Locus 3041

Sequence ID	3L_DroMel_CAF1
Location	8,730,818 – 8,730,912
Length	94
Max. P	0.843563

overview

Window 1

Location	8,730,818 – 8,730,912
Length	94
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	87.14
Mean single sequence MFE	-28.96
Consensus MFE	-19.88
Energy contribution	-20.04
Covariance contribution	0.16
Combinations/Pair	1.05
Mean z-score	-2.21
Structure conservation index	0.69
SVM decision value	0.47
SVM RNA-class probability	0.747285
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8730818 94 + 23771897
UCUUGAACCGGAUGAGUUUACGAAAUCCGAUCCAG------AUACGGAAACGGAUCCACCGCCAACUACUGAUUUGACUGAAGAUCCGGAAACGGAUCGA
..(..((.(((...((((..((..(((((.(((..------....)))..)))))....))..)))).))).))..).....((((((....)))))).. ( -27.10)
>DroSec_CAF1 11804 94 + 1
UCUUGAUCCGGAUGAGAUUUCGAAAUCCGAUCCAG------AUACGGGAACGGAUCCACCGCCAACUACUGAUUUGACUGAAGAUCCGGAAACGGAUCGA
((((((((.((((..((((....))))..)))).)------)).))))).((((((..............))))))......((((((....)))))).. ( -28.54)
>DroSim_CAF1 13168 94 + 1
UCUUGAUCCGGAUCUGAUUUCGAAAUCCGAUCCAG------AUACGGGAACGGAUCCACCGCCAACUACUGAUUUGACUGAAGAUCCGGAAACGGAUCGA
((((((((.(((((.((((....)))).))))).)------)).))))).((((((..............))))))......((((((....)))))).. ( -31.84)
>DroEre_CAF1 14205 100 + 1
CCUUGAACCGGAUGAGACUAAGAAAUCCGAUCCAGCUACGGAUACGGAUACGGAUCCACCGCCAACGACUGAUCGGACUGAAGAUCCAGAAACGGAUCGA
.......(((.((.((........(((((((((......)))).))))).(((.....))).......)).)))))......(((((......))))).. ( -27.00)
>DroYak_CAF1 11825 94 + 1
CCUCGAACCGGAGGAGAUAAAGAAAUCCGAUCCAG------AUACGGAUACGGAUCCACCGCCAGCAACUGAUCAGACUGAAGAUCCGGAAACGGAUCAC
((((......)))).(((......(((((((((..------....)))).))))).......(((...))))))........((((((....)))))).. ( -30.30)
>consensus
UCUUGAACCGGAUGAGAUUACGAAAUCCGAUCCAG______AUACGGAAACGGAUCCACCGCCAACUACUGAUUUGACUGAAGAUCCGGAAACGGAUCGA
........(((((...........)))))...(((.........((....))((((..............))))...)))..((((((....)))))).. (-19.88 = -20.04 +   0.16)

alignment

secondary structure

dotplot

Window 2

Location	8,730,818 – 8,730,912
Length	94
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	87.14
Mean single sequence MFE	-31.28
Consensus MFE	-24.20
Energy contribution	-24.68
Covariance contribution	0.48
Combinations/Pair	1.16
Mean z-score	-1.92
Structure conservation index	0.77
SVM decision value	0.76
SVM RNA-class probability	0.843563
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 8730818 94 - 23771897
UCGAUCCGUUUCCGGAUCUUCAGUCAAAUCAGUAGUUGGCGGUGGAUCCGUUUCCGUAU------CUGGAUCGGAUUUCGUAAACUCAUCCGGUUCAAGA
..(((.((....(((((((...(((((........)))))...)))))))....)).))------)((((((((((...........))))))))))... ( -29.40)
>DroSec_CAF1 11804 94 - 1
UCGAUCCGUUUCCGGAUCUUCAGUCAAAUCAGUAGUUGGCGGUGGAUCCGUUCCCGUAU------CUGGAUCGGAUUUCGAAAUCUCAUCCGGAUCAAGA
..(((((.....(((((((...(((((........)))))...))))))).........------..((((.(((((....))))).))))))))).... ( -32.00)
>DroSim_CAF1 13168 94 - 1
UCGAUCCGUUUCCGGAUCUUCAGUCAAAUCAGUAGUUGGCGGUGGAUCCGUUCCCGUAU------CUGGAUCGGAUUUCGAAAUCAGAUCCGGAUCAAGA
..(((((.....(((((((...(((((........)))))...))))))).........------..(((((.((((....)))).)))))))))).... ( -33.60)
>DroEre_CAF1 14205 100 - 1
UCGAUCCGUUUCUGGAUCUUCAGUCCGAUCAGUCGUUGGCGGUGGAUCCGUAUCCGUAUCCGUAGCUGGAUCGGAUUUCUUAGUCUCAUCCGGUUCAAGG
..(((.((..(.(((((((...(.(((((.....))))))...))))))).)..)).))).(.((((((((.(((((....))))).))))))))).... ( -31.70)
>DroYak_CAF1 11825 94 - 1
GUGAUCCGUUUCCGGAUCUUCAGUCUGAUCAGUUGCUGGCGGUGGAUCCGUAUCCGUAU------CUGGAUCGGAUUUCUUUAUCUCCUCCGGUUCGAGG
..((((((....))))))...(((((((((((.(((..((((.....))))....))).------)).))))))))).........((((......)))) ( -29.70)
>consensus
UCGAUCCGUUUCCGGAUCUUCAGUCAAAUCAGUAGUUGGCGGUGGAUCCGUUUCCGUAU______CUGGAUCGGAUUUCGUAAUCUCAUCCGGUUCAAGA
..((.((.....(((((((...(((((........)))))...))))))).................((((.(((((....))))).)))))).)).... (-24.20 = -24.68 +   0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:48:12 2006