Locus 3795

Sequence ID 2L_DroMel_CAF1
Location 11,098,234 – 11,098,364
Length 130
Max. P 0.724014
window5984 window5985

overview

Window 4

Location 11,098,234 – 11,098,324
Length 90
Sequences 6
Columns 96
Reading direction reverse
Mean pairwise identity 84.42
Mean single sequence MFE -40.42
Consensus MFE -30.32
Energy contribution -30.85
Covariance contribution 0.53
Combinations/Pair 1.24
Mean z-score -2.38
Structure conservation index 0.75
SVM decision value 0.41
SVM RNA-class probability 0.724014
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11098234 90 - 22407834
AGCUUCAACGGGCAGUUCAUCUGCCAUGGUGGCCGUGGCGGCAGCCGCGGCUGCGGCACCUUCGGCCAUCCUGCAGGA------CGCCACUAAGGA
.(((......(((((.....)))))...(..((((((((....))))))))..)))).((((.(((..(((....)))------.)))...)))). ( -43.60)
>DroSec_CAF1 1493 90 - 1
AGCUUCAACGGGCAGUUCAUCUGCCAUAGUGGCCGUGGCGGCAGCCGCGGCUGCUGCACCUUCAGCCAUCCUGCAGGA------CGCCACUAAGGA
..........(((((.....))))).(((((((.((.((((((((....)))))))).(((.(((.....))).))))------)))))))).... ( -42.40)
>DroSim_CAF1 1500 90 - 1
AGCUUCAACGGGCAGUUCAUCUGCCAUAGUGGCCGUGGCGGCAGCCGCGGCUGCUGCACCUUCAGCCAUCCUGCAGGA------CGCCACUAAGGA
..........(((((.....))))).(((((((.((.((((((((....)))))))).(((.(((.....))).))))------)))))))).... ( -42.40)
>DroEre_CAF1 1491 90 - 1
AGCUUCAACGGGCAACUCGUCUGCCAUAGUGGCCGUGGCGGCAGCUGCAGCGGCUGCACCUUCAGCCAUCCUGCAGGA------CGCCACUAAGGA
.(((......((((.......)))).....))).((((((....((((((.(((((......)))))...))))))..------))))))...... ( -36.00)
>DroYak_CAF1 1478 90 - 1
AGCUUCAACCGGCAGCUCAUCUGCCAUAGUGGCCGUGGCGGCAGCCGCGGCAGCAGCCCCUUCAGCCAUCCUGCAGGA------CGCCACUAAUGA
....(((...(((((.....))))).(((((((((((((....))))))))....((.(((.(((.....))).))).------.))))))).))) ( -37.10)
>DroAna_CAF1 1442 96 - 1
AGCCUCCACCACUAGCUCUUCCGCUGUCGUGGCAGUGGCGGCGGCUGCAGCGGCCGCUCCAUCGGCCAUUCUGCAAGAGGCAGUCGCUAACAAAGA
.(((.(..((((((((......))))..))))..).)))(((((((((...(((((......))))).(((.....))))))))))))........ ( -41.00)
>consensus
AGCUUCAACGGGCAGCUCAUCUGCCAUAGUGGCCGUGGCGGCAGCCGCGGCUGCUGCACCUUCAGCCAUCCUGCAGGA______CGCCACUAAGGA
..........(((((.....))))).(((((((....(((((.((....)).))))).(((.(((.....))).)))........))))))).... (-30.32 = -30.85 +   0.53)

alignment

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secondary structure

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dotplot

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Window 5

Location 11,098,268 – 11,098,364
Length 96
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 83.02
Mean single sequence MFE -37.83
Consensus MFE -26.42
Energy contribution -26.87
Covariance contribution 0.45
Combinations/Pair 1.31
Mean z-score -1.69
Structure conservation index 0.70
SVM decision value 0.06
SVM RNA-class probability 0.561596
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 11098268 96 - 22407834
CUGUUCAGCUGGAUGCAUUAUUCGCAAAAUCCGCAAAGAGAGCUUCAACGGGCAGUUCAUCUGCCAUGGUGGCCGUGGC---GGCAGCCGCGGCUGCGG
..((((.((.((((((.......)))...))))).....)))).......(((((.....)))))...(..((((((((---....))))))))..).. ( -38.20)
>DroSec_CAF1 1527 96 - 1
CUGUUCAGCUGGAUGCAUUGUUCGCAAAAUCCGCAAAGAGAGCUUCAACGGGCAGUUCAUCUGCCAUAGUGGCCGUGGC---GGCAGCCGCGGCUGCUG
..((((.((.((((...(((....))).)))))).....)))).......(((((.....))))).(((..((((((((---....))))))))..))) ( -40.20)
>DroSim_CAF1 1534 96 - 1
CUGUUCAGUUGGAUGCAUUGUUCGCAAAAUCCGCAAAGAGAGCUUCAACGGGCAGUUCAUCUGCCAUAGUGGCCGUGGC---GGCAGCCGCGGCUGCUG
.......((((((.((.((.((.((.......)).)).)).)))))))).(((((.....))))).(((..((((((((---....))))))))..))) ( -42.40)
>DroEre_CAF1 1525 96 - 1
CUGUACAGCUGGAUGCAUUGUUUGCAAAAUCCGCAAAGAGAGCUUCAACGGGCAACUCGUCUGCCAUAGUGGCCGUGGC---GGCAGCUGCAGCGGCUG
((((.((((((((.((.((.(((((.......))))).)).)).)).((((....).)))(((((((.......)))))---))))))))..))))... ( -32.90)
>DroWil_CAF1 1443 93 - 1
------CACUCGAUGCAUUGUUUGGCAAGUCGGCAAAACGUGCCUCAGCUGGCAGCUCAUCCGCUGUGGUAGCUGUGGCCGUGGCAACUGCAACUGCCG
------.................((((.((..(((..(((.(((.(((((((((((......)))))..)))))).))))))(....)))).)))))). ( -35.00)
>DroYak_CAF1 1512 96 - 1
CUGUACAGCUGGAUGCAUUGUUUGCGAAAUCCGCUAAGAGAGCUUCAACCGGCAGCUCAUCUGCCAUAGUGGCCGUGGC---GGCAGCCGCGGCAGCAG
((((...((((((.((.((.((.(((.....))).)).)).)).))....(((((.....))))).)))).((((((((---....)))))))).)))) ( -38.30)
>consensus
CUGUUCAGCUGGAUGCAUUGUUCGCAAAAUCCGCAAAGAGAGCUUCAACGGGCAGCUCAUCUGCCAUAGUGGCCGUGGC___GGCAGCCGCGGCUGCUG
.......((.((((((.......))...))))))................(((((.....))))).(((((((((((((.......))))))))))))) (-26.42 = -26.87 +   0.45)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:01:35 2006