Locus 6333

Sequence ID 3R_DroMel_CAF1
Location 16,574,552 – 16,574,712
Length 160
Max. P 0.999891
window10327 window10328 window10329

overview

Window 7

Location 16,574,552 – 16,574,672
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 92.75
Mean single sequence MFE -48.90
Consensus MFE -41.32
Energy contribution -42.24
Covariance contribution 0.92
Combinations/Pair 1.11
Mean z-score -1.31
Structure conservation index 0.84
SVM decision value 0.18
SVM RNA-class probability 0.622266
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16574552 120 - 27905053
CGCCCAGGAAGCUGUUCGAAAGGGCUCCACAGCGGUCGGCGUUCGUGGAGCCAAUUGUGUGGUGCUGGGUGUGGAGAAGAGCUCGGUGUCCGAGAUGCAGGAGGAUCGGACGGUGCGCAA
(((((((...((..(.(((...((((((((((((.....)))).))))))))..))).)..)).))))))).........((.((.(((((((..(......)..))))))).)).)).. ( -53.00)
>DroSec_CAF1 130767 120 - 1
CGCCCAGGAAGCUGUUCGAAAGGGUUCCACAGCGGUUGGCGUUCGUGGAGCCAAUUGCGUGGUGCUGGGCGUGGAGAAGAGCUCGGUGUCCCCGAUGCAGGAGGAUCGAACGGUGCAAAA
(((((((...((..(.(((...((((((((((((.....)))).))))))))..))).)..)).))))))).........((.(.((((((((......)).))))...)).).)).... ( -47.90)
>DroSim_CAF1 135117 120 - 1
CGCCCAGGAAGCUGUUCGAAAGGGUUCCACAGCGGUUGGCGUUCGUGGAGCCAAUUGCGUGGUGCUGGGCGUGGAGAAGAGCUCGGUGUCCCCGAUGCAGGAGGAUCGAACGGUGCAAAA
(((((((...((..(.(((...((((((((((((.....)))).))))))))..))).)..)).))))))).........((.(.((((((((......)).))))...)).).)).... ( -47.90)
>DroEre_CAF1 134881 120 - 1
CGCCCAGGAAGCUGUUCGCAAGGGCUCCACAGCGGUUGGGGUUCGUGGAGCCAAUUGCGUGGUGCUAGGCGUGGAGAAGAGCUCGUUGUCCAAGAUGCAGGAGGACCGCACGGUGCGCAA
(((((............((((.(((((((((((.......))).))))))))..))))(((((.((..(((((((.(((....).)).))))...)))...)).)))))..)).)))... ( -46.40)
>DroYak_CAF1 130884 120 - 1
CGCCCAGGAAGCUGUUCGAAAGGGCUCCACGGCGGUUGGGGUGCGUGGAGCCAAUUGCGUGGUGCUGGGCGUGGAGAAGAGCUCGGUGUCCAAGAUGCAGGAGUACCGAACGGUGCGCAA
.((((((...((..(.(((...(((((((((((.......)).)))))))))..))).)..)).))))))(((.(.....(.(((((((((........))).)))))).)..).))).. ( -49.30)
>consensus
CGCCCAGGAAGCUGUUCGAAAGGGCUCCACAGCGGUUGGCGUUCGUGGAGCCAAUUGCGUGGUGCUGGGCGUGGAGAAGAGCUCGGUGUCCAAGAUGCAGGAGGAUCGAACGGUGCGCAA
.((((((....))((((((...((((((((((((.....)))).))))))))..(((((((..(((((((..........)))))))..)....)))))).....)))))))).)).... (-41.32 = -42.24 +   0.92)

alignment

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secondary structure

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dotplot

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Window 8

Location 16,574,592 – 16,574,712
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.33
Mean single sequence MFE -43.79
Consensus MFE -40.16
Energy contribution -40.64
Covariance contribution 0.48
Combinations/Pair 1.06
Mean z-score -2.78
Structure conservation index 0.92
SVM decision value 4.15
SVM RNA-class probability 0.999816
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16574592 120 + 27905053
UCUUCUCCACACCCAGCACCACACAAUUGGCUCCACGAACGCCGACCGCUGUGGAGCCCUUUCGAACAGCUUCCUGGGCGUACUCCACCUGCAACAGGUGGCCAUCCGGCGAGAAUAUGG
..(((((.((.(((((............(((((((((...((.....))))))))))).....(((....)))))))).))....((((((...))))))(((....))))))))..... ( -41.10)
>DroSec_CAF1 130807 120 + 1
UCUUCUCCACGCCCAGCACCACGCAAUUGGCUCCACGAACGCCAACCGCUGUGGAACCCUUUCGAACAGCUUCCUGGGCGUACUCCACCUGCAACAGGUGGCCAUCCGGCGAGAAUAUGG
..(((((.((((((((..((((((..(((((.........)))))..)).)))).........(((....)))))))))))....((((((...))))))(((....))))))))..... ( -44.30)
>DroSim_CAF1 135157 120 + 1
UCUUCUCCACGCCCAGCACCACGCAAUUGGCUCCACGAACGCCAACCGCUGUGGAACCCUUUCGAACAGCUUCCUGGGCGUACUCCACCUGCAACAGGUGGCCAUCCGGCGAGAAUAUGG
..(((((.((((((((..((((((..(((((.........)))))..)).)))).........(((....)))))))))))....((((((...))))))(((....))))))))..... ( -44.30)
>DroEre_CAF1 134921 120 + 1
UCUUCUCCACGCCUAGCACCACGCAAUUGGCUCCACGAACCCCAACCGCUGUGGAGCCCUUGCGAACAGCUUCCUGGGCGUACUCCACCUGCAACAAGUGGCCAUCCGGCGAGAAUAUGG
..(((((.(((((((((....(((((..(((((((((............))))))))).)))))....)))....))))))....(((.((...)).)))(((....))))))))..... ( -41.90)
>DroYak_CAF1 130924 120 + 1
UCUUCUCCACGCCCAGCACCACGCAAUUGGCUCCACGCACCCCAACCGCCGUGGAGCCCUUUCGAACAGCUUCCUGGGCGUACUCCACCUGCAACAGGUGGCCAUCCGGCGAGAAUAUGG
..(((((.((((((((.....((.((..((((((((((.........).)))))))))..)))).........))))))))....((((((...))))))(((....))))))))..... ( -47.34)
>consensus
UCUUCUCCACGCCCAGCACCACGCAAUUGGCUCCACGAACGCCAACCGCUGUGGAGCCCUUUCGAACAGCUUCCUGGGCGUACUCCACCUGCAACAGGUGGCCAUCCGGCGAGAAUAUGG
..(((((.((((((((............(((((((((............))))))))).....(((....)))))))))))....((((((...))))))(((....))))))))..... (-40.16 = -40.64 +   0.48)

alignment

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secondary structure

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dotplot

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Window 9

Location 16,574,592 – 16,574,712
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.33
Mean single sequence MFE -54.54
Consensus MFE -52.14
Energy contribution -52.58
Covariance contribution 0.44
Combinations/Pair 1.08
Mean z-score -2.55
Structure conservation index 0.96
SVM decision value 4.41
SVM RNA-class probability 0.999891
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16574592 120 - 27905053
CCAUAUUCUCGCCGGAUGGCCACCUGUUGCAGGUGGAGUACGCCCAGGAAGCUGUUCGAAAGGGCUCCACAGCGGUCGGCGUUCGUGGAGCCAAUUGUGUGGUGCUGGGUGUGGAGAAGA
.....(((((.........(((((((...)))))))..(((((((((...((..(.(((...((((((((((((.....)))).))))))))..))).)..)).)))))))))))))).. ( -56.00)
>DroSec_CAF1 130807 120 - 1
CCAUAUUCUCGCCGGAUGGCCACCUGUUGCAGGUGGAGUACGCCCAGGAAGCUGUUCGAAAGGGUUCCACAGCGGUUGGCGUUCGUGGAGCCAAUUGCGUGGUGCUGGGCGUGGAGAAGA
.....(((((.........(((((((...)))))))..(((((((((...((..(.(((...((((((((((((.....)))).))))))))..))).)..)).)))))))))))))).. ( -55.50)
>DroSim_CAF1 135157 120 - 1
CCAUAUUCUCGCCGGAUGGCCACCUGUUGCAGGUGGAGUACGCCCAGGAAGCUGUUCGAAAGGGUUCCACAGCGGUUGGCGUUCGUGGAGCCAAUUGCGUGGUGCUGGGCGUGGAGAAGA
.....(((((.........(((((((...)))))))..(((((((((...((..(.(((...((((((((((((.....)))).))))))))..))).)..)).)))))))))))))).. ( -55.50)
>DroEre_CAF1 134921 120 - 1
CCAUAUUCUCGCCGGAUGGCCACUUGUUGCAGGUGGAGUACGCCCAGGAAGCUGUUCGCAAGGGCUCCACAGCGGUUGGGGUUCGUGGAGCCAAUUGCGUGGUGCUAGGCGUGGAGAAGA
.....(((((.........(((((((...)))))))..((((((.((...(((...(((((.(((((((((((.......))).))))))))..))))).))).)).))))))))))).. ( -49.10)
>DroYak_CAF1 130924 120 - 1
CCAUAUUCUCGCCGGAUGGCCACCUGUUGCAGGUGGAGUACGCCCAGGAAGCUGUUCGAAAGGGCUCCACGGCGGUUGGGGUGCGUGGAGCCAAUUGCGUGGUGCUGGGCGUGGAGAAGA
.....(((((.........(((((((...)))))))..(((((((((...((..(.(((...(((((((((((.......)).)))))))))..))).)..)).)))))))))))))).. ( -56.60)
>consensus
CCAUAUUCUCGCCGGAUGGCCACCUGUUGCAGGUGGAGUACGCCCAGGAAGCUGUUCGAAAGGGCUCCACAGCGGUUGGCGUUCGUGGAGCCAAUUGCGUGGUGCUGGGCGUGGAGAAGA
.....(((((.........(((((((...)))))))..(((((((((...((..(.(((...((((((((((((.....)))).))))))))..))).)..)).)))))))))))))).. (-52.14 = -52.58 +   0.44)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:18:56 2006