Locus 3688

Sequence ID 3R_DroMel_CAF1
Location 9,999,076 – 9,999,189
Length 113
Max. P 0.832712
window5920

overview

Window 0

Location 9,999,076 – 9,999,189
Length 113
Sequences 6
Columns 113
Reading direction forward
Mean pairwise identity 82.36
Mean single sequence MFE -32.78
Consensus MFE -21.59
Energy contribution -22.70
Covariance contribution 1.11
Combinations/Pair 1.15
Mean z-score -2.68
Structure conservation index 0.66
SVM decision value 0.72
SVM RNA-class probability 0.832712
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 9999076 113 + 27905053
AAAGUUGCUGGCCAACGACUUAGUGGCAGCUUAAAGCACUUUAAGUUGCCAAAUGUCAAAGAUUGCGUAUACGCAGCGUUGUCCGCUGUACAAUAUACGUUAAAUGUCAAGUU
...((((.....))))(((....((((((((((((....))))))))))))...)))...(((.(((((((.((((((.....))))))....))))))).....)))..... ( -38.60)
>DroSec_CAF1 81438 113 + 1
AAAGUUGCUGGCCAACGACUUAGUGGCAGCUUAAAGCACUUUAAGUUGCCAAAUGUCAAAGAUUGCGUAUACGCAACGUUGUCAGCUGUACAAUAUUCGUUAAAUGUCAAGUU
...((.((((((.((((((....((((((((((((....))))))))))))...))).....(((((....))))).)))))))))...))...................... ( -38.60)
>DroEre_CAF1 85997 107 + 1
AAAGUUGCUGGCCAACGACUUAGUGGCAGCUUUAAGCACUUUAAGUUGCCAAAUGUCAAAGAUUACGUAUACGCUGCAUUGUAAGCUGUAUAAUAGACGUUAA------AGUU
...((((.....))))(((((..(((((((((.((....)).)))))))))((((((...(....).((((((((........))).)))))...)))))).)------)))) ( -26.40)
>DroYak_CAF1 85627 113 + 1
AAAGUUGCUGGCCAACGACUUAGUGGCAGCUUAAAGCACUUUAAGUUGCCAAAUGUCAAAGAUUGCGUAUACGCAGCGCAGUCAGCUGCACUAUAGACAUUAAAUGUCAAGUU
..(((.((.(((....(((....((((((((((((....))))))))))))...)))...((((((((.......)))))))).))))))))...(((((...)))))..... ( -41.50)
>DroAna_CAF1 92094 113 + 1
AAAGUUACUGGCCAAAGACUUAGCGGCAGCUUAAAGCACUUUAAGUUGCCAAAUGUCAAAGAUUGCGUAUACGCAGUGCUGUCCAUGGUGCGUUAGAGGUUAAAUGUCAAGUU
..........((((..(((..((((((((((((((....)))))))))))...........((((((....))))))))))))..))))(((((........)))))...... ( -33.80)
>DroPer_CAF1 84364 93 + 1
CCAGUUGCUGGCCAAAGUCUUAGGGGCGGUUGAAAGUGCUUUAAGUUGCCAAAUGUCAAAGAUUGCGUAUACGCAG--------------------AGGUUAAAUGUCAAGUU
........(((((..((((((.((((((((((((.....))))).))))).....)).))))))(((....)))..--------------------.)))))........... ( -17.80)
>consensus
AAAGUUGCUGGCCAACGACUUAGUGGCAGCUUAAAGCACUUUAAGUUGCCAAAUGUCAAAGAUUGCGUAUACGCAGCGUUGUCAGCUGUACAAUAGACGUUAAAUGUCAAGUU
......((((((....(((....((((((((((((....))))))))))))...))).....(((((....))))).............................))).))). (-21.59 = -22.70 +   1.11)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:07:32 2006