Locus 1830

Sequence ID 3R_DroMel_CAF1
Location 5,236,072 – 5,236,220
Length 148
Max. P 0.966402
window3010 window3011

overview

Window 0

Location 5,236,072 – 5,236,182
Length 110
Sequences 6
Columns 110
Reading direction reverse
Mean pairwise identity 77.43
Mean single sequence MFE -22.48
Consensus MFE -12.58
Energy contribution -14.42
Covariance contribution 1.84
Combinations/Pair 1.35
Mean z-score -1.89
Structure conservation index 0.56
SVM decision value 0.63
SVM RNA-class probability 0.806125
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5236072 110 - 27905053
AUCGUAUCAUCUGGUCGGUAGCCUUGGAAUCCUCUAUUGCUUCCAAGGCACCGCCAAAUCCAUCCCAUCUCGAAUUUUAGCCGUAUAUUCGUUUAUCUAUGUAAGUACUA
...((((....(((.((((.(((((((((..(......).))))))))))))))))....(((.......(((((...........))))).......)))...)))).. ( -27.84)
>DroSec_CAF1 9830 102 - 1
AUCGUAUCAUCUGGUCGGUAGCCUUGGAAUCCCCUAUUGCUUCCAAGGCACCGCCAAAUCCAUCCCAUCUCGAAUUUUAGCGGUAUAUUCGUUUAUCU--------ACUA
...(((.....(((.((((.(((((((((.(.......).))))))))))))))))......................(((((.....)))))....)--------)).. ( -26.70)
>DroSim_CAF1 9888 110 - 1
AUCGUAUCAUCUGGUCGGUAGCCUUGGAAUUUACUAUUGCUUCCAAGGCACCGCCAAAUCCAUCCCAUCUCGAAUUUUAGCCGUGUAUUCUUUUAUCUAUGUAAGUACUA
...((((....(((.((((.(((((((((...........))))))))))))))))...............((((...........))))..............)))).. ( -25.50)
>DroEre_CAF1 12107 106 - 1
AUCGUAUCAUCUGGUCAAAAGCCUUGGAAUCCUCUAUUGGUUCUUAGGCACCGCCAAAUCCAUCCCAUCUCCAAUUUUAGCUGUAUAUUCGAUUAUCU----AAGUACUA
...((((....(((((....((((.((((.((......)))))).))))((.((.(((.................))).)).))......)))))...----..)))).. ( -17.93)
>DroYak_CAF1 9856 105 - 1
AUCGUAUCAUCUGGUCGUUAGUCUUGGAAUCCUCUAUUGGUUCUAGGGCAACGCCAAAUCCAUCCCAUCUCCAAUUUU-GCCGUAUAUUCGAUUAUCU----AAGUACUA
...((((....(((.((((.(((((((((.((......))))))))))))))))))......................-..((......)).......----..)))).. ( -22.20)
>DroAna_CAF1 9430 97 - 1
AGUAUAUAACCUGGCUCA---------AAGCCUCUAUUGGCUCUCUGGCCGAUUCAUCCACAUCCCAUCUAGAUAUUUAGCUACGUAAUGUUUUAACU----AAGUAAUA
(((((((.((.(((((.(---------(((((......)))).(((((..(((........)))....)))))..)).))))).)).))))....)))----........ ( -14.70)
>consensus
AUCGUAUCAUCUGGUCGGUAGCCUUGGAAUCCUCUAUUGCUUCCAAGGCACCGCCAAAUCCAUCCCAUCUCGAAUUUUAGCCGUAUAUUCGUUUAUCU____AAGUACUA
...........(((.((((.(((((((((.(.......).))))))))))))))))...................................................... (-12.58 = -14.42 +   1.84)

alignment

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secondary structure

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dotplot

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Window 1

Location 5,236,111 – 5,236,220
Length 109
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 80.67
Mean single sequence MFE -27.15
Consensus MFE -16.83
Energy contribution -18.70
Covariance contribution 1.87
Combinations/Pair 1.33
Mean z-score -3.40
Structure conservation index 0.62
SVM decision value 1.59
SVM RNA-class probability 0.966402
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5236111 109 - 27905053
ACAAAGGAGUAAA--AUCCAGGACAUCCAUGUCAAUAUCAAUCGUAUCAUCUGGUCGGUAGCCUUGGAAUCCUCUAUUGCUUCCAAGGCACCGCCAAAUCCAUCCCAUCUC
.....(((.....--......((((....))))..................(((.((((.(((((((((..(......).))))))))))))))))..))).......... ( -30.60)
>DroSec_CAF1 9861 109 - 1
ACAAAGGAGUAAA--CUCCAGGACAUCCAUGUCAAUAUCAAUCGUAUCAUCUGGUCGGUAGCCUUGGAAUCCCCUAUUGCUUCCAAGGCACCGCCAAAUCCAUCCCAUCUC
.....((((....--))))..((((....))))..................(((.((((.(((((((((.(.......).))))))))))))))))............... ( -32.90)
>DroSim_CAF1 9927 109 - 1
ACAAAGGAGUAAA--CUCCAGGACAUCCAUGUCAAUAUUAAUCGUAUCAUCUGGUCGGUAGCCUUGGAAUUUACUAUUGCUUCCAAGGCACCGCCAAAUCCAUCCCAUCUC
.....((((....--))))..((((....))))..................(((.((((.(((((((((...........))))))))))))))))............... ( -32.80)
>DroEre_CAF1 12142 109 - 1
ACAAAGGAGGAAA--CUUCACAACAUCCAUGUCAAUAUCAAUCGUAUCAUCUGGUCAAAAGCCUUGGAAUCCUCUAUUGGUUCUUAGGCACCGCCAAAUCCAUCCCAUCUC
.....((((....--))))................................((((.....((((.((((.((......)))))).))))...))))............... ( -21.70)
>DroYak_CAF1 9890 109 - 1
ACAAAGGAGAAAA--CUCCACAGCAUCCAUGUCUAUAUCAAUCGUAUCAUCUGGUCGUUAGUCUUGGAAUCCUCUAUUGGUUCUAGGGCAACGCCAAAUCCAUCCCAUCUC
.....((((....--))))................................(((.((((.(((((((((.((......))))))))))))))))))............... ( -25.80)
>DroAna_CAF1 9465 101 - 1
ACAAAGGAGAACAAUCUCCA-AAGACCCAUACCAAUAUCAAGUAUAUAACCUGGCUCA---------AAGCCUCUAUUGGCUCUCUGGCCGAUUCAUCCACAUCCCAUCUA
.....(((((....))))).-.(((...((((.........))))......(((((..---------.((((......))))....)))))................))). ( -19.10)
>consensus
ACAAAGGAGUAAA__CUCCAGAACAUCCAUGUCAAUAUCAAUCGUAUCAUCUGGUCGGUAGCCUUGGAAUCCUCUAUUGCUUCCAAGGCACCGCCAAAUCCAUCCCAUCUC
.....((((......))))................................(((.((((.(((((((((.(.......).))))))))))))))))............... (-16.83 = -18.70 +   1.87)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:20:33 2006