Locus 3889

Sequence ID X_DroMel_CAF1
Location 10,390,532 – 10,390,624
Length 92
Max. P 0.996221
window6387 window6388

overview

Window 7

Location 10,390,532 – 10,390,624
Length 92
Sequences 4
Columns 98
Reading direction forward
Mean pairwise identity 86.32
Mean single sequence MFE -31.63
Consensus MFE -24.70
Energy contribution -25.07
Covariance contribution 0.37
Combinations/Pair 1.08
Mean z-score -3.50
Structure conservation index 0.78
SVM decision value 2.40
SVM RNA-class probability 0.993451
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10390532 92 + 22224390
GGAAUGCGGCUGCGAAGAAUCGCUGCAGCACAUGCUAGCAAUUCUUCUGCCCAUUCUUUUGCGCAGCCCUUCUUU----CUUUCAU--GUUCCUUUGG
((((((.(((((((((((((.((((((.....))).))).))))))).((..........)))))))))......----.......--)))))..... ( -29.11)
>DroSec_CAF1 34490 92 + 1
GGAAUGCGGCUGCGAAGAAUCGCUGCAGCACAUGCUAGCAAUUCUUCUGCCCAUUCUUUUGCGCAGCCCUUCUUU----CUUUCAU--GUUCCUUUGG
((((((.(((((((((((((.((((((.....))).))).))))))).((..........)))))))))......----.......--)))))..... ( -29.11)
>DroEre_CAF1 38838 92 + 1
GGAAUGCGGCUGCGGAGAAUCGCUGCAGCACAUGCUAGCAAUUCUUCUGGCCAUUCUUUGCCGCAGCCCUUCUUU----CUUUCAU--GUUCCUUUAG
((((((.(((((((((((((.((((((.....))).))).))))))).(((........))))))))))......----.......--)))))..... ( -32.81)
>DroYak_CAF1 33929 83 + 1
GGAAUGCGGCUGCGAAGAAUCGGUGCAGCACAUGCUAGCAAUUCUU---------------CGCAGCCCUUCUUUCGUUCUUUCAUGUGUUCCUUUGG
((((((((((((((((((((...((((((....))).)))))))))---------------)))))))........(......)..)))))))..... ( -35.50)
>consensus
GGAAUGCGGCUGCGAAGAAUCGCUGCAGCACAUGCUAGCAAUUCUUCUGCCCAUUCUUUUGCGCAGCCCUUCUUU____CUUUCAU__GUUCCUUUGG
((((.(.(((((((((((((.((((((.....))).))).))))))).((..........)))))))))))))......................... (-24.70 = -25.07 +   0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 10,390,532 – 10,390,624
Length 92
Sequences 4
Columns 98
Reading direction reverse
Mean pairwise identity 86.32
Mean single sequence MFE -32.83
Consensus MFE -26.69
Energy contribution -27.50
Covariance contribution 0.81
Combinations/Pair 1.04
Mean z-score -3.86
Structure conservation index 0.81
SVM decision value 2.67
SVM RNA-class probability 0.996221
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10390532 92 - 22224390
CCAAAGGAAC--AUGAAAG----AAAGAAGGGCUGCGCAAAAGAAUGGGCAGAAGAAUUGCUAGCAUGUGCUGCAGCGAUUCUUCGCAGCCGCAUUCC
..........--.......----...((((((((((((..........)).(((((((((((.(((.....)))))))))))))))))))).).))). ( -32.50)
>DroSec_CAF1 34490 92 - 1
CCAAAGGAAC--AUGAAAG----AAAGAAGGGCUGCGCAAAAGAAUGGGCAGAAGAAUUGCUAGCAUGUGCUGCAGCGAUUCUUCGCAGCCGCAUUCC
..........--.......----...((((((((((((..........)).(((((((((((.(((.....)))))))))))))))))))).).))). ( -32.50)
>DroEre_CAF1 38838 92 - 1
CUAAAGGAAC--AUGAAAG----AAAGAAGGGCUGCGGCAAAGAAUGGCCAGAAGAAUUGCUAGCAUGUGCUGCAGCGAUUCUCCGCAGCCGCAUUCC
..........--.......----...(((((((((((((........))).(.(((((((((.(((.....)))))))))))).))))))).).))). ( -32.30)
>DroYak_CAF1 33929 83 - 1
CCAAAGGAACACAUGAAAGAACGAAAGAAGGGCUGCG---------------AAGAAUUGCUAGCAUGUGCUGCACCGAUUCUUCGCAGCCGCAUUCC
.....((((..(.........(....)...(((((((---------------((((((((.((((....))))...))))))))))))))))..)))) ( -34.00)
>consensus
CCAAAGGAAC__AUGAAAG____AAAGAAGGGCUGCGCAAAAGAAUGGGCAGAAGAAUUGCUAGCAUGUGCUGCAGCGAUUCUUCGCAGCCGCAUUCC
..........................((((((((((((..........)).(((((((((((.(((.....)))))))))))))))))))).).))). (-26.69 = -27.50 +   0.81)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:11:04 2006