Locus 1272

Sequence ID X_DroMel_CAF1
Location 3,804,718 – 3,804,832
Length 114
Max. P 0.597115
window2040

overview

Window 0

Location 3,804,718 – 3,804,832
Length 114
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 78.01
Mean single sequence MFE -50.20
Consensus MFE -25.04
Energy contribution -25.13
Covariance contribution 0.09
Combinations/Pair 1.44
Mean z-score -1.94
Structure conservation index 0.50
SVM decision value 0.13
SVM RNA-class probability 0.597115
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3804718 114 - 22224390
CCAGGAGGUGGAACGCGAGAGAUCCACUUUGAGUAGGGAAGUGACACUGCUUCGUUUGCAGCAUGACAGUGCUGAGCAAGAUGUUUUGGAGCUACAGGAACUUCGCAUGCAGGC
((..((((((((...(....).))))))))..((((.(((((..(...((((((....((((((....))))))(((.....))).))))))....)..))))).).))).)). ( -36.10)
>DroPse_CAF1 3335 114 - 1
GCAGGAGGUGGAGCGGGAACGUUCCACCUUGAGCCGCGAGGUGACUCUGCUCCGGCUGCAGCAGGAUAGCGCCGAGCAGGACGUCUUGGAGCUGCAGGAGCUGCGGAUGCAAGU
(((.(((((((((((....)))))))))))...(((((((....))).(((((.((.((..((((((....((.....))..))))))..)).)).))))).)))).))).... ( -60.90)
>DroEre_CAF1 3524 114 - 1
CCAGGAGGUGGAACGCGAGAGAUCCACUUUAGGUCGAGAAGUGACCUUGCUCCGUUUGCAGAAUGACAGUGCCGAGCAAGAUGUUUUGGAGCUCCAGGAGUUGCGCAUGCAGGC
...(((((((((...(....).)))))...((((((.....))))))..))))(((((((...((.(((..((((((.....))))(((....)))))..)))))..))))))) ( -36.00)
>DroMoj_CAF1 2018 114 - 1
GGCCGACGUGGAGCGCGAGCGUGCUGCGCUCAGCCGGGAGGCGGUCAUGCUGCGCAUGCAACAAGACAGCGCCGAGCAGGAUGUGCUCGAGUUGCAGGAGCUGCGCAUGCAGGU
((((((.(((.(((((....))))).))))).(((....))))))).(((((((((.((..(..(.((((..((((((.....)))))).))))).)..)))))))).)))... ( -55.10)
>DroAna_CAF1 3804 114 - 1
CCAGGAGGUGGAGCGCGAGAGGUCCACCCUCAGCCGGGAGGUGACCCUGCUGAGACUCCAGCAGGACGGCGCCGAGCAGGAUGUCCUGGAGCUGCAGGAGCUGCGCAUGCAGGC
((((((((((((.(......).))))))(((.((((...(....)(((((((......))))))).))))...))).......))))))..(((((...((...)).))))).. ( -52.20)
>DroPer_CAF1 3343 114 - 1
GCAGGAGGUGGAGCGGGAACGUUCCACCUUGAGCCGCGAGGUGACUCUGCUCCGGCUGCAGCAGGAUAGCGCCGAGCAGGACGUCUUGGAGCUGCAGGAGCUGCGGAUGCAAGU
(((.(((((((((((....)))))))))))...(((((((....))).(((((.((.((..((((((....((.....))..))))))..)).)).))))).)))).))).... ( -60.90)
>consensus
CCAGGAGGUGGAGCGCGAGAGUUCCACCUUGAGCCGGGAGGUGACCCUGCUCCGGCUGCAGCAGGACAGCGCCGAGCAGGAUGUCUUGGAGCUGCAGGAGCUGCGCAUGCAGGC
....((((((((.(......).))))))))..(((....)))..((.(((((((.(((((((..((((...((.....)).)))).....)))))))......)))).))))). (-25.04 = -25.13 +   0.09)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:28 2006