Locus 3841

Sequence ID 2L_DroMel_CAF1
Location 11,242,663 – 11,242,758
Length 95
Max. P 0.904413
window6052 window6053

overview

Window 2

Location 11,242,663 – 11,242,758
Length 95
Sequences 6
Columns 97
Reading direction forward
Mean pairwise identity 79.90
Mean single sequence MFE -29.40
Consensus MFE -16.62
Energy contribution -19.10
Covariance contribution 2.48
Combinations/Pair 1.26
Mean z-score -1.77
Structure conservation index 0.57
SVM decision value 0.04
SVM RNA-class probability 0.554271
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11242663 95 + 22407834
UGGCCUAUACGAGCUGAUA--UAUGGACUCGUAUGCAUGAAGGCUGCUGGGCAACAAAGUGGCAAAAGUGCUAGAGACGGAGACACUUUCGGUCCGA
.((((.(((((((((....--...)).)))))))((((....((..((.(....)..))..))....))))..((((.(....)..))))))))... ( -30.00)
>DroSec_CAF1 74698 97 + 1
UGGCCUAUACGAGCUGAUAUAUAUGGACUCGUAUGCAGGAAGGCUGCUGGGCAACAAAGUGGCAAAAGUGCCAGAGCCGGAGACACUUUCGGUCCGA
..(((((((((((((.........)).)))))))((((.....)))).)))).......(((((....)))))(..((((((....))))))..).. ( -32.80)
>DroSim_CAF1 78487 86 + 1
UGGCCUAUACGAGCUGAUAUAUAUGGACUCGUAUGCAGGAAGGCUGCUGGGC-----------AAAAGUGCCAGAGCCGGAGACACUUUCGGUCCGA
.((((((((((((((.........)).))))))))..((((((((.((((.(-----------(....))))))))))(....)..))))))))... ( -30.00)
>DroEre_CAF1 75710 95 + 1
UGGCCUAUACGAGUAGAUA--UAUGUACUCGUCUGCAGGAAGGCUGCUGGGCAACAAAGUGGCAAAAGUGCCAGAACCGGAGACACUUUCGGUCCGA
..(((((.(((((((.(..--..).)))))))..((((.....))))))))).......(((((....)))))(.(((((((....))))))).).. ( -32.30)
>DroWil_CAF1 103024 84 + 1
UUGCCUAUAUACACUACUA--C-UGAACACUUGGGCAUAAA---------GUAGCAAAGUGGCAAAAGUGCCGACACUGGAGACACUUU-GGUCCCA
.((((((............--.-........))))))....---------....(((((((.....((((....)))).....))))))-)...... ( -18.70)
>DroYak_CAF1 78593 95 + 1
UGGCCUAAACGAGUAGAUA--UAUGUACUCGUCUGCAGGAAGGCUGCUGGGCAACAAAGUGGCAAAAGUGCCAGAACCGGAGACACUUUCGGUCCGA
..(((((.(((((((.(..--..).)))))))..((((.....))))))))).......(((((....)))))(.(((((((....))))))).).. ( -32.60)
>consensus
UGGCCUAUACGAGCUGAUA__UAUGGACUCGUAUGCAGGAAGGCUGCUGGGCAACAAAGUGGCAAAAGUGCCAGAACCGGAGACACUUUCGGUCCGA
..(((((((((((.(.((....)).).)))))).((((.....))))))))).......(((((....)))))(.(((((((....))))))).).. (-16.62 = -19.10 +   2.48)

alignment

Postscript

secondary structure

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dotplot

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Window 3

Location 11,242,663 – 11,242,758
Length 95
Sequences 6
Columns 97
Reading direction reverse
Mean pairwise identity 79.90
Mean single sequence MFE -28.05
Consensus MFE -18.16
Energy contribution -19.22
Covariance contribution 1.06
Combinations/Pair 1.20
Mean z-score -2.22
Structure conservation index 0.65
SVM decision value 1.04
SVM RNA-class probability 0.904413
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11242663 95 - 22407834
UCGGACCGAAAGUGUCUCCGUCUCUAGCACUUUUGCCACUUUGUUGCCCAGCAGCCUUCAUGCAUACGAGUCCAUA--UAUCAGCUCGUAUAGGCCA
..((.((((((((((...........))))))))((......(((((...)))))......))((((((((.....--.....)))))))).)))). ( -24.70)
>DroSec_CAF1 74698 97 - 1
UCGGACCGAAAGUGUCUCCGGCUCUGGCACUUUUGCCACUUUGUUGCCCAGCAGCCUUCCUGCAUACGAGUCCAUAUAUAUCAGCUCGUAUAGGCCA
..(((((....).))))..((((.(((((....)))))............((((.....))))((((((((..((....))..)))))))).)))). ( -29.80)
>DroSim_CAF1 78487 86 - 1
UCGGACCGAAAGUGUCUCCGGCUCUGGCACUUUU-----------GCCCAGCAGCCUUCCUGCAUACGAGUCCAUAUAUAUCAGCUCGUAUAGGCCA
..(((((....).))))..((((..((((....)-----------)))..((((.....))))((((((((..((....))..)))))))).)))). ( -28.40)
>DroEre_CAF1 75710 95 - 1
UCGGACCGAAAGUGUCUCCGGUUCUGGCACUUUUGCCACUUUGUUGCCCAGCAGCCUUCCUGCAGACGAGUACAUA--UAUCUACUCGUAUAGGCCA
..((..((((((((((.........))))))))))))........(((..((((.....))))..(((((((....--....)))))))...))).. ( -29.30)
>DroWil_CAF1 103024 84 - 1
UGGGACC-AAAGUGUCUCCAGUGUCGGCACUUUUGCCACUUUGCUAC---------UUUAUGCCCAAGUGUUCA-G--UAGUAGUGUAUAUAGGCAA
((((((.-.....))).))).((((((((....))))((.(((((((---------(..((((....))))..)-)--)))))).)).....)))). ( -25.00)
>DroYak_CAF1 78593 95 - 1
UCGGACCGAAAGUGUCUCCGGUUCUGGCACUUUUGCCACUUUGUUGCCCAGCAGCCUUCCUGCAGACGAGUACAUA--UAUCUACUCGUUUAGGCCA
..((..((((((((((.........))))))))))))........(((..((((.....))))(((((((((....--....))))))))).))).. ( -31.10)
>consensus
UCGGACCGAAAGUGUCUCCGGCUCUGGCACUUUUGCCACUUUGUUGCCCAGCAGCCUUCCUGCAUACGAGUCCAUA__UAUCAGCUCGUAUAGGCCA
..((.(((((((((((.........)))))))))................((((.....))))((((((((............)))))))).)))). (-18.16 = -19.22 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:02:45 2006