Locus 265

Sequence ID 3R_DroMel_CAF1
Location 1,043,785 – 1,043,985
Length 200
Max. P 0.806556
window459 window460

overview

Window 9

Location 1,043,785 – 1,043,905
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 79.65
Mean single sequence MFE -56.34
Consensus MFE -31.56
Energy contribution -34.80
Covariance contribution 3.24
Combinations/Pair 1.12
Mean z-score -2.07
Structure conservation index 0.56
SVM decision value 0.63
SVM RNA-class probability 0.806556
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1043785 120 + 27905053
CUGCGCGGGGCCUCCUGCCCUCUGGCGGCACCACUAGUGCCUGGUCCUCGCCCUGGCUCCUGGCUACCUCCUGGCUCGGGCAGAGCUAGGGCGCCCCGCCACGAAAGCACCGGAUGCACC
.((((((((((..((.(((....)))(((((.....))))).)).....(((((((((((((((((.....)))).))))...))))))))))))))))..(....)........))).. ( -58.40)
>DroSec_CAF1 15600 120 + 1
CUGCGCCGUACCUCCUGCCCUCUGGAGGCACCACUAGUGCCUGGCCCUGGCCCUGGCUCCUGCCUGCCUCCUGGCUCGCACAGAGCUGAGGCGCCCCGCCACGGAAGCACCGGAUGCACC
.(((((((..(((((........)))))........((((....((.((((...(((....))).(((((..(((((.....)))))))))).....)))).))..))))))).)))).. ( -50.90)
>DroSim_CAF1 15596 120 + 1
CUGCGCCGUACCUCCUGCCCUCUGGAGGCACCACUAGUGCCUGGCCCUGGCCCUGGCUCCUGGCUGCCUCCUGGCUCGCACAGAGCUGAGGCGCCCCGCCACGGAAGCACCGGAUGCACC
.(((((((........((((((.((((((((((...(.(((.(((....)))..))).).))).))))))).(((((.....))))))))).)).(((...)))......))).)))).. ( -52.10)
>DroEre_CAF1 15680 114 + 1
CUGCGCCGGGCCUCCUCCUCUCUGGAGGCUCUGCUACUCCCUG------GCACCGGACCCUGGCUGCCUGCUGGCGCGGGCCCAGCCGGGGCGCCUCUCCAGGGAACCACCUGGUGCACG
.((((((((((((((........))))))))......((((((------(....((.((((((((((((((....))))))..))))))))..))...))))))).......)))))).. ( -66.80)
>DroYak_CAF1 15405 114 + 1
CUGCGCCGGGCCUCCUCCUCUCUGGAGGCUCUGCCACUCCCUG------GCACUGGACACUGACUGCCUCCUGGCUUAGGCCCAGCUGGGGCGCCUUGCCACGGAACCACCUGGUGCACG
.((((((((((((((........))))))))......(((.((------(((..((.(.((((..(((....)))))))((((.....))))))).))))).))).......)))))).. ( -53.50)
>consensus
CUGCGCCGGGCCUCCUGCCCUCUGGAGGCACCACUAGUGCCUGG_CCU_GCCCUGGCUCCUGGCUGCCUCCUGGCUCGGGCAGAGCUGGGGCGCCCCGCCACGGAAGCACCGGAUGCACC
.(((...((((((((........)))))))).........((((......((.((((....(((.(((((..(((((.....)))))))))))))..)))).)).....))))..))).. (-31.56 = -34.80 +   3.24)

alignment

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secondary structure

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dotplot

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Window 0

Location 1,043,865 – 1,043,985
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 80.17
Mean single sequence MFE -55.84
Consensus MFE -37.50
Energy contribution -39.38
Covariance contribution 1.88
Combinations/Pair 1.19
Mean z-score -1.84
Structure conservation index 0.67
SVM decision value 0.56
SVM RNA-class probability 0.783238
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 1043865 120 + 27905053
CAGAGCUAGGGCGCCCCGCCACGAAAGCACCGGAUGCACCAAGGUGGAUAGAAUGGUGGUUCGGCCGGGCUUGGGUGACAGGCGAUAGGUGCGAGUUGGUGGGACCUGGCGGGGGAGCUG
.........(((.(((((((((....)((((((.((((((..(((.((............)).)))..(((((.....)))))....))))))..)))))).....))))))))..))). ( -52.20)
>DroSec_CAF1 15680 120 + 1
CAGAGCUGAGGCGCCCCGCCACGGAAGCACCGGAUGCACCAUGGUGGACAGAAUGGUGGUGCGUCCGGCCUUGGGGGCCAGGAGGUAGGUGUGAGUUGGUGUGACCUGGCGGGGGAGUUG
....((....)).((((((((.((..((((((((((((((((.((.......)).)))))))))))((((.....))))..................)))))..))))))))))...... ( -62.30)
>DroSim_CAF1 15676 120 + 1
CAGAGCUGAGGCGCCCCGCCACGGAAGCACCGGAUGCACCAUGGUGGACAGAAUGGUGGUGCGGCCGACCUUGGGGGCCAGGCGGUAGGUGUGAGUUGGUGUGACCUGGCGGGGGAGUUG
....((....)).((((((((.((..(((((((.((((((((.((.......)).))))))))((((.(((.((...))))))))).........)))))))..))))))))))...... ( -56.00)
>DroEre_CAF1 15754 120 + 1
CCCAGCCGGGGCGCCUCUCCAGGGAACCACCUGGUGCACGAUGGUGGACAGAACGGUGGUGCAGCCCGGCUUGAUAGCCAGGCGGUAGGUGCGACUCGGGGGGUCCUUGAGGGGGUGCUG
(((....)))(((((((..((((((.((.((((((((((.((.((.......)).)).)))))(((.((((....)))).)))............))))))).))))))..))))))).. ( -60.50)
>DroYak_CAF1 15479 120 + 1
CCCAGCUGGGGCGCCUUGCCACGGAACCACCUGGUGCACGAUAGUGGACAGGACGGUGGUGCAGCCCGGCUUGAUUGUCAUGCGGUUGGUCCGACUAGGGGAGUCCUUGAGGGGGAAGUG
(((..(.(((((.((((....((((((((((..((.(((....))).)).....)))))).(((((..((.((.....)).))))))).))))....)))).))))).)..)))...... ( -48.20)
>consensus
CAGAGCUGGGGCGCCCCGCCACGGAAGCACCGGAUGCACCAUGGUGGACAGAAUGGUGGUGCGGCCGGGCUUGGGGGCCAGGCGGUAGGUGCGAGUUGGUGGGACCUGGCGGGGGAGCUG
....((....)).((((((((.((..(((((((.((((((((.((.......)).))))))))(((..(((((.....)))))....))).....)))))))..))))))))))...... (-37.50 = -39.38 +   1.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:39:01 2006