Locus 785

Sequence ID 2R_DroMel_CAF1
Location 3,748,330 – 3,748,490
Length 160
Max. P 0.979873
window1377 window1378

overview

Window 7

Location 3,748,330 – 3,748,450
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 98.33
Mean single sequence MFE -25.34
Consensus MFE -24.08
Energy contribution -24.08
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.96
Structure conservation index 0.95
SVM decision value 0.64
SVM RNA-class probability 0.809494
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3748330 120 + 20766785
AAAUCGAGCCACCGCGAGUCAUAUCAAUUCAUAAAUGCAUAUUAAUUCCGAUAGAGGCUAAAAUUAAAACAGGAGUCGCUUUGGAAUAAUGUGAGAAAAAAACUUUCUCACGAUCACCUU
..(((...(((..((((.((................((.((((......))))...))..............)).))))..)))......((((((((.....)))))))))))...... ( -24.21)
>DroSim_CAF1 11218 120 + 1
AAAUCGAGCCAACGCGAGUCAUAUCAAUUCAUAAAUGCAUAUUAAUUCCGAUAGAGGCUAAAAUUAAAACAGGAGUCGCCGUGGAAUAAUGUGAGAAAAAAACUUUCUCACGAUCACCUU
..(((...(((..((((.((................((.((((......))))...))..............)).))))..)))......((((((((.....)))))))))))...... ( -24.01)
>DroYak_CAF1 10867 120 + 1
AAAUCGAGCCACCGCGAGUCAUAUCAAUUCAUAAAUGCAUAUUAAUUCCGAUAGAGGCUAAAAUUAAAACAGGAGUCGCUGUGGAAUAAUGUGAGAAAAAAACUUUCUCACGAUCACCUU
..(((...((((.((((.((................((.((((......))))...))..............)).)))).))))......((((((((.....)))))))))))...... ( -27.81)
>consensus
AAAUCGAGCCACCGCGAGUCAUAUCAAUUCAUAAAUGCAUAUUAAUUCCGAUAGAGGCUAAAAUUAAAACAGGAGUCGCUGUGGAAUAAUGUGAGAAAAAAACUUUCUCACGAUCACCUU
..(((...(((..((((.((................((.((((......))))...))..............)).))))..)))......((((((((.....)))))))))))...... (-24.08 = -24.08 +   0.00) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 3,748,370 – 3,748,490
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 98.33
Mean single sequence MFE -37.18
Consensus MFE -35.54
Energy contribution -35.98
Covariance contribution 0.45
Combinations/Pair 1.03
Mean z-score -3.04
Structure conservation index 0.96
SVM decision value 1.85
SVM RNA-class probability 0.979873
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3748370 120 + 20766785
AUUAAUUCCGAUAGAGGCUAAAAUUAAAACAGGAGUCGCUUUGGAAUAAUGUGAGAAAAAAACUUUCUCACGAUCACCUUGUUGUCGCGCAGACGGCGUUUGGUGGAAAUCCACGUGCAA
....(((((((.((.((((..............)))).)))))))))..(((((((((.....))))))))).(((((.(((((((.....)))))))...))))).............. ( -34.64)
>DroSim_CAF1 11258 120 + 1
AUUAAUUCCGAUAGAGGCUAAAAUUAAAACAGGAGUCGCCGUGGAAUAAUGUGAGAAAAAAACUUUCUCACGAUCACCUUGAUGUCGCGCAGACGGCGUUUGGUGGAAAUCCACGUGCAA
....(((((......................))))).((((((((....(((((((((.....))))))))).(((((..(((((((......))))))).)))))...)))))).)).. ( -39.55)
>DroYak_CAF1 10907 120 + 1
AUUAAUUCCGAUAGAGGCUAAAAUUAAAACAGGAGUCGCUGUGGAAUAAUGUGAGAAAAAAACUUUCUCACGAUCACCUUGAUGUCGCGCAGACGGCGUUUGGUGGAAAUCCACGUGCAA
....(((((......................))))).((((((((....(((((((((.....))))))))).(((((..(((((((......))))))).)))))...)))))).)).. ( -37.35)
>consensus
AUUAAUUCCGAUAGAGGCUAAAAUUAAAACAGGAGUCGCUGUGGAAUAAUGUGAGAAAAAAACUUUCUCACGAUCACCUUGAUGUCGCGCAGACGGCGUUUGGUGGAAAUCCACGUGCAA
....(((((......................))))).((((((((....(((((((((.....))))))))).(((((..(((((((......))))))).)))))...)))))).)).. (-35.54 = -35.98 +   0.45) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:47:20 2006