Locus 3752

Sequence ID 2R_DroMel_CAF1
Location 12,379,073 – 12,379,186
Length 113
Max. P 0.999937
window6089 window6090

overview

Window 9

Location 12,379,073 – 12,379,186
Length 113
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 74.50
Mean single sequence MFE -27.65
Consensus MFE -10.62
Energy contribution -11.94
Covariance contribution 1.32
Combinations/Pair 1.10
Mean z-score -3.61
Structure conservation index 0.38
SVM decision value 4.48
SVM RNA-class probability 0.999907
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12379073 113 + 20766785
UUGGAGGAUAAUGAUAAUCAUAUGCAAACACACAACCACCCAUCCGAUGAGGAGGGCCAUUACUAUGGC-------ACAUGAUUAUCAUUGCCUAAAAUCCUUUCCGAAAAAUUGAUCUC
(((((((((((((((((((((.(((.............(((.(((.....)))))).(((....)))))-------).)))))))))))).......))))..)))))............ ( -32.11)
>DroSec_CAF1 37988 114 + 1
UUGGAGGAAAAUGAUAAUCAUCUGAAAACACACAA---CCCAACCGAUGA---GGGCCAUUACUAUGGUUAUCAUAACAUGAUUAUCAUUGCCUAAAAUCCUUUCCGAAAAAUUGAUCUC
((((((((.((((((((((((.((........)).---........((((---..(((((....)))))..))))...))))))))))))........)))..)))))............ ( -25.10)
>DroSim_CAF1 38481 107 + 1
UUGGAGGAAAAUGAUAAUCAUCUGCAAACAAACAA---CCCAUCCGAUGU---GGGCCAAUACUAUGAC-------ACAUGAUUAUCAUUGCCUAAAAUCCUCUCCGAAAAAUUGAUCUC
..((((((.((((((((((((.((((.........---(((((.....))---))).........)).)-------).))))))))))))........))))))................ ( -25.67)
>DroEre_CAF1 37839 95 + 1
UUGGAGGUCAAUGAUUAUCAUCUGC-AACAUAUAA---CUUAUCCGAUAA---GGGCUACUACUAUUGC-------AGAUGAUUAUCAUUGGCUAAACCC-----------UUUGAUCUC
..((.((((((((((.(((((((((-((.......---....(((.....---))).........))))-------))))))).))))))))))...)).-----------......... ( -30.15)
>DroYak_CAF1 38924 95 + 1
UCGGAGGAAAAUGACUAUCAUCUGA-AACGUAGAG---CCCAUCCAAUGA---CGGCCACUACUAUUGC-------AGAUGAUUAUCAUUGUCUAAACCC-----------AAUGAGUUU
..((.(((.(((((..((((((((.-...((((.(---((..((....))---.)))..)))).....)-------)))))))..))))).)))....))-----------......... ( -25.20)
>consensus
UUGGAGGAAAAUGAUAAUCAUCUGCAAACACACAA___CCCAUCCGAUGA___GGGCCACUACUAUGGC_______ACAUGAUUAUCAUUGCCUAAAAUCCU_UCCGAAAAAUUGAUCUC
....(((...(((((((((((......................((........))((((......)))).........)))))))))))..))).......................... (-10.62 = -11.94 +   1.32)

alignment

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secondary structure

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dotplot

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Window 0

Location 12,379,073 – 12,379,186
Length 113
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 74.50
Mean single sequence MFE -34.00
Consensus MFE -14.36
Energy contribution -15.00
Covariance contribution 0.64
Combinations/Pair 1.31
Mean z-score -3.85
Structure conservation index 0.42
SVM decision value 4.68
SVM RNA-class probability 0.999937
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 12379073 113 - 20766785
GAGAUCAAUUUUUCGGAAAGGAUUUUAGGCAAUGAUAAUCAUGU-------GCCAUAGUAAUGGCCCUCCUCAUCGGAUGGGUGGUUGUGUGUUUGCAUAUGAUUAUCAUUAUCCUCCAA
((((......))))(((..((((.......((((((((((((((-------((((((.((((.(((((((.....))).)))).))))))))...))))))))))))))))))))))).. ( -43.21)
>DroSec_CAF1 37988 114 - 1
GAGAUCAAUUUUUCGGAAAGGAUUUUAGGCAAUGAUAAUCAUGUUAUGAUAACCAUAGUAAUGGCCC---UCAUCGGUUGGG---UUGUGUGUUUUCAGAUGAUUAUCAUUUUCCUCCAA
((((......))))(((..(((........((((((((((((....(((.((((((((...(((((.---.....)))))..---))))).))).))).)))))))))))).)))))).. ( -28.20)
>DroSim_CAF1 38481 107 - 1
GAGAUCAAUUUUUCGGAGAGGAUUUUAGGCAAUGAUAAUCAUGU-------GUCAUAGUAUUGGCCC---ACAUCGGAUGGG---UUGUUUGUUUGCAGAUGAUUAUCAUUUUCCUCCAA
((((......))))((((.(((........((((((((((((.(-------((.((((...((((((---(.......))))---))).))))..))).))))))))))))))))))).. ( -31.80)
>DroEre_CAF1 37839 95 - 1
GAGAUCAAA-----------GGGUUUAGCCAAUGAUAAUCAUCU-------GCAAUAGUAGUAGCCC---UUAUCGGAUAAG---UUAUAUGUU-GCAGAUGAUAAUCAUUGACCUCCAA
(((.((...-----------.((.....))((((((.(((((((-------((((((...(((((((---.....))....)---)))).))))-))))))))).)))))))).)))... ( -32.10)
>DroYak_CAF1 38924 95 - 1
AAACUCAUU-----------GGGUUUAGACAAUGAUAAUCAUCU-------GCAAUAGUAGUGGCCG---UCAUUGGAUGGG---CUCUACGUU-UCAGAUGAUAGUCAUUUUCCUCCGA
(((((....-----------.))))).((.((((((.(((((((-------(.(((.((((.(.(((---((....))))).---).)))))))-.)))))))).)))))).))...... ( -34.70)
>consensus
GAGAUCAAUUUUUCGGA_AGGAUUUUAGGCAAUGAUAAUCAUGU_______GCCAUAGUAAUGGCCC___UCAUCGGAUGGG___UUGUAUGUUUGCAGAUGAUUAUCAUUUUCCUCCAA
((((((..............)))))).((.((((((((((((((.......(((((....)))))((........))....................)))))))))))))).))...... (-14.36 = -15.00 +   0.64)

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 11:03:26 2006