Locus 6343

Sequence ID 3R_DroMel_CAF1
Location 16,600,082 – 16,600,213
Length 131
Max. P 0.737969
window10347 window10348

overview

Window 7

Location 16,600,082 – 16,600,173
Length 91
Sequences 5
Columns 97
Reading direction forward
Mean pairwise identity 88.32
Mean single sequence MFE -29.60
Consensus MFE -24.02
Energy contribution -25.82
Covariance contribution 1.80
Combinations/Pair 1.00
Mean z-score -1.60
Structure conservation index 0.81
SVM decision value 0.44
SVM RNA-class probability 0.737969
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16600082 91 + 27905053
------CUGCUGUGCUGCAUUGCAUUGCAUUGCUCGUUGCAAGGGUCGGCUGUUGUGGCUUUUGUUUUAGCAAAAGAGAAGUGAGAACAACUUGCCC
------.(((.((((......)))).)))((((.....))))((((.((.((((.(.((((((.(((.....))).)))))).).)))).)).)))) ( -30.40)
>DroSec_CAF1 156518 91 + 1
------CUGCUGUGCUGCAUUGCAUUGCAUUGCGCGUUGCAAGGGUCGGCUGUUGUGGCUUUUGUUUUAGCAAAAGAGAAGUGAGAACAACUUGCCC
------.(((..(((.(((.(((...))).))))))..))).((((.((.((((.(.((((((.(((.....))).)))))).).)))).)).)))) ( -31.70)
>DroSim_CAF1 161407 97 + 1
AUGUUGCUGCUGUGCUGCAUUGCAUUGCAUUGCUCGUUGCAAGGGUCGGCUGUUGUGGCUUUUGUUUUAGCAAAAGAGAAGUGAGAACAACUUGCCC
.......(((.((((......)))).)))((((.....))))((((.((.((((.(.((((((.(((.....))).)))))).).)))).)).)))) ( -30.40)
>DroEre_CAF1 160063 89 + 1
AUGUUGCUGCUG-----U---GCAAUGCAUUGCUCGUUGCAAGGGUCGGCUGUUGUGGCUUUUGUUUUAGGAAAAGAGAAGUGAGAACAACUUGCCC
...((((.((.(-----.---((((....)))).))).))))((((.((.((((.(.((((((.(((.....))).)))))).).)))).)).)))) ( -27.20)
>DroYak_CAF1 156469 92 + 1
AUGUGGCUGCUG-----UGCUGCAAUGCAUUGCUCGUUGCAAGGGUCGGCUGUUGCGGCUUUUGUUUUAGGAAAAGAGAAGUGAGAACAACUUGCCC
.((..((.((.(-----(((......)))).))..))..)).((((.((.((((.(.((((((.(((.....))).))))))..))))).)).)))) ( -28.30)
>consensus
AUGU_GCUGCUGUGCUGCAUUGCAUUGCAUUGCUCGUUGCAAGGGUCGGCUGUUGUGGCUUUUGUUUUAGCAAAAGAGAAGUGAGAACAACUUGCCC
.......(((.((((......)))).)))((((.....))))((((.((.((((.(.((((((.(((.....))).)))))).).)))).)).)))) (-24.02 = -25.82 +   1.80)

alignment

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secondary structure

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dotplot

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Window 8

Location 16,600,110 – 16,600,213
Length 103
Sequences 6
Columns 106
Reading direction forward
Mean pairwise identity 88.27
Mean single sequence MFE -32.77
Consensus MFE -24.76
Energy contribution -26.23
Covariance contribution 1.48
Combinations/Pair 1.12
Mean z-score -2.76
Structure conservation index 0.76
SVM decision value 0.09
SVM RNA-class probability 0.579498
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16600110 103 + 27905053
CGUUGCAAGGGUCGGCUGUUGUGGCUUUUGUUUUAGCAAAAGAGAAGUGAGAACAAC---UUGCCCCUUGCGAUGGCAAAAGGCAAGAAAGUAGGCCAAGUUAAAA
(((((((((((.(((.((((.(.((((((.(((.....))).)))))).).)))).)---.)).)))))))))))......(((..........)))......... ( -33.90)
>DroSec_CAF1 156546 103 + 1
CGUUGCAAGGGUCGGCUGUUGUGGCUUUUGUUUUAGCAAAAGAGAAGUGAGAACAAC---UUGCCCCUUGCGAUGGCAAAAGGCAAGAAAGUAGGCCAAGUUAAAA
(((((((((((.(((.((((.(.((((((.(((.....))).)))))).).)))).)---.)).)))))))))))......(((..........)))......... ( -33.90)
>DroSim_CAF1 161441 103 + 1
CGUUGCAAGGGUCGGCUGUUGUGGCUUUUGUUUUAGCAAAAGAGAAGUGAGAACAAC---UUGCCCCUUGCGAUGGCAAAAGGCAAGAAAGUAGGCCAAGUUAAAA
(((((((((((.(((.((((.(.((((((.(((.....))).)))))).).)))).)---.)).)))))))))))......(((..........)))......... ( -33.90)
>DroEre_CAF1 160089 103 + 1
CGUUGCAAGGGUCGGCUGUUGUGGCUUUUGUUUUAGGAAAAGAGAAGUGAGAACAAC---UUGCCCCUUGCGAUGGCAAAAGGCAAGAAAGUAGGCCAAGUUAAAA
(((((((((((.(((.((((.(.((((((.(((.....))).)))))).).)))).)---.)).)))))))))))......(((..........)))......... ( -33.90)
>DroYak_CAF1 156498 103 + 1
CGUUGCAAGGGUCGGCUGUUGCGGCUUUUGUUUUAGGAAAAGAGAAGUGAGAACAAC---UUGCCCCUCGCGAUGGCAAAAGGCAAGAAAGUAGGCCAAGUUAAAA
((((((..((((.((.((((.(.((((((.(((.....))).))))))..))))).)---).))))...))))))......(((..........)))......... ( -26.30)
>DroAna_CAF1 155526 92 + 1
UGUUGCAAGGGUCGU---------CUUUUGUUUUAGGCGAGCAGCGGUGAGAAGAACGCCAUGCCCCAUGC-AUGGCGAU----GCGAAAGUAGGCCAAGCUAAAA
...((((.(((((((---------((........))))))(((..((((.......)))).)))))).)))-)((((..(----((....))).))))........ ( -34.70)
>consensus
CGUUGCAAGGGUCGGCUGUUGUGGCUUUUGUUUUAGCAAAAGAGAAGUGAGAACAAC___UUGCCCCUUGCGAUGGCAAAAGGCAAGAAAGUAGGCCAAGUUAAAA
.((((((((((.(((..(((((.((((((.(((.....))).))))))....)))))...))).))))))))))(((.....((......))..)))......... (-24.76 = -26.23 +   1.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:19:14 2006