Locus 3549

Sequence ID 3R_DroMel_CAF1
Location 9,602,604 – 9,602,697
Length 93
Max. P 0.823666
window5704

overview

Window 4

Location 9,602,604 – 9,602,697
Length 93
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 77.83
Mean single sequence MFE -32.83
Consensus MFE -26.40
Energy contribution -27.43
Covariance contribution 1.03
Combinations/Pair 1.21
Mean z-score -1.23
Structure conservation index 0.80
SVM decision value 0.69
SVM RNA-class probability 0.823666
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9602604 93 + 27905053
CUUUGCCGGCCUCCAGAAGUUCGGUCAGGGAUUGGAGGAGCGCCUGCGUGGUCUGAAGAUGAAGAGCAAGAUCCUCGAAAAGGUAGGC-CAA--AU--------------
.......(((((((...(((((......))))).(((((...(.(((.(.(((....))).)...))).).))))).....)).))))-)..--..-------------- ( -29.00)
>DroVir_CAF1 551 96 + 1
CUUUUCGGGUCUGCAGAAAUUCGGUCAGGGUCUGGAGGAGCGUCUGCGCGGCCUGAAGCUGAAGAACAAGCUGCUCGAAAAGGUA-----AC-CAG------AUAU--AA
(((((((((((((((((..(((..((((...))))..)))..)))))).))))...((((........))))...)))))))...-----..-...------....--.. ( -31.00)
>DroPse_CAF1 490 98 + 1
GUUCUCCGGCCUGCAGAAGUUCGGCCAGGGCCUGGAGGAGCGUCUGCGCGGUCUGAAGAUGAAGAGCAAGCUGCUCGAGAAGGUAAGA-UCC-CAG------AAAG----
.(((((.((((((((((.((((..((((...))))..)))).)))))).))))..........((((.....)))))))))((.....-.))-...------....---- ( -36.10)
>DroMoj_CAF1 479 103 + 1
CUUCUCCGGUCUGCAGAAGUUCGGCCAGGGUCUGGAAGAGCGUCUGCGCGGCCUGAAAUUGAAGAACAAGCUGCUCGAAAAGGUAUGCGUAC-UAG------AUAGGCAA
((((((.((((((((((.((((..((((...))))..)))).)))))).)))).))....)))).....(((..((.....((((....)))-).)------)..))).. ( -32.50)
>DroAna_CAF1 504 105 + 1
CUUCUCUGGACUGCAGAAGUUCGGCCAAGGAUUGGAGGAGCGUCUGCGAGGACUUAAAAUUAAGAGCAAGCUGCUCGAAAAGGUAAGC-AAAUCUUGCUCGAAAAG----
.(((...(..(((((((.((((..(((.....)))..)))).))))).))..)..........(((((((.((((..........)))-)...))))))))))...---- ( -32.30)
>DroPer_CAF1 493 98 + 1
GUUCUCCGGCCUGCAGAAGUUCGGCCAGGGCCUGGAGGAGCGUCUGCGCGGUCUGAAGAUGAAGAGCAAGCUGCUCGAGAAGGUAAGA-UCC-CAG------AAAG----
.(((((.((((((((((.((((..((((...))))..)))).)))))).))))..........((((.....)))))))))((.....-.))-...------....---- ( -36.10)
>consensus
CUUCUCCGGCCUGCAGAAGUUCGGCCAGGGACUGGAGGAGCGUCUGCGCGGUCUGAAGAUGAAGAGCAAGCUGCUCGAAAAGGUAAGC_UAC_CAG______AAAG____
((((((.((((((((((.((((..((((...))))..)))).)))))).))))..........((((.....))))))))))............................ (-26.40 = -27.43 +   1.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:03:58 2006