Locus 6891

Sequence ID 3R_DroMel_CAF1
Location 18,201,757 – 18,201,863
Length 106
Max. P 0.690858
window11189

overview

Window 9

Location 18,201,757 – 18,201,863
Length 106
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 74.73
Mean single sequence MFE -34.11
Consensus MFE -19.11
Energy contribution -19.03
Covariance contribution -0.08
Combinations/Pair 1.41
Mean z-score -1.59
Structure conservation index 0.56
SVM decision value 0.33
SVM RNA-class probability 0.690858
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18201757 106 + 27905053
--------------UGUCAUUGCCCACGACCAGAGCCACCACGGCCACGACCACUCACGCUGUGGUCCAGGCUGUGGAAACGUAUAUUCAGAACCAGAAUUUGCUUGGCGAGAUCGCUGA
--------------..........(((((.(...((((((((((((..((((((.......))))))..))))))))....(((.((((.......)))).))).))))..).))).)). ( -37.90)
>DroVir_CAF1 12662 115 + 1
-----CAUUAAAAAUGUCACUGCCCUCAACAAAAGCAACUACGGCGACAGCAACGAACGCGGUUGUGCAGGCAGUUGAGACAUAUAUUCAAAACCAAAACUUAUUGGGUGAGAUUGCCGA
-----........(((((((((((....((((..((.......((....)).......))..))))...))))))...)))))...((((...((((......)))).))))........ ( -28.14)
>DroGri_CAF1 12244 119 + 1
AAACACAUUA-AAAUGUCAUUGCCCUCAACAAAAGCAACAACUGCGACAACAACGCAUGCCGUUGUGCAGGCGGUCGAUACAUAUAUACAAAAUCAAAAUUUACUGGGUGAAAUAGCCGA
..........-...((((((((((....((((..(((.....((((.......)))))))..))))...)))))).))))..........................(((......))).. ( -22.10)
>DroSim_CAF1 3726 119 + 1
AAAGGCACUG-CCAUGUCAUUGCCCACGACCAGAGCCACCACGGCCACGACCACUCACGCUGUGGUCCAGGCUGUGGAAACGUAUAUUCAAAACCAGAAUUUGCUCGGCGAGAUCGCUGA
...(((.(((-....(((.........)))))).))).((((((((..((((((.......))))))..))))))))....(((.((((.......)))).)))((((((....)))))) ( -45.40)
>DroEre_CAF1 3862 119 + 1
GAAGCAACUA-CCAUGUCAUUGCCCACGACCAGAGCCACCACGGCCACGACCACUCACGCGGUGGUCCAGGCUGUGGAAACGUAUAUUCAGAACCAGAAUUUGCUCGGCGAGAUCGCUGA
...((((..(-(...))..)))).(((((.(...(((.((((((((..(((((((.....)))))))..))))))))....(((.((((.......)))).)))..)))..).))).)). ( -39.80)
>DroAna_CAF1 6046 119 + 1
GAAACCGCAA-GGAUGUCAUUGCCGGUGACGAAAGCCACAUCAGCCACUGCCACGCAUGCUGUAGUACAGGCCGUGGAGACCUACAUUCAAAACCAAAAUUUGCUCGGCGAGAUUGCCGA
(((.((....-))..(((.(((...(((.(....).)))..)))((((.(((..((........))...))).)))).))).....)))...............((((((....)))))) ( -31.30)
>consensus
_AA__CACUA_AAAUGUCAUUGCCCACGACCAAAGCCACCACGGCCACGACCACGCACGCUGUGGUCCAGGCUGUGGAAACGUAUAUUCAAAACCAAAAUUUGCUCGGCGAGAUCGCCGA
................((((.(((..........(((.....)))...((((((.......))))))..))).))))...........................((((((....)))))) (-19.11 = -19.03 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:32:38 2006