Locus 6123

Sequence ID 3R_DroMel_CAF1
Location 16,048,673 – 16,048,782
Length 109
Max. P 0.883528
window9982 window9983

overview

Window 2

Location 16,048,673 – 16,048,782
Length 109
Sequences 4
Columns 109
Reading direction forward
Mean pairwise identity 93.88
Mean single sequence MFE -35.30
Consensus MFE -29.86
Energy contribution -31.68
Covariance contribution 1.81
Combinations/Pair 1.03
Mean z-score -2.15
Structure conservation index 0.85
SVM decision value 0.93
SVM RNA-class probability 0.883528
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16048673 109 + 27905053
ACAGCACUAGCUGGAAAAUUCGGAUUCGGGUGGGUGCUGGAAAAGUGCGGGAAAUCACAGGAGAUUGGAGAGCCAGCGGAAAACCCGAGACUAGCUGCAAGGCAGCGAC
.(((((((.(((.(((........))).))).)))))))....(((.((((.((((......))))((....)).........))))..))).(((((...)))))... ( -35.80)
>DroSec_CAF1 6360 109 + 1
ACAGCACUAGCUGGAAAAUUCGGAGUCGGGUGGGUGCUGGAAAAGUGCGGGAAAUCACAGGAGAUUGGAGAGCCAGCGGAAAACCCGAGUCUAGCUGCAAGGCAGCGAC
.((((....))))........(((.((((((...((((((.......(....((((......))))...)..))))))....)))))).))).(((((...)))))... ( -37.40)
>DroSim_CAF1 6515 109 + 1
ACAGCACUAGCUGGAAAAUUCGGAUUCGGGUGGGUGCUGGAAAAGUGCGGGAAAUCACAGGAGAUUGGAGAGCCAGCGGAAAACCCGAGUCUAGCUGCAAGGCAGCGAC
.((((....))))........((((((((((...((((((.......(....((((......))))...)..))))))....)))))))))).(((((...)))))... ( -39.00)
>DroYak_CAF1 14547 107 + 1
ACAACACUAUCUGGAAAAUACGGAU--GGGUGGGUGCUAGAAAAGUGUGGAAAAUCACAGGAGAUUGAAGAGCCAGCGGAAAACCCGAGACUCGCUGCGAGGCAGCGAC
...((.(((((((.......)))))--))))(((((((.......((((......))))((...........))))).....)))).....(((((((...))))))). ( -29.00)
>consensus
ACAGCACUAGCUGGAAAAUUCGGAUUCGGGUGGGUGCUGGAAAAGUGCGGGAAAUCACAGGAGAUUGGAGAGCCAGCGGAAAACCCGAGACUAGCUGCAAGGCAGCGAC
.((((....))))........((((((((((...((((((.......(....((((......))))...)..))))))....)))))))))).(((((...)))))... (-29.86 = -31.68 +   1.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 16,048,673 – 16,048,782
Length 109
Sequences 4
Columns 109
Reading direction reverse
Mean pairwise identity 93.88
Mean single sequence MFE -27.59
Consensus MFE -24.51
Energy contribution -24.70
Covariance contribution 0.19
Combinations/Pair 1.12
Mean z-score -1.52
Structure conservation index 0.89
SVM decision value 0.21
SVM RNA-class probability 0.635510
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16048673 109 - 27905053
GUCGCUGCCUUGCAGCUAGUCUCGGGUUUUCCGCUGGCUCUCCAAUCUCCUGUGAUUUCCCGCACUUUUCCAGCACCCACCCGAAUCCGAAUUUUCCAGCUAGUGCUGU
.(((((((...))))).....((((((.....(((((.............((((......)))).....)))))....))))))....))......((((....)))). ( -28.57)
>DroSec_CAF1 6360 109 - 1
GUCGCUGCCUUGCAGCUAGACUCGGGUUUUCCGCUGGCUCUCCAAUCUCCUGUGAUUUCCCGCACUUUUCCAGCACCCACCCGACUCCGAAUUUUCCAGCUAGUGCUGU
.(((((((...)))))..((.((((((.....(((((.............((((......)))).....)))))....)))))).)).))......((((....)))). ( -29.87)
>DroSim_CAF1 6515 109 - 1
GUCGCUGCCUUGCAGCUAGACUCGGGUUUUCCGCUGGCUCUCCAAUCUCCUGUGAUUUCCCGCACUUUUCCAGCACCCACCCGAAUCCGAAUUUUCCAGCUAGUGCUGU
.(((((((...)))))..((.((((((.....(((((.............((((......)))).....)))))....)))))).)).))......((((....)))). ( -29.87)
>DroYak_CAF1 14547 107 - 1
GUCGCUGCCUCGCAGCGAGUCUCGGGUUUUCCGCUGGCUCUUCAAUCUCCUGUGAUUUUCCACACUUUUCUAGCACCCACCC--AUCCGUAUUUUCCAGAUAGUGUUGU
.(((((((...))))))).....((((.....(((((.............((((......)))).....)))))....))))--......................... ( -22.07)
>consensus
GUCGCUGCCUUGCAGCUAGACUCGGGUUUUCCGCUGGCUCUCCAAUCUCCUGUGAUUUCCCGCACUUUUCCAGCACCCACCCGAAUCCGAAUUUUCCAGCUAGUGCUGU
...(((((...))))).....((((((.....(((((.............((((......)))).....)))))....))))))............((((....)))). (-24.51 = -24.70 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:16 2006