Locus 5442

Sequence ID 3R_DroMel_CAF1
Location 14,357,430 – 14,357,526
Length 96
Max. P 0.959888
window8855 window8856

overview

Window 5

Location 14,357,430 – 14,357,526
Length 96
Sequences 4
Columns 96
Reading direction forward
Mean pairwise identity 94.10
Mean single sequence MFE -31.50
Consensus MFE -30.02
Energy contribution -29.65
Covariance contribution -0.37
Combinations/Pair 1.11
Mean z-score -2.01
Structure conservation index 0.95
SVM decision value 1.51
SVM RNA-class probability 0.959888
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14357430 96 + 27905053
UUUAAAUUGUUUGGUUUGGUUUGGUUUACAUUGCAUUACGCAGGAAAACCUCUCCCGCAAUUCCGCCCAACGGGUGGAUUUAGUGGGUGGCAGUGU
.....(((((............(((((...((((.....))))..))))).(.(((((((.(((((((...))))))).)).))))).)))))).. ( -31.10)
>DroSec_CAF1 136273 96 + 1
UUUAAAUUGUUUGGUUUGGUUUGGUUUACAUUGCAUUACGCAGGAAAACCUCUCCCACAAUUCCGCCCAUCGGGUGGAUUCGGUGGGUGGCAGUGU
.....(((((............(((((...((((.....))))..))))).(.(((((...(((((((...)))))))....))))).)))))).. ( -31.90)
>DroEre_CAF1 144397 96 + 1
UUUAAAUUGUUUGGUUUGGUUUGGUUUACAUUGCAUUACGCAGAAAAACCUCGCCCGCAAUUCCGCCCGCCGGGCGGAUUUAGUGGGUGGCGCUGU
.(((((((....)))))))...(((((...((((.....))))..)))))((((((((((.(((((((...))))))).)).))))))))...... ( -33.80)
>DroYak_CAF1 145182 96 + 1
UUUAAAUUGUUUGGUUUGGUUUGGUUUACAUUGCAUUACGCAGAAAAACCUCUCCCGCAAUUCCGCCCACCGGGUGGAUUUAGUGGGUGGCGGUGU
.....(((((............(((((...((((.....))))..))))).(.(((((((.(((((((...))))))).)).))))).)))))).. ( -29.20)
>consensus
UUUAAAUUGUUUGGUUUGGUUUGGUUUACAUUGCAUUACGCAGAAAAACCUCUCCCGCAAUUCCGCCCACCGGGUGGAUUUAGUGGGUGGCAGUGU
.....(((((............(((((...((((.....))))..))))).(.(((((...(((((((...)))))))....))))).)))))).. (-30.02 = -29.65 +  -0.37)

alignment

Postscript

secondary structure

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dotplot

Postscript

Window 6

Location 14,357,430 – 14,357,526
Length 96
Sequences 4
Columns 96
Reading direction reverse
Mean pairwise identity 94.10
Mean single sequence MFE -23.26
Consensus MFE -19.44
Energy contribution -19.25
Covariance contribution -0.19
Combinations/Pair 1.05
Mean z-score -1.67
Structure conservation index 0.84
SVM decision value 0.14
SVM RNA-class probability 0.604907
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14357430 96 - 27905053
ACACUGCCACCCACUAAAUCCACCCGUUGGGCGGAAUUGCGGGAGAGGUUUUCCUGCGUAAUGCAAUGUAAACCAAACCAAACCAAACAAUUUAAA
(((.(((...........(((.(((...))).)))...((((((((...)))))))).....))).)))........................... ( -22.10)
>DroSec_CAF1 136273 96 - 1
ACACUGCCACCCACCGAAUCCACCCGAUGGGCGGAAUUGUGGGAGAGGUUUUCCUGCGUAAUGCAAUGUAAACCAAACCAAACCAAACAAUUUAAA
.........(((((.((.(((.(((...))).))).)))))))...(((((...(((.....)))....)))))...................... ( -23.50)
>DroEre_CAF1 144397 96 - 1
ACAGCGCCACCCACUAAAUCCGCCCGGCGGGCGGAAUUGCGGGCGAGGUUUUUCUGCGUAAUGCAAUGUAAACCAAACCAAACCAAACAAUUUAAA
....((((......(((.(((((((...))))))).)))..)))).(((((...(((.....)))....)))))...................... ( -25.90)
>DroYak_CAF1 145182 96 - 1
ACACCGCCACCCACUAAAUCCACCCGGUGGGCGGAAUUGCGGGAGAGGUUUUUCUGCGUAAUGCAAUGUAAACCAAACCAAACCAAACAAUUUAAA
...((((((((..............))).)))))(((((..((...(((((...(((((......)))))....)))))...))...))))).... ( -21.54)
>consensus
ACACCGCCACCCACUAAAUCCACCCGGUGGGCGGAAUUGCGGGAGAGGUUUUCCUGCGUAAUGCAAUGUAAACCAAACCAAACCAAACAAUUUAAA
.........(((.(.((.(((.(((...))).))).))).)))...(((((...(((.....)))....)))))...................... (-19.44 = -19.25 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:54:47 2006