Locus 2247

Sequence ID 2L_DroMel_CAF1
Location 6,132,692 – 6,132,811
Length 119
Max. P 0.999821
window3603 window3604

overview

Window 3

Location 6,132,692 – 6,132,811
Length 119
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 96.26
Mean single sequence MFE -44.66
Consensus MFE -40.36
Energy contribution -40.08
Covariance contribution -0.28
Combinations/Pair 1.09
Mean z-score -1.83
Structure conservation index 0.90
SVM decision value 2.09
SVM RNA-class probability 0.987797
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6132692 119 + 22407834
AAUGGUGGUGGCAUCUCAGCUCGGGGCUUGCUCU-UCGCAAUUCUGCUCGGCAAUGUCAAAAUUGUUUGUGGCAGUUGCCACCGCAGCUGCGUCGCCUGCCAGCGGAAAUGCCGUUGCAA
...(((((((((....(((((((((((((((...-..))))..(((((.((((((......))))))...)))))..))).))).))))).)))))).)))(((((.....))))).... ( -46.60)
>DroSec_CAF1 1410 116 + 1
AAUGU---UGGCAUCUCAGCUCGGGGCUUGCUCU-UCGCAAUUCUGCUCGGCAAUGUCAAAAUUGUUUGUGGCAGUUGCCACCGCAGCUGCGUCGCCUGCCAGCGGAAAUGCCGUUUCAA
...((---.(((..(.(((((((((((((((...-..))))..(((((.((((((......))))))...)))))..))).))).))))).)..))).)).(((((.....))))).... ( -41.90)
>DroSim_CAF1 1407 116 + 1
AAUGG---UGGCAUCUCAGCUCGGGGCUUGCUCU-UCGCAAUUCUGCUCGGCAAUGUCAAAAUUGUUUGUGGCAGUUGCCACCGCAGCUGCGUCGCCUGCCAGCGGAAAUGCCGUUGCAA
...((---((((....(((((((((((((((...-..))))..(((((.((((((......))))))...)))))..))).))).))))).))))))(((.(((((.....)))))))). ( -46.40)
>DroEre_CAF1 1469 116 + 1
AAUGG---UGUCAUCUCAGCUCGGAGCUGGCUCC-UCGCAAUUCUGCUCGGCAAUGUCAAAAUUGUUUGUGGCAGUUGCCACCGCAGCUGCGUCGCCUGCCAGCGGAAAUGCCGUUGCAA
...((---.((((.(((......))).)))).))-..(((.(((((((.((((....((((....))))..((((((((....))))))))......))))))))))).)))........ ( -42.90)
>DroYak_CAF1 1508 117 + 1
AAUGG---UGGCAUCUCAGCUCGGGGCUUGCUCUUUCGCAAUUCCGCUCGGCAAUGUCAAAAUUGUUUGUGGCAGUUGCCACCGCAGCUGCGUCGCCUGCCAGCGGAAAUGCCGUUGCAA
...((---((((....(((((((((((..((......))((((((((..((((((......)))))).)))).))))))).))).))))).))))))(((.(((((.....)))))))). ( -45.50)
>consensus
AAUGG___UGGCAUCUCAGCUCGGGGCUUGCUCU_UCGCAAUUCUGCUCGGCAAUGUCAAAAUUGUUUGUGGCAGUUGCCACCGCAGCUGCGUCGCCUGCCAGCGGAAAUGCCGUUGCAA
.........(((((....((..((((....))))...))..(((((((.((((....((((....))))..((((((((....))))))))......))))))))))))))))....... (-40.36 = -40.08 +  -0.28)

alignment

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secondary structure

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dotplot

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Window 4

Location 6,132,692 – 6,132,811
Length 119
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 96.26
Mean single sequence MFE -44.38
Consensus MFE -42.58
Energy contribution -42.82
Covariance contribution 0.24
Combinations/Pair 1.03
Mean z-score -2.38
Structure conservation index 0.96
SVM decision value 4.16
SVM RNA-class probability 0.999821
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 6132692 119 - 22407834
UUGCAACGGCAUUUCCGCUGGCAGGCGACGCAGCUGCGGUGGCAACUGCCACAAACAAUUUUGACAUUGCCGAGCAGAAUUGCGA-AGAGCAAGCCCCGAGCUGAGAUGCCACCACCAUU
.......((((((((.((((((.((((((((....)))(((((....)))))..............)))))........((((..-...)))))))...))).))))))))......... ( -44.90)
>DroSec_CAF1 1410 116 - 1
UUGAAACGGCAUUUCCGCUGGCAGGCGACGCAGCUGCGGUGGCAACUGCCACAAACAAUUUUGACAUUGCCGAGCAGAAUUGCGA-AGAGCAAGCCCCGAGCUGAGAUGCCA---ACAUU
.......((((((((.((((((.((((((((....)))(((((....)))))..............)))))........((((..-...)))))))...))).)))))))).---..... ( -44.90)
>DroSim_CAF1 1407 116 - 1
UUGCAACGGCAUUUCCGCUGGCAGGCGACGCAGCUGCGGUGGCAACUGCCACAAACAAUUUUGACAUUGCCGAGCAGAAUUGCGA-AGAGCAAGCCCCGAGCUGAGAUGCCA---CCAUU
.......((((((((.((((((.((((((((....)))(((((....)))))..............)))))........((((..-...)))))))...))).)))))))).---..... ( -44.90)
>DroEre_CAF1 1469 116 - 1
UUGCAACGGCAUUUCCGCUGGCAGGCGACGCAGCUGCGGUGGCAACUGCCACAAACAAUUUUGACAUUGCCGAGCAGAAUUGCGA-GGAGCCAGCUCCGAGCUGAGAUGACA---CCAUU
.......((((((((.((((((((.((((((....)))(((((....)))))........)))...))))).)))......((..-((((....))))..)).))))))...---))... ( -40.70)
>DroYak_CAF1 1508 117 - 1
UUGCAACGGCAUUUCCGCUGGCAGGCGACGCAGCUGCGGUGGCAACUGCCACAAACAAUUUUGACAUUGCCGAGCGGAAUUGCGAAAGAGCAAGCCCCGAGCUGAGAUGCCA---CCAUU
.......((((((((.((((((((.((((((....)))(((((....)))))........)))...)))))...(((..((((......))))...)))))).)))))))).---..... ( -46.50)
>consensus
UUGCAACGGCAUUUCCGCUGGCAGGCGACGCAGCUGCGGUGGCAACUGCCACAAACAAUUUUGACAUUGCCGAGCAGAAUUGCGA_AGAGCAAGCCCCGAGCUGAGAUGCCA___CCAUU
.......((((((((.((((((.((((((((....)))(((((....)))))..............)))))........((((......)))))))...))).))))))))......... (-42.58 = -42.82 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:23:00 2006