Locus 7123

Sequence ID 3R_DroMel_CAF1
Location 18,766,469 – 18,766,571
Length 102
Max. P 0.814281
window11523 window11524

overview

Window 3

Location 18,766,469 – 18,766,571
Length 102
Sequences 3
Columns 108
Reading direction forward
Mean pairwise identity 78.16
Mean single sequence MFE -28.57
Consensus MFE -17.00
Energy contribution -18.67
Covariance contribution 1.67
Combinations/Pair 1.00
Mean z-score -2.08
Structure conservation index 0.60
SVM decision value 0.66
SVM RNA-class probability 0.814281
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18766469 102 + 27905053
UGAAUGGCCACGCUCGGUUGGUUUUUUCCAUCGUGAAUCCUGGAGCGAGAAGGUUCUCCUCCACCUUCUGGUCCUCC---UCCAUCUCGUGC---CGCCUCCUUUCCC
.(((.((((((((.((((.((......)))))).)......(((((.(((((((........))))))).)..))))---.......)))).---.)))....))).. ( -27.30)
>DroSec_CAF1 24850 103 + 1
UGAAUGGCCACGCUCGGUUGGUUUUUUCCAUCGUGGAUCCUGGAGCGAGUAGGUUCUCCUCCACCCUCGGCUGCUCCUGCUCUA-CUCCU-C---CUCCUCCAUUCCC
.(((((((((((......(((......))).))))).....((((.(((((((..(....((......))..)..)))))))..-)))).-.---.....)))))).. ( -31.30)
>DroEre_CAF1 25039 90 + 1
UGAAUGGCCACGCUAGGUUGGUUUUUU-CAUCGUGGAUCCUGGAGCGAGAAA-----CCUCCACCUUCUGCUCCUC------CA-C-----GCUCCGCCACCAUUCCC
.((((((((......)).((((.....-...((((((....(((((.((((.-----........)))))))))))------))-)-----)....)))))))))).. ( -27.10)
>consensus
UGAAUGGCCACGCUCGGUUGGUUUUUUCCAUCGUGGAUCCUGGAGCGAGAAGGUUCUCCUCCACCUUCUGCUCCUCC___UCCA_CUC_U_C___CGCCUCCAUUCCC
.(((((((((((......(((......))).)))))....(((((.(((......)))))))).....................................)))))).. (-17.00 = -18.67 +   1.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 18,766,469 – 18,766,571
Length 102
Sequences 3
Columns 108
Reading direction reverse
Mean pairwise identity 78.16
Mean single sequence MFE -32.50
Consensus MFE -21.39
Energy contribution -23.40
Covariance contribution 2.01
Combinations/Pair 1.12
Mean z-score -1.72
Structure conservation index 0.66
SVM decision value 0.49
SVM RNA-class probability 0.757364
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18766469 102 - 27905053
GGGAAAGGAGGCG---GCACGAGAUGGA---GGAGGACCAGAAGGUGGAGGAGAACCUUCUCGCUCCAGGAUUCACGAUGGAAAAAACCAACCGAGCGUGGCCAUUCA
......((((((.---((.((((.((((---((((.(((....))).((((....))))))).)))))...))).((.(((......)))..)).).)).))).))). ( -29.90)
>DroSec_CAF1 24850 103 - 1
GGGAAUGGAGGAG---G-AGGAG-UAGAGCAGGAGCAGCCGAGGGUGGAGGAGAACCUACUCGCUCCAGGAUCCACGAUGGAAAAAACCAACCGAGCGUGGCCAUUCA
..((((((....(---(-(((((-(((.((....))..(((....)))........)))))).)))).....(((((.(((..........)))..))))))))))). ( -33.60)
>DroEre_CAF1 25039 90 - 1
GGGAAUGGUGGCGGAGC-----G-UG------GAGGAGCAGAAGGUGGAGG-----UUUCUCGCUCCAGGAUCCACGAUG-AAAAAACCAACCUAGCGUGGCCAUUCA
..(((((((.(((...(-----(-((------((((((((((((.......-----))))).)))))....)))))).((-.......))......))).))))))). ( -34.00)
>consensus
GGGAAUGGAGGCG___G_A_GAG_UGGA___GGAGGAGCAGAAGGUGGAGGAGAACCUUCUCGCUCCAGGAUCCACGAUGGAAAAAACCAACCGAGCGUGGCCAUUCA
..((((((..........................((((((((((((........))))))).))))).....(((((..((..........))...))))))))))). (-21.39 = -23.40 +   2.01)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:37:58 2006