Locus 3569

Sequence ID 3L_DroMel_CAF1
Location 10,488,663 – 10,488,759
Length 96
Max. P 0.757430
window5564 window5565

overview

Window 4

Location 10,488,663 – 10,488,759
Length 96
Sequences 4
Columns 102
Reading direction forward
Mean pairwise identity 85.71
Mean single sequence MFE -27.31
Consensus MFE -19.05
Energy contribution -18.99
Covariance contribution -0.06
Combinations/Pair 1.23
Mean z-score -1.40
Structure conservation index 0.70
SVM decision value -0.07
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10488663 96 + 23771897
AUCUCUUUCGGUCGGCCAGCGGCUUUCUCUUUCUGACCGCCG--U----GUGCCAGCCAUUUGCAUUUCAAAUUUAGCAGCGUCGUGGUGCCCGCUUUUCCG
........(((.((((..(((((..((.......))..))))--)----..))).(((((((((............))))....)))))).)))........ ( -24.00)
>DroSec_CAF1 365344 96 + 1
AUCUCUUUCGGCCGGCCAGCAGCUUACUCUUUCUGGCUGCUG--U----GUGCCACCCAUUUGCAUUUCAAAUUCAGCAGCGUCGUGGUGGCCGCUUUCCCA
........(((((.((((((((((..........))))))))--.----))(((((....((((............))))....))))))))))........ ( -32.60)
>DroEre_CAF1 375172 98 + 1
AUCUCUUUCGGCCAGCCAGCGGCGUUCUCUUUCACACUGUU----GUGUGUGCCACCCAUUUGCAUUUCAAAUUUAGCAGCGUCGUGGUGCCCGCUUUUCCG
.........(((..((((.((((((.......(((((....----)))))(((.....(((((.....)))))...)))))))))))))))).......... ( -25.00)
>DroYak_CAF1 376132 102 + 1
AUCUCUUUCGGCCAGCCAGCAGCUUUCUCUUUCACACUGCUGCGUGUGUGUGCCACCCAUUUGCAUUUCAAAUUUAGCAGCCUCGUGGCGCCCGCUUUUCCG
........(((...((((((((..............)))))).))(((.(((((((....((((............))))....))))))).)))....))) ( -27.64)
>consensus
AUCUCUUUCGGCCAGCCAGCAGCUUUCUCUUUCACACUGCUG__U____GUGCCACCCAUUUGCAUUUCAAAUUUAGCAGCGUCGUGGUGCCCGCUUUUCCG
.........((..(((((((((..............)))))).......(((((((....((((............))))....)))))))..)))...)). (-19.05 = -18.99 +  -0.06)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 5

Location 10,488,663 – 10,488,759
Length 96
Sequences 4
Columns 102
Reading direction reverse
Mean pairwise identity 85.71
Mean single sequence MFE -31.12
Consensus MFE -21.10
Energy contribution -21.73
Covariance contribution 0.62
Combinations/Pair 1.17
Mean z-score -1.97
Structure conservation index 0.68
SVM decision value 0.49
SVM RNA-class probability 0.757430
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10488663 96 - 23771897
CGGAAAAGCGGGCACCACGACGCUGCUAAAUUUGAAAUGCAAAUGGCUGGCAC----A--CGGCGGUCAGAAAGAGAAAGCCGCUGGCCGACCGAAAGAGAU
(((...((((..........))))(((..(((((.....))))))))((((.(----(--((((..((.......))..)))).)))))).)))........ ( -27.10)
>DroSec_CAF1 365344 96 - 1
UGGGAAAGCGGCCACCACGACGCUGCUGAAUUUGAAAUGCAAAUGGGUGGCAC----A--CAGCAGCCAGAAAGAGUAAGCUGCUGGCCGGCCGAAAGAGAU
........(((((........((..((..(((((.....))))).))..))..----.--(((((((............)))))))...)))))........ ( -32.70)
>DroEre_CAF1 375172 98 - 1
CGGAAAAGCGGGCACCACGACGCUGCUAAAUUUGAAAUGCAAAUGGGUGGCACACAC----AACAGUGUGAAAGAGAACGCCGCUGGCUGGCCGAAAGAGAU
(((...(((.(((........((..((..(((((.....))))).))..)).(((((----....)))))............))).)))..)))........ ( -30.90)
>DroYak_CAF1 376132 102 - 1
CGGAAAAGCGGGCGCCACGAGGCUGCUAAAUUUGAAAUGCAAAUGGGUGGCACACACACGCAGCAGUGUGAAAGAGAAAGCUGCUGGCUGGCCGAAAGAGAU
(((...(((.((((((((..(..(((............)))..)..)))))...(((((......)))))............))).)))..)))........ ( -33.80)
>consensus
CGGAAAAGCGGGCACCACGACGCUGCUAAAUUUGAAAUGCAAAUGGGUGGCAC____A__CAGCAGUCAGAAAGAGAAAGCCGCUGGCCGGCCGAAAGAGAU
.......((.(((........((((((..(((((.....))))).)))))).........(((((((............)))))))))).))(....).... (-21.10 = -21.73 +   0.62)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:01:11 2006