Locus 4656

Sequence ID 3R_DroMel_CAF1
Location 12,261,786 – 12,261,898
Length 112
Max. P 0.705118
window7647

overview

Window 7

Location 12,261,786 – 12,261,898
Length 112
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.82
Mean single sequence MFE -33.15
Consensus MFE -19.31
Energy contribution -19.23
Covariance contribution -0.08
Combinations/Pair 1.33
Mean z-score -2.08
Structure conservation index 0.58
SVM decision value 0.36
SVM RNA-class probability 0.705118
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12261786 112 - 27905053
UGAGCACCAGGACUUCAAGGAGGAGAUGAAGCGUCUGCGCAAGCUGCGCGGCAAGGCGCCUCCCAAGAAGGGCGAGGGCAAGCGGGCCUCAAAGAAGUAG------UAAAAUAA--AUAU
...........(((((...((((.......((((..((....)).)))).((...((.((((((......)).))))))..))...))))...)))))..------........--.... ( -36.30)
>DroVir_CAF1 2893 116 - 1
UGAGCAUCAGGACUUUAAGGAGGAAAUGAAACGCUUACGCAAGCUGCGUGGAAAAGCGCCGCCCAAGAAGGGCGAGGGCAAACGUGCAACAAAGAAAUAGAUC--AUUUACAAC--AUAC
...((.(((...(((....)))....))).(((.((((((.....))))))....((.((((((.....))))).).))...)))))................--.........--.... ( -27.00)
>DroPse_CAF1 5073 115 - 1
CGAGCAUCAGGACUUCAAGGAGGAAAUGAAACGUUUGCGCAAGUUGCGUGGCAAGGCGGCUCCCAAGAAGGGAGAGGGCAAGCGCGCAUCCAAGAAGUAGAC---AUAAAUAAA--AUAC
.........(.(((((..(((.....((...(((((((.(..(((((.(....).)))))((((.....))))..).)))))))..)))))..)))))...)---.........--.... ( -30.80)
>DroGri_CAF1 3235 118 - 1
UGAGCAUCAGGACUUCAAGGAGGAAAUGAAACGCUUGCGCAAGCUGCGUGGCAAGGCGCCGCCCAAAAAGGGCGAGGGCAAACGUGCCUCCAAGAAAUAGAUGUAAUAAAAAAA--AUAU
...(((((...(.(((..(((((...((..((((..((....)).))))..))..((.((((((.....))))).).)).......)))))..))).).)))))..........--.... ( -41.80)
>DroMoj_CAF1 3091 111 - 1
UGAGCACCAGGACUUCAGGGAGGAAAUGAAGCGUUUGCGAAAACUGCGCGGCAAAGCACCUCCUAAGAAGGGCGAGGGCAAACGAUCAACUAAGAAAUAGA---------CAACAGAUUC
...((.((.(..((((.((((((.......((((((....)))).))((......)).))))))..))))..)..))))......................---------.......... ( -26.30)
>DroAna_CAF1 4925 112 - 1
UGAGCACCAGGAUUUCAAGGAGGAAAUGAAGCGGUUGCGCAAGCUGCGUGGCAAGGCGCCUCCCAAAAAGGGAGAGGGCAAACGGGCCUCUAAGAAAUAA------UGUACAAA--AUAU
.......((..(((((..(((((...((.....((..(((.....)))..))...((.((((((.....))))).).))...))..)))))..)))))..------))......--.... ( -36.70)
>consensus
UGAGCACCAGGACUUCAAGGAGGAAAUGAAACGUUUGCGCAAGCUGCGUGGCAAGGCGCCUCCCAAGAAGGGCGAGGGCAAACGGGCAUCAAAGAAAUAGA_____UAAACAAA__AUAC
...((..((...(((....)))....))..((((..((....)).)))).))...((.((((((.....))))).).))......................................... (-19.31 = -19.23 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:40 2006