Locus 8504

Sequence ID X_DroMel_CAF1
Location 21,070,982 – 21,071,138
Length 156
Max. P 0.873435
window14005 window14006

overview

Window 5

Location 21,070,982 – 21,071,099
Length 117
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 92.16
Mean single sequence MFE -38.07
Consensus MFE -29.56
Energy contribution -30.57
Covariance contribution 1.00
Combinations/Pair 1.07
Mean z-score -3.59
Structure conservation index 0.78
SVM decision value 0.88
SVM RNA-class probability 0.873435
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21070982 117 - 22224390
AACUCCAACCCCUUGCGGCUGCCCCAUUAUCCUGCCACAAUUUUUCCGCACUCCAUAUGUGGAAAAGUGGC---GGGGAAAACAAAUCCAAGCUCUUUAUUCACUCAGCAGUGCAGGCAA
...........((((((.((((.........(((((((...(((((((((.......))))))))))))))---))(((.......)))..................))))))))))... ( -35.80)
>DroEre_CAF1 41415 119 - 1
AACUCCGACCCC-UGCGGCUGCCCCAUUAUCCUGCCACAAUUUUUCCACACUCCAUAUGUGGAAAAGUGGCGGCGGGGAAAGCAAAUCCAAGCUCUUCAUUUACUCAGCAGUGCAGGCGA
........(.((-((((.((((........((((((.(.(((((((((((.......))))))))))).).))))))((((((........))).))).........)))))))))).). ( -44.80)
>DroYak_CAF1 47180 117 - 1
AACUCCGACCCCUUGCGGCUGCCCCAUUAUCCUACCACAAUAUUUCCACACUCCAUAUGUGGAAAAGUGGC---GGGGGAAGCAAAUCCAAGCUCUUUAUUCACUCAGCAGUGCAAGCAA
...........((((((.((((........((..((((....((((((((.......)))))))).)))).---.))(((......)))..................))))))))))... ( -33.60)
>consensus
AACUCCGACCCCUUGCGGCUGCCCCAUUAUCCUGCCACAAUUUUUCCACACUCCAUAUGUGGAAAAGUGGC___GGGGAAAGCAAAUCCAAGCUCUUUAUUCACUCAGCAGUGCAGGCAA
...........((((((.(((((((........(((((...(((((((((.......))))))))))))))....)))..(((........))).............))))))))))... (-29.56 = -30.57 +   1.00)

alignment

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secondary structure

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dotplot

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Window 6

Location 21,071,022 – 21,071,138
Length 116
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 92.13
Mean single sequence MFE -45.53
Consensus MFE -36.46
Energy contribution -36.80
Covariance contribution 0.34
Combinations/Pair 1.08
Mean z-score -2.57
Structure conservation index 0.80
SVM decision value 0.48
SVM RNA-class probability 0.754572
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 21071022 116 - 22224390
AGUCCUCGUCGUGG-GCCAGGCCAAAUGCGUCCGGGCUUGAACUCCAACCCCUUGCGGCUGCCCCAUUAUCCUGCCACAAUUUUUCCGCACUCCAUAUGUGGAAAAGUGGC---GGGGAA
..........(.((-((..((((....(((...(((.(((.....))).))).))))))))))))....(((((((((...(((((((((.......))))))))))))))---)))).. ( -44.70)
>DroEre_CAF1 41455 118 - 1
AGUCCUCGACCUGG-GCCAGGCCAACUGCGUCCGGGCUUGAACUCCGACCCC-UGCGGCUGCCCCAUUAUCCUGCCACAAUUUUUCCACACUCCAUAUGUGGAAAAGUGGCGGCGGGGAA
.(((.(((((((((-(((((.....))).))))))).)))).....)))(((-(((((.....)).......((((((...(((((((((.......))))))))))))))))))))).. ( -49.50)
>DroYak_CAF1 47220 117 - 1
AGUCCUCGUCCUGGGGCCAGGCCAAAUGCGUCCAGGCUUGAACUCCGACCCCUUGCGGCUGCCCCAUUAUCCUACCACAAUAUUUCCACACUCCAUAUGUGGAAAAGUGGC---GGGGGA
..(((((((((((((((((((((...........))))))....(((........)))..))))).................((((((((.......)))))))))).)))---))))). ( -42.40)
>consensus
AGUCCUCGUCCUGG_GCCAGGCCAAAUGCGUCCGGGCUUGAACUCCGACCCCUUGCGGCUGCCCCAUUAUCCUGCCACAAUUUUUCCACACUCCAUAUGUGGAAAAGUGGC___GGGGAA
..(((((....(((.((..((((....(((...(((.(((.....))).))).))))))))).))).......(((((...(((((((((.......))))))))))))))...))))). (-36.46 = -36.80 +   0.34)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:06:07 2006