Locus 9412

Sequence ID 3R_DroMel_CAF1
Location 24,930,195 – 24,930,324
Length 129
Max. P 0.985676
window15079 window15080

overview

Window 9

Location 24,930,195 – 24,930,296
Length 101
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 77.66
Mean single sequence MFE -29.33
Consensus MFE -21.19
Energy contribution -20.61
Covariance contribution -0.58
Combinations/Pair 1.40
Mean z-score -2.96
Structure conservation index 0.72
SVM decision value 2.01
SVM RNA-class probability 0.985676
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24930195 101 - 27905053
UUGAUCUCGCCUUUGAGAUCAUCGAUCAUCAGCUGCUGCAUUUGUAGCAACUCAGAAGUUCGGUGUGGCAGCU-------GUAAAUAAUACACGAUUAGAUCGAAUAC
.((((((((....))))))))((((((..(((((((..((((.(.(((.........))))))))..))))))-------)....((((.....)))))))))).... ( -35.00)
>DroVir_CAF1 333 98 - 1
CUGAUCUCACCCUUCAGAUCGUCUAUCAUCAGCUGCUGCACUUGCAACAGCUCCGAAGUGCGAUGCGGCAACU-------GCAACAAUUAU---AAAAUAUCAAAAAU
..(((((........))))).........(((.(((((((.(((((.(......)...)))))))))))).))-------)..........---.............. ( -21.60)
>DroGri_CAF1 505 99 - 1
CUGAUCUCGCCCUUGAGGUCGUCAAUCAUCAGCUGCUGCAUUUGUAGCAGCUCCGACGUACGAUGCGGCAACU-------GCAAAAAAA--GCAAAUACAUCAAAUAA
..(((((((....)))))))(((.......(((((((((....)))))))))..)))....((((.(....)(-------((.......--)))....))))...... ( -29.60)
>DroSec_CAF1 885 101 - 1
UUGAUCUCGCCUUUGAGAUCAUCGAUCAUAAGCUGCUGCAUUUGUAGUAACUCAGAGGUUCGAUGUGGCAGCU-------GUAAAUAAUACACAAUUAGAUAAAAUAC
.((((((((....))))))))...(((...((((((..((((....(.((((....)))))))))..))))))-------(((.....))).......)))....... ( -26.90)
>DroSim_CAF1 324 100 - 1
UUGAUCUCGCCUUUGAGAUCAUCGAUCAUAAGCUGCUGCAUUUGUAGUAACUCAGAGGUUCGAUGUGGCAGCU-------GUAAAUAAUACACGAUUA-AUAAAAUAC
.((((((((....))))))))..((((...((((((..((((....(.((((....)))))))))..))))))-------(((.....)))..)))).-......... ( -28.20)
>DroAna_CAF1 335 107 - 1
UUGAUUUCGCCCUUGAGAUCAUCGAUCAUUAGCUGUUGCAUCUGCAGCAGCUCAGAGGUGCGAUGUGGCAGCUAAUAGAAGAAAGUAGUA-ACGAAUAAAUAAACGAU
.((((((((....))))))))(((.(((((((((((..((((.(((.(........).)))))))..))))))))).)).....((....-))...........))). ( -34.70)
>consensus
UUGAUCUCGCCCUUGAGAUCAUCGAUCAUCAGCUGCUGCAUUUGUAGCAACUCAGAGGUUCGAUGUGGCAGCU_______GUAAAUAAUACACGAAUAGAUAAAAUAC
.((((((((....)))))))).........((((((((((((...................))))))))))))................................... (-21.19 = -20.61 +  -0.58)

alignment

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secondary structure

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dotplot

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Window 0

Location 24,930,223 – 24,930,324
Length 101
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 78.70
Mean single sequence MFE -36.25
Consensus MFE -25.09
Energy contribution -24.57
Covariance contribution -0.53
Combinations/Pair 1.36
Mean z-score -2.41
Structure conservation index 0.69
SVM decision value 1.57
SVM RNA-class probability 0.964979
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24930223 101 - 27905053
------------UAACUCCUUUUCAGCGGUUCGAAUCUCAUUGAUCUCGCCUUUGAGAUCAUCGAUCAUCAGCUGCUGCAUUUGUAGCAACUCAGAAGUUCGGUGUGGCAGCU-------
------------...............(((.(((.......((((((((....))))))))))))))...((((((..((((.(.(((.........))))))))..))))))------- ( -26.91)
>DroPse_CAF1 572 101 - 1
------------CAGCUCCUUUUCGGCGGUGCGAAUGUCAUUGAUCUCCCCCUUGAGGUCAUCGAUCAUCAGCUGUUGCAUCUGCAAGGACUCCGAGGUGCGAUGCGGCAGCU-------
------------..((.((........)).))((..(((..(((((((......)))))))..)))..))((((((((((((.(((.((...))....)))))))))))))))------- ( -38.60)
>DroGri_CAF1 531 113 - 1
UUGUUUCUCCAGCAGCUCCUUUUCAGCGCAGCGUAUAUCGCUGAUCUCGCCCUUGAGGUCGUCAAUCAUCAGCUGCUGCAUUUGUAGCAGCUCCGACGUACGAUGCGGCAACU-------
...........((.(((.......)))(((.((((..(((..(((((((....)))))))..........(((((((((....))))))))).)))..)))).))).))....------- ( -39.40)
>DroSec_CAF1 913 101 - 1
------------UAGCUCCUUUUCAGCGGAUCGAAUUUCAUUGAUCUCGCCUUUGAGAUCAUCGAUCAUAAGCUGCUGCAUUUGUAGUAACUCAGAGGUUCGAUGUGGCAGCU-------
------------..(((.......))).((((((.......((((((((....))))))))))))))...((((((..((((....(.((((....)))))))))..))))))------- ( -33.01)
>DroAna_CAF1 362 108 - 1
------------CAGCUCCUUUUCGGCUGUUCGAAAAUCGUUGAUUUCGCCCUUGAGAUCAUCGAUCAUUAGCUGUUGCAUCUGCAGCAGCUCAGAGGUGCGAUGUGGCAGCUAAUAGAA
------------(((((.......)))))(((....((((.((((((((....)))))))).)))).(((((((((..((((.(((.(........).)))))))..))))))))).))) ( -42.00)
>DroPer_CAF1 594 101 - 1
------------CAGCUCCUUCUCCGCGGUGCGAAUGUCAUUGAUCUCCCCCUUGAGGUCAUCGAUCAUCAGCUGUUGCAUCUGCAGGGACUCCGAGGUGCGAUGCGGCAGCU-------
------------..((.((........)).))((..(((..(((((((......)))))))..)))..))(((((((((((((((.((....))...))).))))))))))))------- ( -37.60)
>consensus
____________CAGCUCCUUUUCAGCGGUGCGAAUAUCAUUGAUCUCGCCCUUGAGAUCAUCGAUCAUCAGCUGCUGCAUCUGCAGCAACUCAGAGGUGCGAUGCGGCAGCU_______
..............(((.......))).........(((..(((((((......)))))))..)))....((((((((((((.(((............)))))))))))))))....... (-25.09 = -24.57 +  -0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:34:08 2006