Locus 6765

Sequence ID 2L_DroMel_CAF1
Location 18,907,941 – 18,908,054
Length 113
Max. P 0.939649
window10803 window10804

overview

Window 3

Location 18,907,941 – 18,908,054
Length 113
Sequences 5
Columns 116
Reading direction forward
Mean pairwise identity 92.76
Mean single sequence MFE -27.44
Consensus MFE -22.52
Energy contribution -22.76
Covariance contribution 0.24
Combinations/Pair 1.03
Mean z-score -1.49
Structure conservation index 0.82
SVM decision value 0.40
SVM RNA-class probability 0.722666
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18907941 113 + 22407834
GCUAUAUAUUCGAGAACGAUAUGCG---AUAUGAGGCAGGCGCGAGUGCGGGUAAAACGCGUUUAAUUAACCACUUACAUGGUUUUAAUUUAUCUCCCUGCUGCACUCGAAAAAAA
........((((((..((.....))---...((.((((((.(.((..(((.......)))........(((((......)))))........)).))))))).))))))))..... ( -26.70)
>DroSec_CAF1 33086 114 + 1
GCUAUAUAUUCGAGAACGAUAUACGAUGAUAUGAGGCAGGC--GAGUGCGGGUAAAACGCGUUUAAUUAACCACUUACAUGGUUUUAAUUUAUCUCCCUGCUGCACUCGAAAAAAA
........((((((..((.....))......((.((((((.--(((.(((.......)))........(((((......))))).........))))))))).))))))))..... ( -28.70)
>DroSim_CAF1 32650 114 + 1
GCUAUAUAUUCGAGAACGAUAUGCGAUGAUAUGAGGCAGGC--GAAUGCGGGUAAAACGCGUUUAAUUAACCACUUACAUGGUUUUAAUUUAUCUCCCUGCUGCACUCGAAAAAAA
........((((((..((.....))......((.((((((.--(((((((.......)))))))....(((((......)))))............)))))).))))))))..... ( -28.70)
>DroEre_CAF1 31264 104 + 1
GCUAUAUAUUCGAGAACGAU----------AUGAGGCAGUC--GAGUGCGGGUAAAACGCGUUUAAUUAACCACUUACAUGGUUUUAAUUUAUCUCCCUGCUGCACUCGAAAAAAA
(((.(((((.((....))))----------))).)))..((--((((((((((.....))........(((((......)))))................))))))))))...... ( -26.30)
>DroYak_CAF1 31950 104 + 1
GCUAUAUAUUCGAGAACGAU----------AUGAGGCAGGC--GAGUGCGGGUAAAACGCGUUUAAUUAACCACUUACAUGGUUUUAAUUUAUCUCCCUGCUGCACUCGAAAAAAU
........((((((......----------.((.((((((.--(((.(((.......)))........(((((......))))).........))))))))).))))))))..... ( -26.81)
>consensus
GCUAUAUAUUCGAGAACGAUAU_CG___AUAUGAGGCAGGC__GAGUGCGGGUAAAACGCGUUUAAUUAACCACUUACAUGGUUUUAAUUUAUCUCCCUGCUGCACUCGAAAAAAA
........((((((....((((......))))(.((((((...(((((((.......)))))))....(((((......)))))............)))))).).))))))..... (-22.52 = -22.76 +   0.24)

alignment

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secondary structure

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dotplot

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Window 4

Location 18,907,941 – 18,908,054
Length 113
Sequences 5
Columns 116
Reading direction reverse
Mean pairwise identity 92.76
Mean single sequence MFE -26.52
Consensus MFE -23.56
Energy contribution -23.80
Covariance contribution 0.24
Combinations/Pair 1.03
Mean z-score -1.54
Structure conservation index 0.89
SVM decision value 1.28
SVM RNA-class probability 0.939649
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18907941 113 - 22407834
UUUUUUUCGAGUGCAGCAGGGAGAUAAAUUAAAACCAUGUAAGUGGUUAAUUAAACGCGUUUUACCCGCACUCGCGCCUGCCUCAUAU---CGCAUAUCGUUCUCGAAUAUAUAGC
........(((.((((..(.(((.........((((((....))))))........(((.......))).))).)..)))))))....---......(((....)))......... ( -25.50)
>DroSec_CAF1 33086 114 - 1
UUUUUUUCGAGUGCAGCAGGGAGAUAAAUUAAAACCAUGUAAGUGGUUAAUUAAACGCGUUUUACCCGCACUC--GCCUGCCUCAUAUCAUCGUAUAUCGUUCUCGAAUAUAUAGC
.....((((((.((.((((((((.........((((((....))))))........(((.......))).)))--.)))))...((((....))))...)).))))))........ ( -29.50)
>DroSim_CAF1 32650 114 - 1
UUUUUUUCGAGUGCAGCAGGGAGAUAAAUUAAAACCAUGUAAGUGGUUAAUUAAACGCGUUUUACCCGCAUUC--GCCUGCCUCAUAUCAUCGCAUAUCGUUCUCGAAUAUAUAGC
.....((((((.((.((((((((.........((((((....))))))........(((.......))).)))--.)))))...((((......)))).)).))))))........ ( -26.30)
>DroEre_CAF1 31264 104 - 1
UUUUUUUCGAGUGCAGCAGGGAGAUAAAUUAAAACCAUGUAAGUGGUUAAUUAAACGCGUUUUACCCGCACUC--GACUGCCUCAU----------AUCGUUCUCGAAUAUAUAGC
........(((.((((..(((...........((((((....))))))........(((.......))).)))--..)))))))..----------.(((....)))......... ( -24.40)
>DroYak_CAF1 31950 104 - 1
AUUUUUUCGAGUGCAGCAGGGAGAUAAAUUAAAACCAUGUAAGUGGUUAAUUAAACGCGUUUUACCCGCACUC--GCCUGCCUCAU----------AUCGUUCUCGAAUAUAUAGC
.....((((((.((.((((((((.........((((((....))))))........(((.......))).)))--.))))).....----------...)).))))))........ ( -26.90)
>consensus
UUUUUUUCGAGUGCAGCAGGGAGAUAAAUUAAAACCAUGUAAGUGGUUAAUUAAACGCGUUUUACCCGCACUC__GCCUGCCUCAUAU___CG_AUAUCGUUCUCGAAUAUAUAGC
.....((((((.((.((((((((.........((((((....))))))........(((.......))).)))...)))))...((((......)))).)).))))))........ (-23.56 = -23.80 +   0.24)

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 12:19:28 2006