Locus 700

Sequence ID 3L_DroMel_CAF1
Location 2,097,679 – 2,097,782
Length 103
Max. P 0.590308
window1069 window1070

overview

Window 9

Location 2,097,679 – 2,097,782
Length 103
Sequences 4
Columns 103
Reading direction forward
Mean pairwise identity 98.54
Mean single sequence MFE -46.88
Consensus MFE -44.67
Energy contribution -44.67
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.73
Structure conservation index 0.95
SVM decision value 0.11
SVM RNA-class probability 0.590308
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2097679 103 + 23771897
GCUGCGCUGGACGUGCUGCUCGGUGCGGCUAAUCCUUUGCUCCUGGUGCUGCUCCUGGCUGGAGUGCGAGUACUCCUGGCUGGAGAACUGCUGCACCUGCUGG
(((((((((..(.....)..)))))))))....((...((....(((((.(((((..(((((((((....)))))).)))..).))...)).))))).)).)) ( -45.90)
>DroSec_CAF1 149197 103 + 1
GCUGCGCUGGACGUGCUGCUCGGUGCGGCUAAUCCUUUGCUCCUGGUGCUGCUCCUGGCUGGAGUGCGAGUACUCCUGGCUGGAGAACUGCUGCACCUGCUGG
(((((((((..(.....)..)))))))))....((...((....(((((.(((((..(((((((((....)))))).)))..).))...)).))))).)).)) ( -45.90)
>DroSim_CAF1 152367 103 + 1
GCUGCGCUGGACGUGCUGCUCGGUGCGGCUAAUCCUUUGCUCCUGGUGCUGCUCCUGGCUGGAGUGCGAGUACUCCUGGCUGGAGAACUGCUGCACCUGCUGG
(((((((((..(.....)..)))))))))....((...((....(((((.(((((..(((((((((....)))))).)))..).))...)).))))).)).)) ( -45.90)
>DroEre_CAF1 153616 103 + 1
GCUGCGCUGGACAUGCUGCUCGGUGCGGCUAAUCCUUUGCUCCUGGUGCUGCUCCUGGCUGGAGUGCGAGUACUCCUGGGUGGAGUACUGCUGCACCUGCUGG
(((((((((..(.....)..)))))))))....((...((....(((((.(((((.....)))))((.((((((((.....)))))))))).))))).)).)) ( -49.80)
>consensus
GCUGCGCUGGACGUGCUGCUCGGUGCGGCUAAUCCUUUGCUCCUGGUGCUGCUCCUGGCUGGAGUGCGAGUACUCCUGGCUGGAGAACUGCUGCACCUGCUGG
(((((((((..(.....)..)))))))))....((...((....(((((.(((((.....)))))((.(((.((((.....)))).))))).))))).)).)) (-44.67 = -44.67 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 2,097,679 – 2,097,782
Length 103
Sequences 4
Columns 103
Reading direction reverse
Mean pairwise identity 98.54
Mean single sequence MFE -38.65
Consensus MFE -37.50
Energy contribution -37.50
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -1.68
Structure conservation index 0.97
SVM decision value 0.09
SVM RNA-class probability 0.578473
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 2097679 103 - 23771897
CCAGCAGGUGCAGCAGUUCUCCAGCCAGGAGUACUCGCACUCCAGCCAGGAGCAGCACCAGGAGCAAAGGAUUAGCCGCACCGAGCAGCACGUCCAGCGCAGC
...((.(((((.(((((.((((.....)))).))).)).((((.....))))..)))))....((...((((..((.((.....)).))..)))).))))... ( -37.40)
>DroSec_CAF1 149197 103 - 1
CCAGCAGGUGCAGCAGUUCUCCAGCCAGGAGUACUCGCACUCCAGCCAGGAGCAGCACCAGGAGCAAAGGAUUAGCCGCACCGAGCAGCACGUCCAGCGCAGC
...((.(((((.(((((.((((.....)))).))).)).((((.....))))..)))))....((...((((..((.((.....)).))..)))).))))... ( -37.40)
>DroSim_CAF1 152367 103 - 1
CCAGCAGGUGCAGCAGUUCUCCAGCCAGGAGUACUCGCACUCCAGCCAGGAGCAGCACCAGGAGCAAAGGAUUAGCCGCACCGAGCAGCACGUCCAGCGCAGC
...((.(((((.(((((.((((.....)))).))).)).((((.....))))..)))))....((...((((..((.((.....)).))..)))).))))... ( -37.40)
>DroEre_CAF1 153616 103 - 1
CCAGCAGGUGCAGCAGUACUCCACCCAGGAGUACUCGCACUCCAGCCAGGAGCAGCACCAGGAGCAAAGGAUUAGCCGCACCGAGCAGCAUGUCCAGCGCAGC
...((.(((((.((((((((((.....)))))))).)).((((.....))))..)))))....((...((((..((.((.....)).))..)))).))))... ( -42.40)
>consensus
CCAGCAGGUGCAGCAGUUCUCCAGCCAGGAGUACUCGCACUCCAGCCAGGAGCAGCACCAGGAGCAAAGGAUUAGCCGCACCGAGCAGCACGUCCAGCGCAGC
...((.(((((.(((((.((((.....)))).))).)).((((.....))))..)))))....((...((((..((.((.....)).))..)))).))))... (-37.50 = -37.50 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:48:52 2006