Locus 7781

Sequence ID 3R_DroMel_CAF1
Location 20,842,292 – 20,842,426
Length 134
Max. P 0.987646
window12548 window12549

overview

Window 8

Location 20,842,292 – 20,842,386
Length 94
Sequences 4
Columns 94
Reading direction reverse
Mean pairwise identity 89.36
Mean single sequence MFE -22.50
Consensus MFE -18.45
Energy contribution -18.32
Covariance contribution -0.13
Combinations/Pair 1.22
Mean z-score -3.22
Structure conservation index 0.82
SVM decision value 2.09
SVM RNA-class probability 0.987646
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20842292 94 - 27905053
CCUCAGAUUCAUCAAUUGGUUUCGAAUCCUCCUCGGAUUCGCCAAUUGGUUUCUUAUCCUCAGCGGAUUCAUCAAUUGGUUUCUUAUCAACCUU
.................((((..((((((.....))))))((((((((((.....((((.....))))..))))))))))........)))).. ( -24.70)
>DroSec_CAF1 58150 94 - 1
CCUCGGAUUCAUCAAUUGGUUUCGAAUCCUCCUCUGAUUCAUCAAUUGGUUUCUUAUCCUCAGCGGAUUCAUCAAUUGGUUUCUCAUCAACCUU
....(((((((((....)))...)))))).....(((...((((((((((.....((((.....))))..))))))))))...)))........ ( -19.40)
>DroEre_CAF1 55574 94 - 1
CCUCAGAUUCAUCGAUUGGUUUCGAAUCCUCCUCGGAUUCAUCGAUUGGCUUCUUAUCCUCAGUGGAUACAUCAAUGGGUUUCCUAUCAACCUU
....((((((((((((((((...((((((.....))))))))))))))......(((((.....))))).....))))))))............ ( -21.40)
>DroYak_CAF1 51706 94 - 1
CUUCAGAUUCAUCAAUUGGUUUCUUGUCCUCCUCGGAUUCAUCAAUUGGUUUCGAGUCCUCAGCGGAUUCAUCAGUUGGUUUCUUAUCAACCUU
.....((...((((((((((.....((((.....))))..)))))))))).))((((((.....))))))....((((((.....))))))... ( -24.50)
>consensus
CCUCAGAUUCAUCAAUUGGUUUCGAAUCCUCCUCGGAUUCAUCAAUUGGUUUCUUAUCCUCAGCGGAUUCAUCAAUUGGUUUCUUAUCAACCUU
.....(((..((((((((((...((((((.....)))))))))))))))).....((((.....))))..)))....((((.......)))).. (-18.45 = -18.32 +  -0.13)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 9

Location 20,842,323 – 20,842,426
Length 103
Sequences 4
Columns 103
Reading direction reverse
Mean pairwise identity 84.14
Mean single sequence MFE -19.08
Consensus MFE -14.26
Energy contribution -14.70
Covariance contribution 0.44
Combinations/Pair 1.26
Mean z-score -2.38
Structure conservation index 0.75
SVM decision value 1.46
SVM RNA-class probability 0.956341
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 20842323 103 - 27905053
UUCUUAUCUUCUGCAGAUUCUUCAACCGGUUUCUUGUCCUCCUCAGAUUCAUCAAUUGGUUUCGAAUCCUCCUCGGAUUCGCCAAUUGGUUUCUUAUCCUCAG
..........(((..(((.........((........)).....(((...(((((((((...(((((((.....)))))))))))))))).))).)))..))) ( -22.00)
>DroSec_CAF1 58181 103 - 1
UUCUUAUCUUCUUCAGAUUCUUCAACUGGUUUCUUGUCCUCCUCGGAUUCAUCAAUUGGUUUCGAAUCCUCCUCUGAUUCAUCAAUUGGUUUCUUAUCCUCAG
..............(((..((......))..)))..........((((..((((((((((...(((((.......))))))))))))))).....)))).... ( -16.70)
>DroEre_CAF1 55605 103 - 1
UUCUUAUCCUCUUCAGAUUCUUCGACUGGUUUCUUGUCCUCCUCAGAUUCAUCGAUUGGUUUCGAAUCCUCCUCGGAUUCAUCGAUUGGCUUCUUAUCCUCAG
...............((.(((......((........)).....))).)).(((((((((...((((((.....))))))))))))))).............. ( -17.10)
>DroYak_CAF1 51737 94 - 1
---------UCCUCGAAAUCGUCAACUGGUUUCUUAUCCUCUUCAGAUUCAUCAAUUGGUUUCUUGUCCUCCUCGGAUUCAUCAAUUGGUUUCGAGUCCUCAG
---------..(((((((((.....((((.............)))).......(((((((.....((((.....))))..))))))))))))))))....... ( -20.52)
>consensus
UUCUUAUCUUCUUCAGAUUCUUCAACUGGUUUCUUGUCCUCCUCAGAUUCAUCAAUUGGUUUCGAAUCCUCCUCGGAUUCAUCAAUUGGUUUCUUAUCCUCAG
...............((.(((......((........)).....))).))((((((((((...((((((.....))))))))))))))))............. (-14.26 = -14.70 +   0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:54:31 2006