Locus 3752

Sequence ID 3R_DroMel_CAF1
Location 10,173,940 – 10,174,043
Length 103
Max. P 0.633846
window6013

overview

Window 3

Location 10,173,940 – 10,174,043
Length 103
Sequences 5
Columns 106
Reading direction forward
Mean pairwise identity 89.15
Mean single sequence MFE -30.28
Consensus MFE -22.14
Energy contribution -21.26
Covariance contribution -0.88
Combinations/Pair 1.24
Mean z-score -1.79
Structure conservation index 0.73
SVM decision value 0.21
SVM RNA-class probability 0.633846
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10173940 103 + 27905053
---UCUACGUUUUCGGUCAUUUUGGCAACUUUUUGCCAACCAUAUUUGGCCUCGAGGCUGGCGAGAUGGAUUUUUGGUACUGGCCAACCAAACUCCUGUCCUUCUC
---.........((((((...(((((((....)))))))(((....)))......)))))).((((.((((.((((((........)))))).....)))).)))) ( -28.60)
>DroSec_CAF1 32307 103 + 1
---UCUAUGUUUUCGGUCAUUUUGGUAACUUUUUGCCAACCAUAUUUGGCCUCGAGCCUGGCGAGAUGGAUUUUUGGUACUGGCCAACCAAACUUGUGUCCUUCUC
---.(((.((((..(((((..(((((((....))))))).......)))))..)))).))).((((.((((.((((((........)))))).....)))).)))) ( -26.70)
>DroSim_CAF1 31464 103 + 1
---UCUACGUUUUCGGUCAUUUUGGUAACUUUUUGCCAACCAUAUUUGGCCUCGAGCCUGGCGAGAUGGAUUUUUGGUACUGGCCAACCAAACUUCUGUCCUUCUC
---.(((.((((..(((((..(((((((....))))))).......)))))..)))).))).((((.((((.((((((........)))))).....)))).)))) ( -26.70)
>DroEre_CAF1 32995 106 + 1
AGGUCUACAUUUUCGGCCAUUUCGGCAACUUUUUGCCAACCGUAUUUGGCCUCGAGGCUGUCGAGAUGGAUUUUUGGUGCUGGCCAGGCAAACUCCUGUCCUUCUC
.((((..((((.....(((((((((((.((((..(((((......)))))...)))).)))))))))))......))))..)))).((((......))))...... ( -36.80)
>DroYak_CAF1 32318 106 + 1
AAGUCUACAUUUUCGCCCGUUUCGGCAACUUUUUGCCAACCAUAUUUGGCCUCGAGGCUGCGGAGAUGGAUUUUUGGUGCUGGCCAAGCCGACUCCUGUCCUUCGC
.((((..(((((((((..((((((((((....)))))..(((....)))....))))).)))))))))....((((((....))))))..))))............ ( -32.60)
>consensus
___UCUACGUUUUCGGUCAUUUUGGCAACUUUUUGCCAACCAUAUUUGGCCUCGAGGCUGGCGAGAUGGAUUUUUGGUACUGGCCAACCAAACUCCUGUCCUUCUC
..............((((((((((.((.(((...(((((......)))))...)))..)).))))))))....(((((....)))))))................. (-22.14 = -21.26 +  -0.88)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:09:11 2006