Locus 4805

Sequence ID 3R_DroMel_CAF1
Location 12,562,645 – 12,562,748
Length 103
Max. P 0.586718
window7880

overview

Window 0

Location 12,562,645 – 12,562,748
Length 103
Sequences 6
Columns 103
Reading direction forward
Mean pairwise identity 83.46
Mean single sequence MFE -31.68
Consensus MFE -22.10
Energy contribution -22.02
Covariance contribution -0.08
Combinations/Pair 1.23
Mean z-score -1.92
Structure conservation index 0.70
SVM decision value 0.11
SVM RNA-class probability 0.586718
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12562645 103 + 27905053
CCUUGAUUGAUGGCCUCCAUCUCCGUUCACCAUUCGCUGUUGAGAACUGGUGCAGGGCAAUUAGACAAGCCGUUUAAUUGCCACCUUGGCAGCUCGUUUGCCU
...(((..(((((...))))).....)))......(((((..((..(((...)))(((((((((((.....)))))))))))..))..))))).......... ( -33.30)
>DroSec_CAF1 51526 103 + 1
CCUUGAUUGAUGGCCUCCAUCUCCGUUCACCGUUCGCUGUUGAGAACUGGUGCGGGGCAAUUAGACAAGCCGUUUAAUUGCCACCUUGGCAGCUCGUUUGCCU
........(((((...))))).(((..((((((((........)))).)))))))(((((((((((.....))))))))))).....(((((.....))))). ( -36.90)
>DroSim_CAF1 51498 103 + 1
CCUUGAUUGAUGGCCCCCAUCUCCGUUCACCAUUCGCUGUUGAGAACUGGUGCUGGGCAAUUAGACAAGCCGUUUAAUUGCCACCUUGGCAGCUCGUUUGCCU
........(((((...)))))......((((((((........))).)))))...(((((((((((.....))))))))))).....(((((.....))))). ( -31.70)
>DroEre_CAF1 49438 102 + 1
CCUUGAUUGAUGGCCUCCAUCUCC-UUCGCCAUUCGCUGUUGAGAACUGGUGCAGGGCAAUUAGACAAGCAGUUUAAUUGCCACCUUGGCACCUCGUUUGCCU
........(((((...)))))..(-(.((((((((........))).))))).))(((((((((((.....))))))))))).....((((.......)))). ( -32.50)
>DroYak_CAF1 49294 102 + 1
CCUUGAUUGAUGGCCUCCAUCUCC-UUCGCCAUUCGCCGUUGAGAACUGGUGCAGGGCAAUUAGACAAGCUGUUUAAUUGCCACCUUGGCAGCUCGUUUGCCU
........(((((...)))))..(-(.((((((((........))).))))).))(((((((((((.....))))))))))).....(((((.....))))). ( -33.70)
>DroAna_CAF1 50696 87 + 1
---UGAUGGAUGGGUCG-------------UGUUUGCUUUCCAAAACUGGUUCAGAGCAAUUAGACAAGCGAUUAAAUUGCCACCUCAGCACUUACCCGCCCU
---....((.(((((.(-------------(((((((((((((....)))...)))))))........(((((...))))).......))))..))))).)). ( -22.00)
>consensus
CCUUGAUUGAUGGCCUCCAUCUCC_UUCACCAUUCGCUGUUGAGAACUGGUGCAGGGCAAUUAGACAAGCCGUUUAAUUGCCACCUUGGCAGCUCGUUUGCCU
...........(((.............((((((((........))).)))))...(((((((((((.....))))))))))).................))). (-22.10 = -22.02 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:19 2006