Locus 6108

Sequence ID 2R_DroMel_CAF1
Location 19,225,448 – 19,225,541
Length 93
Max. P 0.993894
window9779 window9780

overview

Window 9

Location 19,225,448 – 19,225,541
Length 93
Sequences 3
Columns 93
Reading direction forward
Mean pairwise identity 81.61
Mean single sequence MFE -28.47
Consensus MFE -21.08
Energy contribution -21.53
Covariance contribution 0.45
Combinations/Pair 1.05
Mean z-score -3.16
Structure conservation index 0.74
SVM decision value 2.43
SVM RNA-class probability 0.993894
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19225448 93 + 20766785
AGGCCCAAAUCUCAGUCGGGGAAAUCGGUCGAAAUCGGUCGAAAUCGGACGAAAUCGGACGAGAUCGGACGAGAAACCGGGGGAAAUCGGCGA
..(((....((((...(((.....(((..((....))..)))..(((..(((..((....))..)))..)))....))).))))....))).. ( -31.20)
>DroSec_CAF1 16603 75 + 1
AGGCCGAAAUCUCAGUCGGGGAAAUCGGUCGAAAUCGGACGA------------------GAGAUCGGAUGAGGAACCGGGUGAAAUCGGCGA
..(((((....(((.((((.....(((..(((..((......------------------))..)))..)))....)))).)))..))))).. ( -25.90)
>DroSim_CAF1 15130 75 + 1
AGGCCGAAAUCUCAGUCGGGGAAAUCGGUCGAAAUCGGAUGA------------------GAGAUCGGACGAGGAACCGGGUGAAAUCGGCGA
..(((((....(((.((((.....(((..(((..((......------------------))..)))..)))....)))).)))..))))).. ( -28.30)
>consensus
AGGCCGAAAUCUCAGUCGGGGAAAUCGGUCGAAAUCGGACGA__________________GAGAUCGGACGAGGAACCGGGUGAAAUCGGCGA
..(((((....(((.((((.....(((..(((..((........................))..)))..)))....)))).)))..))))).. (-21.08 = -21.53 +   0.45)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 0

Location 19,225,448 – 19,225,541
Length 93
Sequences 3
Columns 93
Reading direction reverse
Mean pairwise identity 81.61
Mean single sequence MFE -23.97
Consensus MFE -14.20
Energy contribution -14.87
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -3.21
Structure conservation index 0.59
SVM decision value 1.49
SVM RNA-class probability 0.958365
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19225448 93 - 20766785
UCGCCGAUUUCCCCCGGUUUCUCGUCCGAUCUCGUCCGAUUUCGUCCGAUUUCGACCGAUUUCGACCGAUUUCCCCGACUGAGAUUUGGGCCU
..((((........)))).....(((((((((((((.((..(((..(((..((....))..)))..)))..))...))).)))).)))))).. ( -29.40)
>DroSec_CAF1 16603 75 - 1
UCGCCGAUUUCACCCGGUUCCUCAUCCGAUCUC------------------UCGUCCGAUUUCGACCGAUUUCCCCGACUGAGAUUUCGGCCU
..(((((.......(((........)))(((((------------------..(((.((..((....))..))...))).))))).))))).. ( -20.10)
>DroSim_CAF1 15130 75 - 1
UCGCCGAUUUCACCCGGUUCCUCGUCCGAUCUC------------------UCAUCCGAUUUCGACCGAUUUCCCCGACUGAGAUUUCGGCCU
..((((((((((..(((....(((..(((..((------------------......))..)))..))).....)))..)))))..))))).. ( -22.40)
>consensus
UCGCCGAUUUCACCCGGUUCCUCGUCCGAUCUC__________________UCGUCCGAUUUCGACCGAUUUCCCCGACUGAGAUUUCGGCCU
..(((((..((...(((........))).......................(((...((..((....))..))..)))....))..))))).. (-14.20 = -14.87 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:02:57 2006