Locus 8106

Sequence ID X_DroMel_CAF1
Location 20,164,428 – 20,164,561
Length 133
Max. P 0.981564
window13301 window13302

overview

Window 1

Location 20,164,428 – 20,164,536
Length 108
Sequences 4
Columns 115
Reading direction forward
Mean pairwise identity 87.01
Mean single sequence MFE -43.27
Consensus MFE -33.59
Energy contribution -33.40
Covariance contribution -0.19
Combinations/Pair 1.17
Mean z-score -1.93
Structure conservation index 0.78
SVM decision value 0.75
SVM RNA-class probability 0.839913
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20164428 108 + 22224390
AAUCUGUGAACCGUGCGUGUGGGUGGCUGAUGGUGCUGGGGGACAAAAGUCGCCGGCUAAGCCGCUCAUGAGUGGCCUUUGAUUGGCCAUCAUCCAGCGAAUCCACU------C-
..................((((((.(((((((((....((.(((....))).))((((((((((((....))))))......))))))))))).))))..)))))).------.- ( -41.60)
>DroSec_CAF1 12156 108 + 1
AAUCUGUGAACCGUGCGUGUGGGUGGCUGAUGGUGCUGGGGGACAAAAGUCGCCGGCUAAGCCGCUCAUGAGUGGCCUUUGAUUAGCCAUCAUCCAGCGAAUCCACU------C-
..................((((((.(((((((((....((.(((....))).))((((((((((((....))))))......))))))))))).))))..)))))).------.- ( -41.90)
>DroEre_CAF1 15196 104 + 1
AAUCUGUGAAUCGUGCGUGUGG----GUGGC-UUGCUGGGGGACAAAAGUCGUUGGCUAAGCCGCUCAUGAGUGGCCUUUGAUUGGCCUUCAUCCAGCAGACCCACU------CC
.....(((..((.(((..((((----(((((-((((..(.(.((....))).)..)).)))))))))))(((.((((.......))))))).....)))))..))).------.. ( -40.50)
>DroYak_CAF1 18740 114 + 1
AAUCUGUGAACCGUGCGUGUGGGUGGGUGGC-UUGCUGGGGGACAAAAGUCGCCGACUAAGCCGCUCAUGAGUGGCCUUUGAUUGGCCUUCAUCCAGCAAACCCACUUCCACUUC
................(((..((((((((((-(((.(.((.(((....))).)).).))))))(((.(((((.((((.......)))))))))..)))..)))))))..)))... ( -49.10)
>consensus
AAUCUGUGAACCGUGCGUGUGGGUGGCUGAC_GUGCUGGGGGACAAAAGUCGCCGGCUAAGCCGCUCAUGAGUGGCCUUUGAUUGGCCAUCAUCCAGCAAACCCACU______C_
..................((((((.........(((((((((((....))).))((((((((((((....))))))......)))))).....)))))).))))))......... (-33.59 = -33.40 +  -0.19)

alignment

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secondary structure

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dotplot

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Window 2

Location 20,164,468 – 20,164,561
Length 93
Sequences 5
Columns 115
Reading direction forward
Mean pairwise identity 69.09
Mean single sequence MFE -22.46
Consensus MFE -16.56
Energy contribution -16.60
Covariance contribution 0.04
Combinations/Pair 1.07
Mean z-score -1.54
Structure conservation index 0.74
SVM decision value 1.89
SVM RNA-class probability 0.981564
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20164468 93 + 22224390
GGACAAAAGUCGCCGGCUAAGCCGCUCAUGAGUGGCCUUUGAUUGGCCAUCAUCCAGCGAAUCCACU------C------CUC--CAUCCACACCCACAGCCGCACC--------
.(((....)))((.((((..((((((....))))))....((((.((.........)).))))....------.------...--.............))))))...-------- ( -24.40)
>DroSec_CAF1 12196 76 + 1
GGACAAAAGUCGCCGGCUAAGCCGCUCAUGAGUGGCCUUUGAUUAGCCAUCAUCCAGCGAAUCCACU------C------CUC--CAUCC-------------------------
(((......((((.((((((((((((....))))))......))))))........))))......)------)------)..--.....------------------------- ( -21.10)
>DroEre_CAF1 15231 98 + 1
GGACAAAAGUCGUUGGCUAAGCCGCUCAUGAGUGGCCUUUGAUUGGCCUUCAUCCAGCAGACCCACU------CCCAAUCCUCCCCAGCC------ACAGCCACACC-----CUC
.(((....)))((.((((..((((((....))))))....((((((......((.....))......------.))))))......))))------)).........-----... ( -23.12)
>DroYak_CAF1 18779 102 + 1
GGACAAAAGUCGCCGACUAAGCCGCUCAUGAGUGGCCUUUGAUUGGCCUUCAUCCAGCAAACCCACUUCCACUUCCAAUCCUC--CAUCC------ACAGGCACAUU-----CUG
.(((....)))(((......((((((....))))))....((((((............................))))))...--.....------...))).....-----... ( -20.99)
>DroPer_CAF1 7031 92 + 1
-GACAAAAGUCGCUGGCUAAGCCGCUCCUGAGUGGCCUUUGAUUGGCCUCUG-CCUCUAUCCUCACU------------CCUU--UGUCC------UUUGUC-CUCUCUCUUCUC
-((((((((..((.((((((((((((....))))))......))))))...)-)..))......((.------------....--.))..------))))))-............ ( -22.70)
>consensus
GGACAAAAGUCGCCGGCUAAGCCGCUCAUGAGUGGCCUUUGAUUGGCCUUCAUCCAGCAAACCCACU______C_____CCUC__CAUCC______ACAGCC_CACC_____CU_
.(((....)))...((((((((((((....))))))......))))))................................................................... (-16.56 = -16.60 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:55:32 2006