Locus 351

Sequence ID 2R_DroMel_CAF1
Location 2,307,155 – 2,307,271
Length 116
Max. P 0.783997
window699 window700

overview

Window 9

Location 2,307,155 – 2,307,271
Length 116
Sequences 4
Columns 116
Reading direction forward
Mean pairwise identity 83.94
Mean single sequence MFE -36.95
Consensus MFE -26.33
Energy contribution -29.39
Covariance contribution 3.06
Combinations/Pair 1.04
Mean z-score -1.61
Structure conservation index 0.71
SVM decision value 0.18
SVM RNA-class probability 0.622616
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2307155 116 + 20766785
GCGGUUAGGGGCGGGCCGGUAUGAGGCGGAGGCACGCCCCAUUCGGAUAACACCAAUGAAAUAUAAGGCCACUCUGCAAUAAUAGAGUGUGCCGCACAACUGAGCAGUCGGUGGGG
.(((...((((((.(((.((.....))...))).))))))..))).....((((............((((((((((......))))))).)))((........))....))))... ( -43.80)
>DroSec_CAF1 78337 115 + 1
GCGUUUAGGGGCGGGCCGGCAAGAGGCGGAGGCACGCCCCAUUCGGAUAACACCAAUGAAAUAUAAGGCCACUCUGCAAUAAUAGAGUAUGCCGUACAACUGAGCAGUCGGUGG-G
.((..(.((((((.(((.((.....))...))).)))))))..)).....((((............(((.((((((......))))))..))).....(((....))).)))).-. ( -38.50)
>DroSim_CAF1 74872 100 + 1
GCGGUUAGUG---------------GCGGAGGCACGCCCCAUUCGGAUAACACCAAUGAAAUAUAAGGCCACUCUGCAAUAAUAGAGUGUGCCGCACAACUGAGCAGUCGGUGG-G
.(((...(.(---------------(((......)))))...))).....((((............((((((((((......))))))).)))((........))....)))).-. ( -31.80)
>DroYak_CAF1 68479 99 + 1
----AUAGGG------CGGUAUG------GGGCACGCCCCAUUCAGAUAACACCAAUGAAAUACAAGGCCACUCUGCAAUAAUAGAGUGUGCCGCACAACUGAGCAGUCGGUGG-A
----......------.((.(((------(((....))))))))......((((............((((((((((......))))))).)))((........))....)))).-. ( -33.70)
>consensus
GCGGUUAGGG______CGGUAUG__GCGGAGGCACGCCCCAUUCGGAUAACACCAAUGAAAUAUAAGGCCACUCUGCAAUAAUAGAGUGUGCCGCACAACUGAGCAGUCGGUGG_G
.......((((((.(((.............))).))))))..........((((............((((((((((......))))))).)))((........))....))))... (-26.33 = -29.39 +   3.06) 

alignment

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secondary structure

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dotplot

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Window 0

Location 2,307,155 – 2,307,271
Length 116
Sequences 4
Columns 116
Reading direction reverse
Mean pairwise identity 83.94
Mean single sequence MFE -35.16
Consensus MFE -26.09
Energy contribution -25.53
Covariance contribution -0.56
Combinations/Pair 1.12
Mean z-score -1.82
Structure conservation index 0.74
SVM decision value 0.57
SVM RNA-class probability 0.783997
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2307155 116 - 20766785
CCCCACCGACUGCUCAGUUGUGCGGCACACUCUAUUAUUGCAGAGUGGCCUUAUAUUUCAUUGGUGUUAUCCGAAUGGGGCGUGCCUCCGCCUCAUACCGGCCCGCCCCUAACCGC
...((((((..((.(....).))(((.((((((........)))))))))..........))))))..........((((((.(((.............))).))))))....... ( -39.52)
>DroSec_CAF1 78337 115 - 1
C-CCACCGACUGCUCAGUUGUACGGCAUACUCUAUUAUUGCAGAGUGGCCUUAUAUUUCAUUGGUGUUAUCCGAAUGGGGCGUGCCUCCGCCUCUUGCCGGCCCGCCCCUAAACGC
.-.((((((.((......((((.(((.((((((........))))))))).))))...))))))))..........((((((.(((...((.....)).))).))))))....... ( -37.80)
>DroSim_CAF1 74872 100 - 1
C-CCACCGACUGCUCAGUUGUGCGGCACACUCUAUUAUUGCAGAGUGGCCUUAUAUUUCAUUGGUGUUAUCCGAAUGGGGCGUGCCUCCGC---------------CACUAACCGC
.-.((((((..((.(....).))(((.((((((........)))))))))..........)))))).....((..(((((((......)))---------------).)))..)). ( -30.40)
>DroYak_CAF1 68479 99 - 1
U-CCACCGACUGCUCAGUUGUGCGGCACACUCUAUUAUUGCAGAGUGGCCUUGUAUUUCAUUGGUGUUAUCUGAAUGGGGCGUGCCC------CAUACCG------CCCUAU----
.-.((((((..((.(....).))(((.((((((........)))))))))..........))))))........((((((((.(...------....)))------))))))---- ( -32.90)
>consensus
C_CCACCGACUGCUCAGUUGUGCGGCACACUCUAUUAUUGCAGAGUGGCCUUAUAUUUCAUUGGUGUUAUCCGAAUGGGGCGUGCCUCCGC__CAUACCG______CCCUAACCGC
......(((((....)))))...((((((((((........))))).(((((((......((((......)))))))))))))))).............................. (-26.09 = -25.53 +  -0.56) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:36:12 2006