGGUGCUUAUUGGUGCCUCGGCUGCCGCCGGCAUUUUCACACCGGAGAUCCUGCGCACCAUGGCGGAUAACAA
..((((((...((.((((-.......)))).))...............(((((.....(((((....)).)))((.((.((((((.....)))))))).)))))))))))))........ ( -30.30)
>consensus
AGUGCUAUUUCUGAAGAA_CU__UUUGGUAAUAUCAAACUAAUCAACAGGUGCUUAUUGGUGCCUCGGCUGCUGCCGGCAUUUUCACACCGGAGAUCCUGCGCACCAUGGCGGAUAACAA
..(((((((((((.((((.....(((((.....)))))...)))).)))).(((...((((((..((((....))))(((.((((......))))...))))))))).))).))))))). (-26.69 = -28.88 +   2.19)

alignment

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secondary structure

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dotplot

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Window 3

Location 22,981,240 – 22,981,358
Length 118
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 87.52
Mean single sequence MFE -33.39
Consensus MFE -28.64
Energy contribution -28.07
Covariance contribution -0.56
Combinations/Pair 1.14
Mean z-score -1.33
Structure conservation index 0.86
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22981240 118 - 27905053
UUGUUAUCCGCCAUGGUGCGCAGGAUUUCCGGUGUGAAAAUGCCGGCAGCAGCCGAGGCACCAAUAAGCACCUGUUGAUUAGUUUAGGAUUACCAAA--AGUUCCAUCAGAAAUAACAAU
(((((((..((..((((((...((....(((((((....)))))))......))...))))))....))..(((.((...(.(((.((....)).))--).)..)).)))..))))))). ( -32.90)
>DroSec_CAF1 12151 118 - 1
UUGUUAUCCGCCAUGGUGCGCAGGAUCUCCGGUGUGAAAAUGCCGGCAGCAGCCGAAGCACCAAUAAGCACCUGUUGAUCAGUUAAAGAUUAUCAAA--AGUUUCAUCAGAAAUAACAAU
(((((((..((..((((((...((..(((((((((....))))))).))...))...))))))....))...((.(((((.......))))).))..--.............))))))). ( -34.50)
>DroEre_CAF1 6082 117 - 1
UUGUUAUCGGCCAUGGUGCGCAGGAUCUCCGGUGUGAAAAUGCCGGCAGCAGCCGAGGCUCCAAUAAGCACCUGUUGAUUAGUUUGAUAUAACCAAA--GG-AUCUUUAGAAAUAGCACU
.((((((.(((...(((((...(((((((.(((((....)))))(((....))))))).))).....))))).)))((((..((((.......))))--.)-))).......)))))).. ( -33.20)
>DroYak_CAF1 12720 119 - 1
UUGUUAUCCGCCAUGGUGCGCAGGAUCUCCGGUGUGAAAAUGCCGGCGGCAGCCGAGGCACCAAUAAGCACCUGUUGAUUAGUUUGAUGUAAGUAAAAAAA-ACUUUCAGAAAUAGCACU
.((((((..((..((((((...((.((.(((((((....))))))).))...))...))))))....)).....((((..(((((..............))-))).))))..)))))).. ( -32.94)
>consensus
UUGUUAUCCGCCAUGGUGCGCAGGAUCUCCGGUGUGAAAAUGCCGGCAGCAGCCGAGGCACCAAUAAGCACCUGUUGAUUAGUUUAAGAUAACCAAA__AG_ACCAUCAGAAAUAACAAU
.((((((..((..((((((...((..(((((((((....))))))).))...))...))))))....))..(((.....)))..............................)))))).. (-28.64 = -28.07 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:14:54 2006