Locus 700

Sequence ID X_DroMel_CAF1
Location 1,925,124 – 1,925,358
Length 234
Max. P 0.876525
window1124 window1125

overview

Window 4

Location 1,925,124 – 1,925,244
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 91.75
Mean single sequence MFE -47.16
Consensus MFE -39.60
Energy contribution -39.40
Covariance contribution -0.20
Combinations/Pair 1.18
Mean z-score -1.48
Structure conservation index 0.84
SVM decision value 0.58
SVM RNA-class probability 0.789727
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1925124 120 - 22224390
CCCUGUGGAAACUCUGGCAUGGUCAGCAAGGGUCCCCACAAAAAGGAACCUAAUCCGGGGCCAGCCGGCGAUGCGCCUUCCGACGAGUGUCCUUCCAGUUGCUUCCCUUGGGAGGCAAAG
..(((.(((.((((.(((.(((((.....((....)).......(((......)))..))))))))((((...)))).......)))).)))...)))((((((((....)))))))).. ( -46.40)
>DroSec_CAF1 9094 120 - 1
CCCUGUGAAAACUCCGGCAUGGUCAGCAAAGGUCCCCACAAAAAGGAACCUAAUCCGGGGCCAGCCGGCGUUGCGCCUUCCGAUGAGUGUCCUUCCAGUUGCUUCCCUUGGGAGGCAAAG
..(((.((((((.(((((.(((((.....((((.((........)).)))).......)))))))))).)))(((((.......).))))..))))))((((((((....)))))))).. ( -43.70)
>DroSim_CAF1 8720 120 - 1
CCCUGUGGAAACUCCGGCAUGGUCAGCAAAGGUCCCCACAAAAAGGAACCUAAUCCGGGGCCAGCCGGCGUUGCGCCUUCCGAUGAGUGUCCUUCUAGUUGCUUCCCUUGGGAGGCAAAG
..(((.(((.((((.(((.(((((.....((((.((........)).)))).......))))))))((((...)))).......)))).)))...)))((((((((....)))))))).. ( -44.00)
>DroEre_CAF1 9158 120 - 1
CCCUGUGGGAACUCCGGCAUGGUCAGCAAGGGUCCCCACAAAAAGGAACCCAAUCCGGGGGCAGCCGCCGUUGCGCUUUCCGAGGAGUGUCCGUCGAGUUGCUUCCCUUGGGUGGAAAAC
.((((((((.((((..((.......))..)))).)))))).......((((((...(((((((((((.((..((((((......)))))).)).)).))))))))).))))))))..... ( -49.00)
>DroYak_CAF1 9195 120 - 1
CCCUGUGGGAACUCUGGCAUGGUCAGCAAGGGUCCCCACAGAAAGGAACCCAAUCCGGGAGCAGCCGGUGUUGCGCCUUCCACGGAGUGUCCUUCCAGUUGCUUCCCUUGGGAGGCAAAC
..(((((((.(((((.((.......)).))))).)))))))...((((..((.((((((((((((....)))))....))).)))).))...))))..((((((((....)))))))).. ( -52.70)
>consensus
CCCUGUGGAAACUCCGGCAUGGUCAGCAAGGGUCCCCACAAAAAGGAACCUAAUCCGGGGCCAGCCGGCGUUGCGCCUUCCGAGGAGUGUCCUUCCAGUUGCUUCCCUUGGGAGGCAAAG
..(((.(((.(((((((...(((((((..((((.((........)).))))...((((......)))).)))).)))..)))..)))).)))...)))((((((((....)))))))).. (-39.60 = -39.40 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 1,925,244 – 1,925,358
Length 114
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.56
Mean single sequence MFE -33.28
Consensus MFE -28.34
Energy contribution -28.14
Covariance contribution -0.20
Combinations/Pair 1.08
Mean z-score -1.73
Structure conservation index 0.85
SVM decision value 0.89
SVM RNA-class probability 0.876525
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1925244 114 + 22224390
CAGUGUGGCCAGCGACCAGCAACAUAACCACC------ACCAGCAGGAUCAUUCCCCGGAUCCGCAGCAGGAUUCCAGUCCCUCUAUCAUUAAAAGAGUGCUGGACAUGCUUAGGCCAUC
....((((((((((.((((((...........------....((.(((((........)))))))....((((....))))((((.........))))))))))...))))..)))))). ( -35.60)
>DroSec_CAF1 9214 114 + 1
CAGUGUGGCCAGUGGCCAGCAACAUAACCACC------ACCAGCAGGAUCAUUCCCCGGAUCCGCAGCAGGAAUCCAGUCCCUCCAUCAUCAAAAGAGUGCUGGACAUGCUUAGGCCAUC
....((((((.((((............)))).------....((.(((((........)))))))((((....((((((..(((...........))).))))))..))))..)))))). ( -34.60)
>DroSim_CAF1 8840 114 + 1
CAGUGUGGCCAGUGACCAGCAACAUAACCACC------ACCAGCAGGAUCAUUCCCCGGAUCCGCAGCAGGAAUCCAGUCCCUCCAUCAUCAAAAGAGUGCUGGACAUGCUUAGGCCAUC
....((((((......................------....((.(((((........)))))))((((....((((((..(((...........))).))))))..))))..)))))). ( -32.00)
>DroEre_CAF1 9278 108 + 1
CAGUGUGGCCAGCGACCAGCAACAUAACCACAACAUCCA------------UCCCCAGGAUCCGCAGCAGGAAUCCAGUCCCUCCAUCAUCAAAAGAGUGCUGGAUAUGCUGAGGCCAUC
....((((((.((.....))..............((((.------------......))))...(((((...(((((((..(((...........))).))))))).))))).)))))). ( -31.80)
>DroYak_CAF1 9315 120 + 1
CAGUGUGGCCAGCGACCAGCAACAUAACCACAACCUCCACCAGCAGGAGCAUACCCAGGACUCGCAGCAGGAAUCCAGUCCCUCCAUCAUCAAAAGAGUGCUGGACAUGCUGAGGCCAUC
....((((((.((.....)).............(((.(....).)))(((((..((((.((((......(((..........)))..........)))).))))..)))))..)))))). ( -32.39)
>consensus
CAGUGUGGCCAGCGACCAGCAACAUAACCACC______ACCAGCAGGAUCAUUCCCCGGAUCCGCAGCAGGAAUCCAGUCCCUCCAUCAUCAAAAGAGUGCUGGACAUGCUUAGGCCAUC
....((((((((((.((((((....................................((((((......))).))).....(((...........)))))))))...))))..)))))). (-28.34 = -28.14 +  -0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:51:31 2006