Locus 4055

Sequence ID 2R_DroMel_CAF1
Location 13,376,995 – 13,377,147
Length 152
Max. P 0.843388
window6532 window6533

overview

Window 2

Location 13,376,995 – 13,377,089
Length 94
Sequences 6
Columns 94
Reading direction forward
Mean pairwise identity 79.72
Mean single sequence MFE -29.13
Consensus MFE -17.89
Energy contribution -17.48
Covariance contribution -0.41
Combinations/Pair 1.48
Mean z-score -1.67
Structure conservation index 0.61
SVM decision value 0.27
SVM RNA-class probability 0.663105
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13376995 94 + 20766785
AAUACCAAAGCACGUCGAAGGAUUUUGACCUGUGGCUUAUCCUGACCCACGGGUUUGAGUUCUAACUGAGCCGUCUUUAGCUGAGCCAAAAAAU
..................(((((((.(((((((((.((.....)).))))))))).)))))))..((.(((........))).))......... ( -24.30)
>DroPse_CAF1 75271 88 + 1
AAAGCCAGGGCUCGCCUAAUGGUCUUCGCCCUCGCU------UUGCCAACGGGAUGCAGCUCCAACCGGGCCGUCUUCAGCUGGACCAUGAAGU
(((((.(((((..(((....)))....))))).)))------)).(((.(.(((.((.((((.....)))).)).))).).))).......... ( -27.70)
>DroSec_CAF1 75762 94 + 1
AAUACCAAAGCCCGUCGAAGGGUUUUGACCUUCGGCUUAUCCUGGCUCACGGGUUUGAGCUCCAAUUGAGCUGUCUUUAGCUGAGCCAAAAAGU
.....((((((((......))))))))......(((((.....((((((......)))))).......(((((....))))))))))....... ( -31.10)
>DroSim_CAF1 79058 94 + 1
AAUACCAAAGCCCGUCGAAGGGUUUUGACCUUCGGCUUAUCCUGGCUCACGGGUUUGAGCUCUAAUUGAGCCGUCUUUAGCUGAGCCAAAAAGU
.....((((((((......))))))))...(((((((.....(((((((.((((....))))....))))))).....)))))))......... ( -32.50)
>DroEre_CAF1 77035 94 + 1
AAAACCAAAGCCCGUCUAAGGGUUUUGAUCUUUGGUUUUUCCUUGCCCACGGGUUUAAGCUCCGAUUGAGCUGUCUUCAGCUGAGCGAAGAAGU
.....((((((((......)))))))).((((((...............(((((....)).))).((.(((((....))))).))))))))... ( -28.60)
>DroYak_CAF1 78007 94 + 1
AAUACCAAAGCCCGUCUAAGGGUUUUGAUCUUUGGUUUGUCCUGGCCCACGGGUUUAAGCUCCAAUUGAGCUGUCUUUAGCUGAGCGAAGAAGU
.....((((((((......)))))))).(((((((((((.((((.....))))..))))).....((.(((((....))))).))))))))... ( -30.60)
>consensus
AAUACCAAAGCCCGUCGAAGGGUUUUGACCUUCGGCUUAUCCUGGCCCACGGGUUUGAGCUCCAAUUGAGCCGUCUUUAGCUGAGCCAAAAAGU
.....((((((((......))))))))....((((((.......(((....)))....((((.....)))).......)))))).......... (-17.89 = -17.48 +  -0.41)

alignment

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secondary structure

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dotplot

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Window 3

Location 13,377,049 – 13,377,147
Length 98
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 77.48
Mean single sequence MFE -28.23
Consensus MFE -15.37
Energy contribution -15.68
Covariance contribution 0.31
Combinations/Pair 1.42
Mean z-score -2.02
Structure conservation index 0.54
SVM decision value 0.76
SVM RNA-class probability 0.843388
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 13377049 98 - 20766785
ACGGCUCAAUUGGGCCUUAAAAUGCGAUCACGCGCGGUCGACAUUAACUUCGAGUACAAUUUUUUGGCUCAGCUAAAGACGGCUCAGUUAGAACUCAA
..(((((....)))))....(((((((((......))))).))))......((((.......(((((((.((((......)))).))))))))))).. ( -27.91)
>DroSec_CAF1 75816 98 - 1
ACGGCUCAAUUGAGCCUUAAAACACGACCACGCGCGGUCGACAUUAACUUCGAGUACAACUUUUUGGCUCAGCUAAAGACAGCUCAAUUGGAGCUCAA
..(((((((((((((.........(((((......)))))....................((((((((...))))))))..)))))))).)))))... ( -30.10)
>DroSim_CAF1 79112 98 - 1
ACGGCUCAAUUGAGCCUUAAAACACGACCACGCGCGGUCGACAUCAACUUCGAGUACAACUUUUUGGCUCAGCUAAAGACGGCUCAAUUAGAGCUCAA
..((((((((((((((........(((((......)))))....................((((((((...)))))))).))))))))).)))))... ( -33.90)
>DroEre_CAF1 77089 98 - 1
ACGGCUCAAUUGGGUCUUAAAAUGCGGCCACGAGCGGUCGAUAUUAACUUUGAAUUUAACUUCUUCGCUCAGCUGAAGACAGCUCAAUCGGAGCUUAA
..(((((.((((((((.........))))..((((((..((..((((........))))..)).))))))(((((....)))))))))..)))))... ( -27.10)
>DroYak_CAF1 78061 98 - 1
ACGGCACAAUUGGGCCUGAAAAUGCGACCACGAGCGGUCGAUAUUAACUUCGAGUACAACUUCUUCGCUCAGCUAAAGACAGCUCAAUUGGAGCUUAA
..(((.(((((((((.((..(((((((((......))))).))))......((((...........)))).........)))))))))))..)))... ( -27.40)
>DroAna_CAF1 75799 98 - 1
GUUUGCCAAAAGGGACUACAGUCACGGCCGUCCUCAAUGGAUGUCAACUAUAGUUACAACUUCAUGGCCCAACUGAAAGCGGCGCAACUGGAGCUGAA
(((.((((.(((.(((((.(((...(((.((((.....))))))).))).)))))....)))..))))..)))......((((.(.....).)))).. ( -23.00)
>consensus
ACGGCUCAAUUGGGCCUUAAAACACGACCACGCGCGGUCGACAUUAACUUCGAGUACAACUUCUUGGCUCAGCUAAAGACAGCUCAAUUGGAGCUCAA
..(((((....)))))........(((((......)))))...........((((...........))))..........(((((.....)))))... (-15.37 = -15.68 +   0.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:10:39 2006