Locus 1900

Sequence ID 3R_DroMel_CAF1
Location 5,425,529 – 5,425,632
Length 103
Max. P 0.893393
window3127

overview

Window 7

Location 5,425,529 – 5,425,632
Length 103
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 75.96
Mean single sequence MFE -28.44
Consensus MFE -9.24
Energy contribution -11.84
Covariance contribution 2.60
Combinations/Pair 1.10
Mean z-score -2.06
Structure conservation index 0.32
SVM decision value 0.98
SVM RNA-class probability 0.893393
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 5425529 103 + 27905053
AA------AAGAUGGAAAG-AAAAACAAAACUCGGACCGAAAACU-------CUUUGCCCAUAUGAAUGAAACGCGGCCCAAA--GCAGCCAA-AGCGUUUUGGUUAGUUCGUGAGUUGG
..------...........-........(((((((..((((....-------.)))).))..((((((((((((((((.....--...)))..-.))))))).....))))))))))).. ( -19.70)
>DroSec_CAF1 12169 106 + 1
AAAA----AAAAUGAAAAG-AAAAACAAAACUCGGGCCCAAAACU-------CUUGGCCCAUAUGAAUGAAACGCGGCCCAAA--GCAGCCAAAAACGUUUUGCUUAGUUCGUGAGUCGG
....----...........-.........(((((((((.......-------...)))))..((((((((((((.(((.....--...))).....)))))).....))))))))))... ( -22.00)
>DroEre_CAF1 12640 110 + 1
AAAAAAAAAAAAUUGAAAG-AAAAACAAAACUCGGAGCCAAAACU-------CUUGGCCCAUAUGAAUGAAACGCGGCCCAAA--GCAGGCAAAAGCGUUUUGGCCAGUUCGUGAGUCGG
...................-.........((((((.(((((....-------.)))))))..(((((((((((((.(((....--...)))....))))))).....))))))))))... ( -27.80)
>DroYak_CAF1 12998 105 + 1
AAA-----AAACUGGAAAG-AAAAACAAAACUCGUAGCCAAAACU-------CUUGGCCCAUAUGAAUGAAACGCGGCCCAAA--GCGGCCAACAGCGUUUUGGCUACUUCGUGAGUCGG
...-----...((....))-.........(((((((((((((((.-------((((((((((....)))....((........--)))))))..)).))))))))))).....))))... ( -31.30)
>DroPer_CAF1 14654 107 + 1
CAAA-------AUGGAAGACAAAAAGAGGCAUGGAAGCCUCUGCUGGCCCGGCCUGGCCCAUAUGAAUGAAAUGCGGCCCAAAAGGCAGGCAGCAGCGGU--GGCAA--UCGUGCAGC--
....-------.................((((((..(((.(((((((((..(((((((((((.........))).))))....)))).)))..)))))).--)))..--))))))...-- ( -41.40)
>consensus
AAAA____AAAAUGGAAAG_AAAAACAAAACUCGGAGCCAAAACU_______CUUGGCCCAUAUGAAUGAAACGCGGCCCAAA__GCAGCCAAAAGCGUUUUGGCUAGUUCGUGAGUCGG
.............................(((((.(((((((((...........(((((.............).))))......((........)))))))))))......)))))... ( -9.24 = -11.84 +   2.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:22:23 2006