Locus 3806

Sequence ID 3L_DroMel_CAF1
Location 10,981,434 – 10,981,526
Length 92
Max. P 0.991669
window5930 window5931

overview

Window 0

Location 10,981,434 – 10,981,526
Length 92
Sequences 5
Columns 111
Reading direction forward
Mean pairwise identity 80.71
Mean single sequence MFE -23.92
Consensus MFE -11.06
Energy contribution -11.34
Covariance contribution 0.28
Combinations/Pair 1.07
Mean z-score -2.04
Structure conservation index 0.46
SVM decision value -0.03
SVM RNA-class probability 0.519167
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10981434 92 + 23771897
UGCCUCGACUAAGUAGCAACCGCUAG----------CAACCAGCAACUUGCAACAAGCA-ACUAGCAACUAGCAACUUGCAACUUCUGUUGCAUACAGAUCAG--------
(((..(......)..)))...(((((----------......((.....)).....((.-....))..)))))....((((((....))))))..........-------- ( -20.10)
>DroSec_CAF1 113524 102 + 1
UGCCUCGACUAAGUAGCAACUGCCAGCAGCUAGCAGCAACCAGCAACCAGCAACCAGCA-ACUUGCAACUAGCAACUAGCAACUUCUGUUGCAUACAGAUCAG--------
(((..(......)..))).(((......(((((..((((...((............)).-..))))..))))).....(((((....)))))...))).....-------- ( -23.40)
>DroSim_CAF1 112050 102 + 1
UGCCUCGACUAAGUAGCAACUGCCAGCAGCUAGCAGCAACCAGCAACCAGCAACUUGCA-ACUUGCAACUAGCAACUAGCAACUUCUGUUGCAUACAGAUCAG--------
(((..(......)..))).(((......(((((..((((...((((........)))).-..))))..))))).....(((((....)))))...))).....-------- ( -26.20)
>DroEre_CAF1 114292 85 + 1
UGCCUCGACUAAGUAGCAACUGCCAGCAGCUUG---CAACCAGCAACUUGCAACUAGC---------------AACUAGCCACUUCUGUUGCAUACAGAUCAG--------
(((..(......)..))).(((...((((.(((---(.....)))).)))).....((---------------(((.((......)))))))...))).....-------- ( -19.50)
>DroYak_CAF1 117172 108 + 1
UGCCUCGACUAAGUAGCAACUGCCAGCAGCUUG---CAACCAGCAACUUGCAACUAGCAAACAAGCAACUUGCAACUAGCUGCUUCUGCUGCAUACAGAUCAGUUGAUCAG
............((((((......(((((((((---(((...((...((((.....))))....))...)))))...)))))))..)))))).....((((....)))).. ( -30.40)
>consensus
UGCCUCGACUAAGUAGCAACUGCCAGCAGCUAG___CAACCAGCAACUUGCAACUAGCA_ACUAGCAACUAGCAACUAGCAACUUCUGUUGCAUACAGAUCAG________
(((..(......)..))).(((....................((.....))...........................(((((....)))))...)))............. (-11.06 = -11.34 +   0.28)

alignment

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secondary structure

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dotplot

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Window 1

Location 10,981,434 – 10,981,526
Length 92
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 80.71
Mean single sequence MFE -35.78
Consensus MFE -24.16
Energy contribution -23.58
Covariance contribution -0.58
Combinations/Pair 1.21
Mean z-score -2.80
Structure conservation index 0.68
SVM decision value 2.28
SVM RNA-class probability 0.991669
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10981434 92 - 23771897
--------CUGAUCUGUAUGCAACAGAAGUUGCAAGUUGCUAGUUGCUAGU-UGCUUGUUGCAAGUUGCUGGUUG----------CUAGCGGUUGCUACUUAGUCGAGGCA
--------.((((((((.....))))((((.((((.((((((((.((((((-.(((((...))))).)))))).)----------))))))))))).)))).))))..... ( -34.10)
>DroSec_CAF1 113524 102 - 1
--------CUGAUCUGUAUGCAACAGAAGUUGCUAGUUGCUAGUUGCAAGU-UGCUGGUUGCUGGUUGCUGGUUGCUGCUAGCUGCUGGCAGUUGCUACUUAGUCGAGGCA
--------....(((((.....)))))...((((..((((((((.((((.(-(((..((.((((((.((.....)).)))))).))..)))))))).)).))).))))))) ( -38.40)
>DroSim_CAF1 112050 102 - 1
--------CUGAUCUGUAUGCAACAGAAGUUGCUAGUUGCUAGUUGCAAGU-UGCAAGUUGCUGGUUGCUGGUUGCUGCUAGCUGCUGGCAGUUGCUACUUAGUCGAGGCA
--------.((((..(((.(((((......(((((((.((((((.((((.(-.((((.(....).)))).).)))).)))))).)))))))))))))))...))))..... ( -38.90)
>DroEre_CAF1 114292 85 - 1
--------CUGAUCUGUAUGCAACAGAAGUGGCUAGUU---------------GCUAGUUGCAAGUUGCUGGUUG---CAAGCUGCUGGCAGUUGCUACUUAGUCGAGGCA
--------.((((((((.....))))(((((((.(..(---------------((((((.((...((((.....)---))))).)))))))..)))))))).))))..... ( -28.70)
>DroYak_CAF1 117172 108 - 1
CUGAUCAACUGAUCUGUAUGCAGCAGAAGCAGCUAGUUGCAAGUUGCUUGUUUGCUAGUUGCAAGUUGCUGGUUG---CAAGCUGCUGGCAGUUGCUACUUAGUCGAGGCA
..((((....)))).(((.(((((....(((((((((.(((((...)))))..)))))))))....(((..((.(---....).))..)))))))))))...((....)). ( -38.80)
>consensus
________CUGAUCUGUAUGCAACAGAAGUUGCUAGUUGCUAGUUGCAAGU_UGCUAGUUGCAAGUUGCUGGUUG___CAAGCUGCUGGCAGUUGCUACUUAGUCGAGGCA
.........((((..(((.(((((....((.((((((.((.....))......)))))).))....(((((((...........)))))))))))))))...))))..... (-24.16 = -23.58 +  -0.58)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:04 2006