Locus 7004

Sequence ID 2L_DroMel_CAF1
Location 19,500,182 – 19,500,291
Length 109
Max. P 0.943246
window11169 window11170

overview

Window 9

Location 19,500,182 – 19,500,291
Length 109
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 76.73
Mean single sequence MFE -44.93
Consensus MFE -23.31
Energy contribution -23.78
Covariance contribution 0.48
Combinations/Pair 1.32
Mean z-score -1.78
Structure conservation index 0.52
SVM decision value 0.17
SVM RNA-class probability 0.618712
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19500182 109 + 22407834
-----GGCCAGCUUGCCGCGCUUUUCGUCGAAGCCAGCAAAUGUUUCCGCCCGCUUGGGCAGAGUGGGCGAAGCGUACUGCUCACUCUGCUUUUCGCCGACACUACUCAGAGUC
-----(((.(((((((.(.(((((.....)))))).))))........((((....))))((((((((((........)))))))))))))....)))(((.((....)).))) ( -37.70)
>DroVir_CAF1 17852 114 + 1
UCGCGGCCCAGCUUGCCACGCUUCUCGUCGAAACCGGCAAAGGUUUCGGCGCGCUUUGGCAGCGUGGGUGAGGCAUAGAGCACGCUCUGUUUCUCACCCACGCUGCUGACGGUG
.((.(((.......))).)).....((((((((((......))))))))))(((((..(((((((((((((((.((((((....)))))).)))))))))))))))..).)))) ( -65.90)
>DroPse_CAF1 18447 109 + 1
-----UCCCAGCUUGCCCCGCUUCUCAUCGAAACCAGCGAACGUCUCUGCCCGCUUGGGCAGCGUCGGGGAGGCGUAUUGGUCGCUUUGCUUCUCGCCAACGCUGCUGAGGGUG
-----(((((((..((..((((((((.(((.......))).((.(.((((((....)))))).).))))))))))..((((.((..........)))))).)).)))).))).. ( -41.20)
>DroGri_CAF1 17423 114 + 1
UCGCGUCCCACCUUGCCACGCUUCUCAUCGAAGCCGGCAAAGGUCUCCGCUCGCUUGGGCAGCGUGGGCGAGGCAUAGAGUACGCUCUGCUUCUCGCCAACGCUGCUAACCGUG
..(((....((((((((..(((((.....))))).))).)))))...))).(((...((((((((.(((((((..(((((....)))))..))))))).))))))))....))) ( -55.20)
>DroAna_CAF1 15183 109 + 1
-----ACCGAGUUUUCCCCGCUUUUCGUCAAAUCCAGCAAAGGUUUCCGCUCGUUUCGGCAGAGUGGGCGAUGAGAACUGUUCACUUUGCUUCUCGCUUACGCUGCUUAGUGCU
-----..(((((.......((((((.((........))))))))....)))))....(((((.((((((((.(((....(....)....))).)))))))).)))))....... ( -28.40)
>DroPer_CAF1 16505 109 + 1
-----UCCCAGCUUGCCCCGCUUCUCAUCGAAACCAGCGAACGUCUCUGCCCGCUUGGGCAGCGUCGGGGAGGCGUAUUGGUCGCUUUGCUUCUCGCCAACGCUGCUGAGGGUG
-----(((((((..((..((((((((.(((.......))).((.(.((((((....)))))).).))))))))))..((((.((..........)))))).)).)))).))).. ( -41.20)
>consensus
_____UCCCAGCUUGCCCCGCUUCUCAUCGAAACCAGCAAAGGUCUCCGCCCGCUUGGGCAGCGUGGGCGAGGCGUACUGCUCGCUCUGCUUCUCGCCAACGCUGCUGAGGGUG
............((((...(.(((.....))).)..))))...........((((..((((((((.(((((((.(((..(....)..))).))))))).))))))))...)))) (-23.31 = -23.78 +   0.48)

alignment

Postscript

secondary structure

Postscript

dotplot

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Window 0

Location 19,500,182 – 19,500,291
Length 109
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 76.73
Mean single sequence MFE -46.62
Consensus MFE -25.33
Energy contribution -25.48
Covariance contribution 0.14
Combinations/Pair 1.34
Mean z-score -2.25
Structure conservation index 0.54
SVM decision value 1.33
SVM RNA-class probability 0.943246
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19500182 109 - 22407834
GACUCUGAGUAGUGUCGGCGAAAAGCAGAGUGAGCAGUACGCUUCGCCCACUCUGCCCAAGCGGGCGGAAACAUUUGCUGGCUUCGACGAAAAGCGCGGCAAGCUGGCC-----
(((.((....)).)))........((((((((.((((....))..)).))))))))....((.((((....)..((((((((((.......)))).))))))))).)).----- ( -39.80)
>DroVir_CAF1 17852 114 - 1
CACCGUCAGCAGCGUGGGUGAGAAACAGAGCGUGCUCUAUGCCUCACCCACGCUGCCAAAGCGCGCCGAAACCUUUGCCGGUUUCGACGAGAAGCGUGGCAAGCUGGGCCGCGA
...((((.((((((((((((((..(.((((....)))).)..))))))))))))))...........((((((......)))))))))).....((((((.......)))))). ( -58.30)
>DroPse_CAF1 18447 109 - 1
CACCCUCAGCAGCGUUGGCGAGAAGCAAAGCGACCAAUACGCCUCCCCGACGCUGCCCAAGCGGGCAGAGACGUUCGCUGGUUUCGAUGAGAAGCGGGGCAAGCUGGGA-----
....((((((((((((((.(((.......(((.......)))))).))))))))((((.(((((((......))))))).(((((.....))))).))))..)))))).----- ( -49.41)
>DroGri_CAF1 17423 114 - 1
CACGGUUAGCAGCGUUGGCGAGAAGCAGAGCGUACUCUAUGCCUCGCCCACGCUGCCCAAGCGAGCGGAGACCUUUGCCGGCUUCGAUGAGAAGCGUGGCAAGGUGGGACGCGA
..((.((.(((((((.((((((..(.((((....)))).)..)))))).)))))))..)).)).(((....((((((((((((((.....))))).)))))))).)...))).. ( -55.30)
>DroAna_CAF1 15183 109 - 1
AGCACUAAGCAGCGUAAGCGAGAAGCAAAGUGAACAGUUCUCAUCGCCCACUCUGCCGAAACGAGCGGAAACCUUUGCUGGAUUUGACGAAAAGCGGGGAAAACUCGGU-----
.((.....((((.((..((((..((.(..(....)..).))..))))..)).))))((((.(.((((((....)))))).).)))).......))(((.....)))...----- ( -27.50)
>DroPer_CAF1 16505 109 - 1
CACCCUCAGCAGCGUUGGCGAGAAGCAAAGCGACCAAUACGCCUCCCCGACGCUGCCCAAGCGGGCAGAGACGUUCGCUGGUUUCGAUGAGAAGCGGGGCAAGCUGGGA-----
....((((((((((((((.(((.......(((.......)))))).))))))))((((.(((((((......))))))).(((((.....))))).))))..)))))).----- ( -49.41)
>consensus
CACCCUCAGCAGCGUUGGCGAGAAGCAAAGCGAACAAUACGCCUCGCCCACGCUGCCCAAGCGGGCGGAAACCUUUGCUGGUUUCGACGAGAAGCGGGGCAAGCUGGGA_____
........(((((((.((((((.......(((.......))))))))).)))))))(((.(((((........)))))..(((((.....))))).........)))....... (-25.33 = -25.48 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:25:00 2006