Locus 1111

Sequence ID 3R_DroMel_CAF1
Location 3,357,418 – 3,357,538
Length 120
Max. P 0.996618
window1817

overview

Window 7

Location 3,357,418 – 3,357,538
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 94.83
Mean single sequence MFE -51.12
Consensus MFE -43.64
Energy contribution -43.48
Covariance contribution -0.16
Combinations/Pair 1.11
Mean z-score -2.41
Structure conservation index 0.85
SVM decision value 2.72
SVM RNA-class probability 0.996618
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 3357418 120 + 27905053
UCCGGCUUCACCUCGCUGCUGAUGGAGCGUCUCUCCGUGGACUACGGCAAGAAGUCCAAGCUGGAGUUCGCCGUGUACCCAGCUCCGCAGGUGUCCACCGCCGUGGUGGAGCCCUACAAC
...(((((((((.(((.((((((((((.....))))))((((.(((((..(((.(((.....))).)))))))))).))))))...)).((((.....))))).)))))))))....... ( -53.70)
>DroSec_CAF1 50849 120 + 1
UCUGGCUUCACCUCGCUGCUGAUGGAGCGUCUCUCGGUGGACUACGGCAAGAAGUCCAAGCUGGAGUUUGCCAUCUACCCAGCCCCCCAGGUGUCCACUGCCGUGGUGGAGCCCUACAAC
...(((((((((.((((.(....).)))......((((((((...((((((...(((.....))).)))))).........(((.....)))))))))))..).)))))))))....... ( -48.30)
>DroSim_CAF1 45155 120 + 1
UCUGGCUUCACCUCGCUGCUGAUGGAGCGUCUCUCGGUGGACUACGGCAAGAAGUCCAAGCUGGAGUUUGCCAUCUACCCAGCCCCCCAGGUGUCCACUGCCGUGGUGGAGCCCUACAAC
...(((((((((.((((.(....).)))......((((((((...((((((...(((.....))).)))))).........(((.....)))))))))))..).)))))))))....... ( -48.30)
>DroEre_CAF1 44122 120 + 1
UCUGGCUUCACCUCUCUGCUGAUGGAGCGUCUCUCCGUGGACUACGGCAAGAAGUCCAAGCUGGAGUUCGCCGUGUACCCAGCUCCGCAGGUGUCCACCGCAGUGGUGGAGCCCUACAAC
...(((((((((...((((((.((((((((((......))))((((((..(((.(((.....))).)))))))))......))))))))(((....))))))).)))))))))....... ( -55.40)
>DroYak_CAF1 65387 120 + 1
UCUGGCUUCACCUCGCUGCUGAUGGAGCGUCUCUCCGUCGACUACGGCAAGAAGUCUAAGCUGGAGUUCGCCGUGUACCCAGCUCCGCAGGUGUCCACCGCCGUGGUGGAGCCCUACAAC
...(((((((((.(((((.((((((((.....))))))))..((((((..(((.(((.....))).)))))))))....))))......((((.....))))).)))))))))....... ( -49.90)
>consensus
UCUGGCUUCACCUCGCUGCUGAUGGAGCGUCUCUCCGUGGACUACGGCAAGAAGUCCAAGCUGGAGUUCGCCGUGUACCCAGCUCCGCAGGUGUCCACCGCCGUGGUGGAGCCCUACAAC
...(((((((((.((..((....((((((((........))).(((((..(((.(((.....))).)))))))).......)))))...(((....))))))).)))))))))....... (-43.64 = -43.48 +  -0.16)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:09 2006