Locus 3867

Sequence ID 3R_DroMel_CAF1
Location 10,524,821 – 10,524,941
Length 120
Max. P 0.873292
window6194 window6195

overview

Window 4

Location 10,524,821 – 10,524,941
Length 120
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 95.00
Mean single sequence MFE -46.37
Consensus MFE -41.65
Energy contribution -41.43
Covariance contribution -0.21
Combinations/Pair 1.11
Mean z-score -2.02
Structure conservation index 0.90
SVM decision value 0.44
SVM RNA-class probability 0.735815
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10524821 120 + 27905053
UGGUAUCUUAGGCACUGCCCCGCUGGUGGCUCUAUGAGGGUGCUCACUGAGAUUCUUAUUGCGGUUGCUGCUAGCCACCAGCGCCGUGUUGAUGGCAAUUGCCGUCUCAGCUGAAUUGUA
.(((......(((...)))..((((((((((..((((((((.(((...))))))))))).((((...)))).)))))))))))))((...((((((....))))))...))......... ( -46.30)
>DroSim_CAF1 71660 120 + 1
UGGUAUCUUAGGCACUGCCCCGCUGGUGGCUCUAUGAAGGUGCUCACUGAGAUUCUUAUUGCGGUUGCUGCUAGCCACCAGCGCCGUGUUGAUGGCAAUUGCCGUCUCAGGUGAAUUGUA
...(((((..(((((.((...((((((((((.....((((..(((...)))..))))...((((...)))).)))))))))))).)))))((((((....))))))..)))))....... ( -42.70)
>DroYak_CAF1 72126 120 + 1
UGGCAACUUAGGCACUGCCCCGCUGGUGGCUCUGUGGGGAUGCUCACUGAGAUUCUUGUUUCGGUUGCUGCUAGCCACCAGCGCCGUGUUGAUGGCAAUUGCCGUCUCAGCUGAAUUGUA
..((((.((((((((.((...((((((((((..(..(.(......((((((((....))))))))).)..).)))))))))))).)))).((((((....))))))....)))).)))). ( -50.10)
>consensus
UGGUAUCUUAGGCACUGCCCCGCUGGUGGCUCUAUGAGGGUGCUCACUGAGAUUCUUAUUGCGGUUGCUGCUAGCCACCAGCGCCGUGUUGAUGGCAAUUGCCGUCUCAGCUGAAUUGUA
.(((......(((...)))..((((((((((...(((((((.(((...))))))))))..((((...)))).))))))))))))).((..((((((....)))))).))........... (-41.65 = -41.43 +  -0.21)

alignment

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secondary structure

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dotplot

Postscript

Window 5

Location 10,524,821 – 10,524,941
Length 120
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 95.00
Mean single sequence MFE -39.83
Consensus MFE -37.21
Energy contribution -37.43
Covariance contribution 0.23
Combinations/Pair 1.07
Mean z-score -2.12
Structure conservation index 0.93
SVM decision value 0.88
SVM RNA-class probability 0.873292
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 10524821 120 - 27905053
UACAAUUCAGCUGAGACGGCAAUUGCCAUCAACACGGCGCUGGUGGCUAGCAGCAACCGCAAUAAGAAUCUCAGUGAGCACCCUCAUAGAGCCACCAGCGGGGCAGUGCCUAAGAUACCA
.................((((.(((((.((.....))(((((((((((....((....)).............(((((....)))))..))))))))))).))))))))).......... ( -40.80)
>DroSim_CAF1 71660 120 - 1
UACAAUUCACCUGAGACGGCAAUUGCCAUCAACACGGCGCUGGUGGCUAGCAGCAACCGCAAUAAGAAUCUCAGUGAGCACCUUCAUAGAGCCACCAGCGGGGCAGUGCCUAAGAUACCA
.................((((.(((((.((.....))(((((((((((....((....)).............(((((....)))))..))))))))))).))))))))).......... ( -38.80)
>DroYak_CAF1 72126 120 - 1
UACAAUUCAGCUGAGACGGCAAUUGCCAUCAACACGGCGCUGGUGGCUAGCAGCAACCGAAACAAGAAUCUCAGUGAGCAUCCCCACAGAGCCACCAGCGGGGCAGUGCCUAAGUUGCCA
.................((((((((((........)))((((((((((..........((........))...(((........)))..)))))))))).((((...)))).))))))). ( -39.90)
>consensus
UACAAUUCAGCUGAGACGGCAAUUGCCAUCAACACGGCGCUGGUGGCUAGCAGCAACCGCAAUAAGAAUCUCAGUGAGCACCCUCAUAGAGCCACCAGCGGGGCAGUGCCUAAGAUACCA
.................((((.(((((.((.....))(((((((((((....((....)).............(((((....)))))..))))))))))).))))))))).......... (-37.21 = -37.43 +   0.23)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:12:02 2006