Locus 2119

Sequence ID 2R_DroMel_CAF1
Location 7,938,224 – 7,938,364
Length 140
Max. P 0.540339
window3510 window3511

overview

Window 0

Location 7,938,224 – 7,938,324
Length 100
Sequences 6
Columns 110
Reading direction forward
Mean pairwise identity 83.11
Mean single sequence MFE -31.17
Consensus MFE -23.11
Energy contribution -23.28
Covariance contribution 0.17
Combinations/Pair 1.14
Mean z-score -1.50
Structure conservation index 0.74
SVM decision value 0.01
SVM RNA-class probability 0.540339
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7938224 100 + 20766785
CUUAAUAAAGAGAAUCCUU----------GCUCACCUGGCACACAUUCUUGGGCCAGUUCUUCAUGUUGUUGAAGAUGAUCUUGCCCACGGAGGUGUCAUAGUUGUAGAU
.........(((.......----------.)))...((((((...(((.(((((.((.((((((......))))))....)).))))).))).))))))........... ( -29.30)
>DroSec_CAF1 14966 109 + 1
CUGAAUAAAGAGAAUCCGUUCCGG-GCAGGCUCACCUGGCACACAUUUUUGGGCCAGUUCUUCAUGUUGUUGAAGAUGAUCUUGCCCACGGAGGUGUCAUAGUUGUAGAU
.........((.(.(((((...((-(((((.(((.(((((...((....)).))))).((((((......))))))))).))))))))))))..).))............ ( -38.10)
>DroSim_CAF1 18237 109 + 1
CUGAAUAAAGAGAAUCCAUUCCGG-GCAGGCUCACCUGGCACACAUUUUUGGGCCAGUUCUUCAUGUUGUUGAAGAUGAUCUUGCCCACGGAGGUGUCAUAGUUGUAGAU
...........((..((..(((((-(((((.(((.(((((...((....)).))))).((((((......))))))))).)))))))..)))))..))............ ( -34.20)
>DroEre_CAF1 15134 109 + 1
UCUUAUAUAGGGAAUUAUUUCCGG-ACAGACUCACCUGGCACACAUUCUGGGGCCAGUUCCUCAUGUUAUUGAAGAUGAUCUUGCCCACGGAGGUGUCAUAGUUGUAGAU
..........((((....))))..-.....((((.(((..((((.(((((((((.((.((.(((......))).))....)).)))).)))))))))..))).)).)).. ( -28.40)
>DroYak_CAF1 22104 109 + 1
AAAUAUAUAGGGAAUCGUUUCCGC-ACAGACUCACCUGGCACACAUUCUUGGGCCAGUUCUUCAUGUUAUUGAAGAUGAUCUUGCCCACGGAGGUGUCAUAGUUGUAGAU
.....(((((((((....))))((-.(((......)))))((((.(((.(((((.((.((((((......))))))....)).))))).))).)))).....)))))... ( -32.50)
>DroPer_CAF1 13972 110 + 1
UCUCUUCGGGACGAUCCUUUUCAGCUAACUCUUACCUGGCACACGUUCUUGGGCCAGUUCUUCAUGGUAUUGAAAAUGAUUUUACCUACGGACGUGUCAUAGCUGUAUAU
.......(((.....)))...((((((.(........)(.((((((((.((((..((((.((((......))))...))))...)))).))))))))).))))))..... ( -24.50)
>consensus
CUUAAUAAAGAGAAUCCUUUCCGG_ACAGGCUCACCUGGCACACAUUCUUGGGCCAGUUCUUCAUGUUAUUGAAGAUGAUCUUGCCCACGGAGGUGUCAUAGUUGUAGAU
....................................((((((...(((.(((((.((.((((((......))))))....)).))))).))).))))))........... (-23.11 = -23.28 +   0.17)

alignment

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secondary structure

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dotplot

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Window 1

Location 7,938,244 – 7,938,364
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 80.39
Mean single sequence MFE -32.30
Consensus MFE -22.43
Energy contribution -21.63
Covariance contribution -0.80
Combinations/Pair 1.50
Mean z-score -1.14
Structure conservation index 0.69
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 7938244 120 - 20766785
CGAAAAGGAUAAUAUCUGGAGUGGAGCCAAGCGUAACUCCAUCUACAACUAUGACACCUCCGUGGGCAAGAUCAUCUUCAACAACAUGAAGAACUGGCCCAAGAAUGUGUGCCAGGUGAG
............(((((((.((((((..........))))))...........((((.....(((((.((....((((((......)))))).)).))))).....)))).))))))).. ( -33.40)
>DroVir_CAF1 18455 120 - 1
UGAGAAGGAUAAUACCUGGAGUGGGGCCAAGCGGAGCUCCAUCUUCAACUAUGAUAUGUCUGUGGGCAAAGUCAUAUUCAAUACCAUGAGGAACUGGCCCAAAAAUGUGUGCCAGGUGAG
............(((((((.((.((((((...((....)).((((((..(((((((((.((........)).))))))..)))...))))))..))))))....)).....))))))).. ( -35.30)
>DroGri_CAF1 15980 120 - 1
UGAAAAGGAUAAUACGUGGAGUGGCGCCAAGCGCAGUUCCAUCUACAACUAUGACAUAUCUGUGGGUAAAGUCAUUUUCAAUACCAUGAGAAACUGGCCCAAAAAUAUCUGCCAGGUGAG
((((((.(((..(((((((((..((((...))))..))))))(((((..(((...)))..))))))))..))).)))))).............(((((............)))))..... ( -30.30)
>DroWil_CAF1 18153 120 - 1
UGAAAAGGAUAAUGUGUGGAGUGGAGCUAAACGUGGCUCCAUAUACAACUAUGAUACUUCGGUGGGAAGGAUCAUAUUCAAUACCAUGAAAAAUUGGCCCAACAAUGUGUGCCAGGUAAA
((((..........((((..(((((((((....))))))))).))))..((((((.((((.....)))).)))))))))).((((.(....)..((((.((......)).)))))))).. ( -34.40)
>DroMoj_CAF1 20348 120 - 1
UGAGAAGGAGAAUACGUGGUGUGGAGCCAAGCGGAGCUCCAUCUAUGACUAUAAUAUAUCUGUGGGCAAGGUCAUCUUCAAUACCAUGAAGAAUUGGCCCAAAAACGUGUGUCAGGUGCG
..............(((((.(((((((........))))))))))))(((...((((((.(.(((((.......((((((......))))))....)))))...).))))))..)))... ( -32.30)
>DroAna_CAF1 19838 120 - 1
CGAGAAGGAUAACGUCUGGAGGGGAGCCAAUCGAAACUCCAUCUACAAAUAUGACACCUCCGUUGGCAGGAUUAUUUUCAACAACAUGCGAAACUGGCCAAAGAACGUCUGCCAGGUGUG
.(((((.(((...(((((((((((((..........)))).....((....))...))))))..)))...))).)))))........(((...(((((...((.....))))))).))). ( -28.10)
>consensus
UGAAAAGGAUAAUACCUGGAGUGGAGCCAAGCGGAGCUCCAUCUACAACUAUGACACAUCUGUGGGCAAGAUCAUAUUCAAUACCAUGAAAAACUGGCCCAAAAAUGUGUGCCAGGUGAG
............(((.(((.(((((((........)))))))...........((((.....(((((.......((((((......))))))....))))).....)))).))).))).. (-22.43 = -21.63 +  -0.80)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:21:48 2006