Locus 4671

Sequence ID 3R_DroMel_CAF1
Location 12,321,157 – 12,321,274
Length 117
Max. P 0.665900
window7668 window7669

overview

Window 8

Location 12,321,157 – 12,321,274
Length 117
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 97.78
Mean single sequence MFE -33.63
Consensus MFE -30.17
Energy contribution -30.17
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.84
Structure conservation index 0.90
SVM decision value 0.10
SVM RNA-class probability 0.582048
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12321157 117 + 27905053
CUGCAGGCUGAAAGCCGAGC---GCGAUGAGACUAGUUUUUCACACACAAGAAAACAAGAAAAGCCACGACAAGUGGCUGAGGAAAAGCGCUGGGAGUGAAAUGUGGCAGGGGUGUGGAG
((((..((...(..((.(((---((.......((.((((((.........)))))).))...((((((.....))))))........))))).))..).....)).)))).......... ( -33.80)
>DroSec_CAF1 12373 120 + 1
CUGCAGGCUGAAAGCCGAGACUAGCGAUGAGACUAGUUUUUCACACACAAGAAAACAAGAAAAGCCACGACAAGUGGCUGAGGAAAAGCGCUGGGAGUGAAAUGUGGCAGGGGUGUGGAG
((.((.(((....((((((((((((.....).))))))))((((.(...((...........((((((.....))))))...........))..).)))).....)))...))).)).)) ( -33.55)
>DroSim_CAF1 8484 120 + 1
CUGCAGGCUGAAAGCCGAGACUAGCGAUGAGACUAGUUUUUCACACACAAGAAAACAAGAAAAGCCACGACAAGUGGCUGAGGAAAAGCGCUGGGAGUGAAAUGUGGCAGGGGUGUGGAG
((.((.(((....((((((((((((.....).))))))))((((.(...((...........((((((.....))))))...........))..).)))).....)))...))).)).)) ( -33.55)
>consensus
CUGCAGGCUGAAAGCCGAGACUAGCGAUGAGACUAGUUUUUCACACACAAGAAAACAAGAAAAGCCACGACAAGUGGCUGAGGAAAAGCGCUGGGAGUGAAAUGUGGCAGGGGUGUGGAG
((.((.(((....((((......((..(.((....(((((((.(......)...........((((((.....))))))...))))))).)).)..))......))))...))).)).)) (-30.17 = -30.17 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 12,321,157 – 12,321,274
Length 117
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 97.78
Mean single sequence MFE -27.90
Consensus MFE -23.97
Energy contribution -25.30
Covariance contribution 1.33
Combinations/Pair 1.00
Mean z-score -2.24
Structure conservation index 0.86
SVM decision value 0.28
SVM RNA-class probability 0.665900
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12321157 117 - 27905053
CUCCACACCCCUGCCACAUUUCACUCCCAGCGCUUUUCCUCAGCCACUUGUCGUGGCUUUUCUUGUUUUCUUGUGUGUGAAAAACUAGUCUCAUCGC---GCUCGGCUUUCAGCCUGCAG
..........((((..............(((((........((((((.....))))))...((..(((((........)))))...)).......))---))).(((.....))).)))) ( -27.70)
>DroSec_CAF1 12373 120 - 1
CUCCACACCCCUGCCACAUUUCACUCCCAGCGCUUUUCCUCAGCCACUUGUCGUGGCUUUUCUUGUUUUCUUGUGUGUGAAAAACUAGUCUCAUCGCUAGUCUCGGCUUUCAGCCUGCAG
..........((((....((((((.(.(((...........((((((.....))))))............))).).)))))).((((((......))))))...(((.....))).)))) ( -28.00)
>DroSim_CAF1 8484 120 - 1
CUCCACACCCCUGCCACAUUUCACUCCCAGCGCUUUUCCUCAGCCACUUGUCGUGGCUUUUCUUGUUUUCUUGUGUGUGAAAAACUAGUCUCAUCGCUAGUCUCGGCUUUCAGCCUGCAG
..........((((....((((((.(.(((...........((((((.....))))))............))).).)))))).((((((......))))))...(((.....))).)))) ( -28.00)
>consensus
CUCCACACCCCUGCCACAUUUCACUCCCAGCGCUUUUCCUCAGCCACUUGUCGUGGCUUUUCUUGUUUUCUUGUGUGUGAAAAACUAGUCUCAUCGCUAGUCUCGGCUUUCAGCCUGCAG
..........((((....((((((.(.(((...........((((((.....))))))............))).).)))))).((((((......))))))...(((.....))).)))) (-23.97 = -25.30 +   1.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:36:01 2006