Locus 5783

Sequence ID 3R_DroMel_CAF1
Location 15,078,864 – 15,078,955
Length 91
Max. P 0.882046
window9477 window9478

overview

Window 7

Location 15,078,864 – 15,078,955
Length 91
Sequences 6
Columns 101
Reading direction forward
Mean pairwise identity 82.97
Mean single sequence MFE -22.45
Consensus MFE -13.62
Energy contribution -14.08
Covariance contribution 0.46
Combinations/Pair 1.20
Mean z-score -3.33
Structure conservation index 0.61
SVM decision value 0.78
SVM RNA-class probability 0.849868
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15078864 91 + 27905053
AAAAUGCCGCUACAUGCUAGCCAGCGAUAUGCGGAUACUUAAUGUAUCCGCCAGAUACGUAACAUA-------GAAAAAAGCGCG---CUGCAAAAAUAAA
.....((((((.....(((....(((((..((((((((.....))))))))...)).)))....))-------).....)))).)---)............ ( -25.90)
>DroPse_CAF1 1906 79 + 1
AAAAUGCCGCUACAU---------------GCGGAUACUUAAUGUAUCCGCCAGAUACGUAACAGA-------GACAACAACAAAAAAAAACCUAUAUAAA
...............---------------((((((((.....))))))))...............-------............................ ( -13.30)
>DroSec_CAF1 3833 91 + 1
AAAAUGCCGCUACAUGUUAGCCAGCGAUAUGCGGAUACUUAAUGUAUCCGCCAGAUACGUAACAUA-------GAAAAAAGCGCG---CUGCAAAAAUAAA
.....((((((.....(((....(((((..((((((((.....))))))))...)).)))....))-------).....)))).)---)............ ( -23.70)
>DroSim_CAF1 1745 91 + 1
AAAAUGCCGCUACAUGCUAGCCAGCGAUAUGCGGAUACUUAAUGUAUCCGCCAGAUACGUAACAUA-------GAAAAAAGCGCG---CUGCAAAAAUAAA
.....((((((.....(((....(((((..((((((((.....))))))))...)).)))....))-------).....)))).)---)............ ( -25.90)
>DroEre_CAF1 3602 91 + 1
AAAAUGCCGCUACAUGCUGGCCAACGAUAUGCGGAUAUUUAAUGUAUCCGCCAGAUACGUAACAUA-------GAAAAAAGCGCG---CUGCAAAAAUAAA
.....((((((.....(((....(((((..((((((((.....))))))))...)).)))....))-------).....)))).)---)............ ( -23.30)
>DroAna_CAF1 2000 98 + 1
AAAAUGCCGCUACAUGCUAUCGAACGAUAUGCGGAUACUUAAUGUAUCCGCCAGAUACGUAACAUAUUGUAGAAAAAAAGGCCCG---CAACGAAAAUAAA
.....(((.(((((...(((...(((((..((((((((.....))))))))...)).)))...))).))))).......)))...---............. ( -22.60)
>consensus
AAAAUGCCGCUACAUGCUAGCCAGCGAUAUGCGGAUACUUAAUGUAUCCGCCAGAUACGUAACAUA_______GAAAAAAGCGCG___CUGCAAAAAUAAA
........(((...((((....))))....((((((((.....))))))))............................)))................... (-13.62 = -14.08 +   0.46)

alignment

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secondary structure

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dotplot

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Window 8

Location 15,078,864 – 15,078,955
Length 91
Sequences 6
Columns 101
Reading direction reverse
Mean pairwise identity 82.97
Mean single sequence MFE -24.83
Consensus MFE -18.82
Energy contribution -19.17
Covariance contribution 0.35
Combinations/Pair 1.05
Mean z-score -2.70
Structure conservation index 0.76
SVM decision value 0.92
SVM RNA-class probability 0.882046
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 15078864 91 - 27905053
UUUAUUUUUGCAG---CGCGCUUUUUUC-------UAUGUUACGUAUCUGGCGGAUACAUUAAGUAUCCGCAUAUCGCUGGCUAGCAUGUAGCGGCAUUUU
............(---(.((((.....(-------((.((((((......((((((((.....))))))))....)).))))))).....))))))..... ( -27.00)
>DroPse_CAF1 1906 79 - 1
UUUAUAUAGGUUUUUUUUUGUUGUUGUC-------UCUGUUACGUAUCUGGCGGAUACAUUAAGUAUCCGC---------------AUGUAGCGGCAUUUU
............................-------.(((((((((.....((((((((.....))))))))---------------)))))))))...... ( -20.90)
>DroSec_CAF1 3833 91 - 1
UUUAUUUUUGCAG---CGCGCUUUUUUC-------UAUGUUACGUAUCUGGCGGAUACAUUAAGUAUCCGCAUAUCGCUGGCUAACAUGUAGCGGCAUUUU
............(---(.((((......-------(((((((.((.....((((((((.....)))))))).........))))))))).))))))..... ( -25.34)
>DroSim_CAF1 1745 91 - 1
UUUAUUUUUGCAG---CGCGCUUUUUUC-------UAUGUUACGUAUCUGGCGGAUACAUUAAGUAUCCGCAUAUCGCUGGCUAGCAUGUAGCGGCAUUUU
............(---(.((((.....(-------((.((((((......((((((((.....))))))))....)).))))))).....))))))..... ( -27.00)
>DroEre_CAF1 3602 91 - 1
UUUAUUUUUGCAG---CGCGCUUUUUUC-------UAUGUUACGUAUCUGGCGGAUACAUUAAAUAUCCGCAUAUCGUUGGCCAGCAUGUAGCGGCAUUUU
........(((((---....))......-------..((((((((..((((((((((.......))))).((......))))))).))))))))))).... ( -21.70)
>DroAna_CAF1 2000 98 - 1
UUUAUUUUCGUUG---CGGGCCUUUUUUUCUACAAUAUGUUACGUAUCUGGCGGAUACAUUAAGUAUCCGCAUAUCGUUCGAUAGCAUGUAGCGGCAUUUU
.........((((---((((........)))...((((((((((......((((((((.....))))))))........)).)))))))).)))))..... ( -27.04)
>consensus
UUUAUUUUUGCAG___CGCGCUUUUUUC_______UAUGUUACGUAUCUGGCGGAUACAUUAAGUAUCCGCAUAUCGCUGGCUAGCAUGUAGCGGCAUUUU
.....................................((((((((.....((((((((.....)))))))).....(((....)))))))))))....... (-18.82 = -19.17 +   0.35)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:04:41 2006