Locus 650

Sequence ID 2L_DroMel_CAF1
Location 1,951,245 – 1,951,359
Length 114
Max. P 0.586307
window1061 window1062

overview

Window 1

Location 1,951,245 – 1,951,359
Length 114
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 87.46
Mean single sequence MFE -52.50
Consensus MFE -42.66
Energy contribution -42.98
Covariance contribution 0.31
Combinations/Pair 1.16
Mean z-score -1.45
Structure conservation index 0.81
SVM decision value 0.09
SVM RNA-class probability 0.579890
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1951245 114 + 22407834
CAGGCGGGAUUACUCGUCUCGCCGCUGGAAAGUGGCGGUGUGGUGACAUUGAUGGGCGGCGACAUGCUGCCGGAACUGGAGUCCGGCGUGAGUUGACCCGAUGCCUGGCCGUAA------
((((((((.(..((((((((((((((....)))))))).(((....))).))))))..)((((.(((.((((((.(....)))))))))).)))).)))...))))).......------ ( -51.60)
>DroEre_CAF1 2894 114 + 1
CAGGCGGGAUUGCUCGUCUCGCCGCUGGAGAGUGGCGGUGUGGUCACAUUGAUGGGCGGCGACAUGCUGCCGGAACUGGAGUCCGGCGUGAGCUGACCCGAGGCCUGGCCGUAG------
..((((((....))))))((((((((.(.(((((((......))))).))..).))))))))..(((.(((((..((((.(((.(((....)))))))).))..))))).))).------ ( -53.80)
>DroYak_CAF1 466 114 + 1
CAGGCGGGAUUGCUCGUCUCGCCGCUGGAUAGUGGCGGUGUGGUCACAUUGAUGGGCGGCGACAUGCUGCCGGAACUGGAGUCCGGCGUGAGCUGACCGGAUGCCUGACCGUAG------
.(((((((....)))))))(((((((....)))))))....(((((........((((((.....))))))((..((((....((((....)))).))))...)))))))....------ ( -50.40)
>DroAna_CAF1 23048 120 + 1
CAGGCGGGAUUGCUGGUUUCUCCGCUGGAAAGCGGCGGCGUGGUCACAUUUAUGGGCGGUGACAUGCUGCCAGAACUGGAGUCUGGCGUUAACUGCCCGGAAGCCUGUCCGUGGGGAUAG
..(((((...(((..(...(((((((....)))(((((((((.((((...........)))))))))))))......)))).)..)))....)))))(....).((((((....)))))) ( -54.20)
>consensus
CAGGCGGGAUUGCUCGUCUCGCCGCUGGAAAGUGGCGGUGUGGUCACAUUGAUGGGCGGCGACAUGCUGCCGGAACUGGAGUCCGGCGUGAGCUGACCCGAUGCCUGGCCGUAG______
((((((((...(((((((((((((((....)))))))).((.(((.((....))))).))))).....((((((.(....)))))))..))))...)))...)))))............. (-42.66 = -42.98 +   0.31)

alignment

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secondary structure

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dotplot

Postscript

Window 2

Location 1,951,245 – 1,951,359
Length 114
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 87.46
Mean single sequence MFE -40.20
Consensus MFE -36.81
Energy contribution -36.94
Covariance contribution 0.13
Combinations/Pair 1.13
Mean z-score -1.33
Structure conservation index 0.92
SVM decision value 0.11
SVM RNA-class probability 0.586307
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 1951245 114 - 22407834
------UUACGGCCAGGCAUCGGGUCAACUCACGCCGGACUCCAGUUCCGGCAGCAUGUCGCCGCCCAUCAAUGUCACCACACCGCCACUUUCCAGCGGCGAGACGAGUAAUCCCGCCUG
------.......(((((...(((...((((..(((((((....).))))))....(.(((((((.......((.(........).)).......))))))).).))))...)))))))) ( -40.04)
>DroEre_CAF1 2894 114 - 1
------CUACGGCCAGGCCUCGGGUCAGCUCACGCCGGACUCCAGUUCCGGCAGCAUGUCGCCGCCCAUCAAUGUGACCACACCGCCACUCUCCAGCGGCGAGACGAGCAAUCCCGCCUG
------.......(((((...(((...((((..(((((((....).))))))....(.(((((((........(((.(......).)))......))))))).).))))...)))))))) ( -44.14)
>DroYak_CAF1 466 114 - 1
------CUACGGUCAGGCAUCCGGUCAGCUCACGCCGGACUCCAGUUCCGGCAGCAUGUCGCCGCCCAUCAAUGUGACCACACCGCCACUAUCCAGCGGCGAGACGAGCAAUCCCGCCUG
------.......(((((....((...((((..(((((((....).))))))....(.(((((((........(((.(......).)))......))))))).).))))...)).))))) ( -40.54)
>DroAna_CAF1 23048 120 - 1
CUAUCCCCACGGACAGGCUUCCGGGCAGUUAACGCCAGACUCCAGUUCUGGCAGCAUGUCACCGCCCAUAAAUGUGACCACGCCGCCGCUUUCCAGCGGAGAAACCAGCAAUCCCGCCUG
...(((....)))(((((.....(((.......(((((((....).)))))).....(((((...........)))))...))).(((((....)))))................))))) ( -36.10)
>consensus
______CUACGGCCAGGCAUCCGGUCAGCUCACGCCGGACUCCAGUUCCGGCAGCAUGUCGCCGCCCAUCAAUGUGACCACACCGCCACUUUCCAGCGGCGAGACGAGCAAUCCCGCCUG
.............(((((...(((...((((..(((((((....).))))))......(((((((........(((.(......).)))......)))))))...))))...)))))))) (-36.81 = -36.94 +   0.13)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:41:55 2006