Locus 7246

Sequence ID 3L_DroMel_CAF1
Location 19,402,811 – 19,402,943
Length 132
Max. P 0.601290
window11779 window11780

overview

Window 9

Location 19,402,811 – 19,402,911
Length 100
Sequences 6
Columns 109
Reading direction reverse
Mean pairwise identity 86.96
Mean single sequence MFE -17.00
Consensus MFE -12.69
Energy contribution -12.11
Covariance contribution -0.58
Combinations/Pair 1.14
Mean z-score -2.47
Structure conservation index 0.75
SVM decision value -0.04
SVM RNA-class probability 0.512479
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19402811 100 - 23771897
-----CGUGGAAACUGUUUGCCAUAUAA----CAACAGGCAAACAUUUCUCCAUCCAUUUAUAUCCAUCAACUGCCAAUAAAUCAUUACAAAAAAUCGUUUUAUGCUAA
-----.(((((((.((((((((......----.....)))))))).)).)))))...................((....((((.(((......))).))))...))... ( -15.70)
>DroPse_CAF1 10556 108 - 1
UUUGGUACCGAAGCUGUUUGCCAUAUAAAUACCAGCGGGUAAACAUUUCUC-GCCCAUUUAUAUCCAUCAACUGCCAAUAAAUCAUUACAAAAAAUCGUUUUGUGCUAA
.((((((.....((.....)).((((((((....(((((.........)))-))..))))))))........))))))........(((((((.....))))))).... ( -17.70)
>DroSec_CAF1 42038 100 - 1
-----CGCGGAAACUGUUUGCCAUAUAA----CAACAGGCAAACAUUUCACCAUCCAUUUAUAUCCAUCAACUGCCAAUAAAUCAUUACAAAAAAUCGUUUUAUGCUAA
-----.(((((((.((((((((......----.....)))))))))))).......((((((...((.....))...))))))....................)))... ( -14.60)
>DroEre_CAF1 36904 98 - 1
-----CGCUGAAACUGUUUGCCAUAUAA----CAACAGGCAAACAUUUCUCC--CCAUUUAUAUCCAUCAAUUGCCAAUAAAUCAUUACAAAAAAUCGUUUUAUGCUAA
-----.((((((((((((((((......----.....)))))))).......--..((((((...((.....))...))))))..............)))))).))... ( -16.50)
>DroAna_CAF1 40985 100 - 1
-----CGCCGAAACUGUUUGCCAUAUAA----CAACUGGCAAACAUUUCCCUCCCCAUUUAUAUCCAUCAACUGCCGAUAAAUCAUUACAAAAAAUCGUUUUAUGCUAA
-----.((.((((((((((((((.....----....)))))))))...........((((((...((.....))...))))))..............)))))..))... ( -15.60)
>DroPer_CAF1 10570 108 - 1
UUUGGUACCGAGGCUGUUUGCCAUAUAAAUACCAGCGGGUAAACAUUUCUC-GCCCAUUUAUAUCCAUCAACUGCCAAUAAAUCAUUACAAAAAAUCGUUUUGUGCUAA
.((((((....(((.....)))((((((((....(((((.........)))-))..))))))))........))))))........(((((((.....))))))).... ( -21.90)
>consensus
_____CGCCGAAACUGUUUGCCAUAUAA____CAACAGGCAAACAUUUCUCCACCCAUUUAUAUCCAUCAACUGCCAAUAAAUCAUUACAAAAAAUCGUUUUAUGCUAA
.........((((.((((((((...............))))))))))))........................((....((((.(((......))).))))...))... (-12.69 = -12.11 +  -0.58)

alignment

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secondary structure

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dotplot

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Window 0

Location 19,402,842 – 19,402,943
Length 101
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 91.44
Mean single sequence MFE -19.76
Consensus MFE -15.65
Energy contribution -15.68
Covariance contribution 0.03
Combinations/Pair 1.04
Mean z-score -2.43
Structure conservation index 0.79
SVM decision value 0.14
SVM RNA-class probability 0.601290
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19402842 101 - 23771897
-UUCUUGGUUCGCACUGGUUGCCAUUAAAUUUCCGUGGAAACUGUUUGCCAUAUAACAACAGGCAAACAUUUCUCCAUCCAUUUAUAUCCAUCAACUGCCAA
-....((((......(((.......(((((....(((((((.((((((((...........)))))))).)).)))))..)))))...)))......)))). ( -21.70)
>DroSec_CAF1 42069 102 - 1
UUUCUUGAUUCGCACUGGUUGCCAUUAAAUUUCCGCGGAAACUGUUUGCCAUAUAACAACAGGCAAACAUUUCACCAUCCAUUUAUAUCCAUCAACUGCCAA
....(((((.(((...((((.......))))...)))((((.((((((((...........)))))))))))).................)))))....... ( -18.40)
>DroSim_CAF1 41966 102 - 1
UUUCUUGAUUCGCACUGGUUGCCAUUAAAUUUCCGCGGAAACUGUUUGCCAUAUAACAACAGGCAAACAUUUCUCCAUCCAUUUAUAUCCAUCAACUGCCAA
....(((((.(((...((((.......))))...)))((((.((((((((...........)))))))))))).................)))))....... ( -17.90)
>DroEre_CAF1 36935 100 - 1
UUGCUUGAUCCGCACUGGUUGCCAUUAAAUUUCCGCUGAAACUGUUUGCCAUAUAACAACAGGCAAACAUUUCUCC--CCAUUUAUAUCCAUCAAUUGCCAA
..(((((((..(((.....)))...............((((.((((((((...........))))))))))))...--............)))))..))... ( -16.40)
>DroYak_CAF1 67756 102 - 1
UUGCUUGAUUUGCACGGGCUGCCAUUAAAUUUCCGCGGAAACUGUUUGCCAUAUAACAACAGGCAAACAUUUCUCCCCCCAUUUAUAUCCAUCAACUGCCAA
.(((.......)))..(((.((............))(((((.((((((((...........))))))))))))).......................))).. ( -19.40)
>DroAna_CAF1 41016 102 - 1
UUUCUUGGCUCGCAGUUGUUCCCAUUAAAUUUACGCCGAAACUGUUUGCCAUAUAACAACUGGCAAACAUUUCCCUCCCCAUUUAUAUCCAUCAACUGCCGA
...........(((((((.......(((((.......((((.(((((((((.........))))))))))))).......))))).......)))))))... ( -24.78)
>consensus
UUUCUUGAUUCGCACUGGUUGCCAUUAAAUUUCCGCGGAAACUGUUUGCCAUAUAACAACAGGCAAACAUUUCUCCAUCCAUUUAUAUCCAUCAACUGCCAA
...........(((...(.((....(((((....(..((((.((((((((...........))))))))))))..)....)))))....)).)...)))... (-15.65 = -15.68 +   0.03)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:42:03 2006