Locus 7933

Sequence ID 3R_DroMel_CAF1
Location 21,264,360 – 21,264,452
Length 92
Max. P 0.970786
window12782 window12783

overview

Window 2

Location 21,264,360 – 21,264,452
Length 92
Sequences 4
Columns 94
Reading direction forward
Mean pairwise identity 91.03
Mean single sequence MFE -16.58
Consensus MFE -14.66
Energy contribution -15.22
Covariance contribution 0.56
Combinations/Pair 1.05
Mean z-score -2.25
Structure conservation index 0.88
SVM decision value 1.66
SVM RNA-class probability 0.970786
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21264360 92 + 27905053
GGCAGGUUAUAAAAUACGAA-AACAAGGCAUUGCAAUUACGGAGCAAAC-AAAAGCCGAAACAGAUGCAGUAUUUUAUAACUAACAGCGGAACA
.((.(((((((((((((...-......(((((.......(((.......-.....))).....))))).)))))))))))))....))...... ( -18.90)
>DroSec_CAF1 89251 88 + 1
GGCAGGUUAUAAAAUACGAA-AACAAUGCAUUGCAAUUACGGAUCAAAC-ACAAGCUGAAACAGAUGCAGUAUUUUAUAACUA----CUGAACA
..((((((((((((((((..-..)..((((((.......(((.......-.....))).....))))))))))))))))))..----))).... ( -17.00)
>DroSim_CAF1 92006 89 + 1
GGCAGGUUAUAAAAUACGAA-AACAAUGCAUUGCAAUUACGGAGCAAAAAAAAAGCCGAAACAGAUGCAGUAUUUUAUAACUA----CAGAACA
....((((((((((((((..-..)..((((((.......(((.............))).....))))))))))))))))))).----....... ( -19.02)
>DroYak_CAF1 98762 89 + 1
GGCAGGUUAUAAAACUCGAAAAACAAAGCAUUGCAAUUACGAAGCAAAC-AAAAGCCGAAACAGAUGCAGUAUUUUAUAACUA----CAGAACA
....((((((((((..((.....)...(((((.......((..((....-....)))).....))))).)..)))))))))).----....... ( -11.40)
>consensus
GGCAGGUUAUAAAAUACGAA_AACAAUGCAUUGCAAUUACGGAGCAAAC_AAAAGCCGAAACAGAUGCAGUAUUUUAUAACUA____CAGAACA
....((((((((((((((.....)...(((((.......(((.............))).....))))).)))))))))))))............ (-14.66 = -15.22 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 21,264,360 – 21,264,452
Length 92
Sequences 4
Columns 94
Reading direction reverse
Mean pairwise identity 91.03
Mean single sequence MFE -17.61
Consensus MFE -13.25
Energy contribution -13.31
Covariance contribution 0.06
Combinations/Pair 1.05
Mean z-score -1.79
Structure conservation index 0.75
SVM decision value 0.20
SVM RNA-class probability 0.631849
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 21264360 92 - 27905053
UGUUCCGCUGUUAGUUAUAAAAUACUGCAUCUGUUUCGGCUUUU-GUUUGCUCCGUAAUUGCAAUGCCUUGUU-UUCGUAUUUUAUAACCUGCC
.........((..((((((((((((.((....))...(((..((-((((((...))))..)))).))).....-...))))))))))))..)). ( -18.30)
>DroSec_CAF1 89251 88 - 1
UGUUCAG----UAGUUAUAAAAUACUGCAUCUGUUUCAGCUUGU-GUUUGAUCCGUAAUUGCAAUGCAUUGUU-UUCGUAUUUUAUAACCUGCC
......(----((((((((((((((((((..((..(((((....-).))))..))....)))).......(..-..)))))))))))).)))). ( -17.50)
>DroSim_CAF1 92006 89 - 1
UGUUCUG----UAGUUAUAAAAUACUGCAUCUGUUUCGGCUUUUUUUUUGCUCCGUAAUUGCAAUGCAUUGUU-UUCGUAUUUUAUAACCUGCC
......(----(((((((((((((((((((.(((..(((.............))).....)))))))).....-...))))))))))).)))). ( -18.32)
>DroYak_CAF1 98762 89 - 1
UGUUCUG----UAGUUAUAAAAUACUGCAUCUGUUUCGGCUUUU-GUUUGCUUCGUAAUUGCAAUGCUUUGUUUUUCGAGUUUUAUAACCUGCC
.....((----((((........))))))........(((..((-((..(((.((.((..((((....))))..)))))))...))))...))) ( -16.30)
>consensus
UGUUCUG____UAGUUAUAAAAUACUGCAUCUGUUUCGGCUUUU_GUUUGCUCCGUAAUUGCAAUGCAUUGUU_UUCGUAUUUUAUAACCUGCC
.............((((((((((((.((((.(((....((..............))....)))))))...(.....)))))))))))))..... (-13.25 = -13.31 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:58:29 2006