Locus 4672

Sequence ID 2R_DroMel_CAF1
Location 15,281,588 – 15,281,684
Length 96
Max. P 0.911731
window7514 window7515

overview

Window 4

Location 15,281,588 – 15,281,684
Length 96
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 75.99
Mean single sequence MFE -23.75
Consensus MFE -16.80
Energy contribution -16.72
Covariance contribution -0.08
Combinations/Pair 1.05
Mean z-score -1.49
Structure conservation index 0.71
SVM decision value 1.08
SVM RNA-class probability 0.911731
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15281588 96 + 20766785
GGGUCAGUUGACGCUGUUGUUUUCAUAAGUUGUUGCC----UUUGUU------------------GCAUUUGUUUUGGCAUGUUUAUUGCACUGUCAACGGCA-AUGCAUGAAAAGUU-U
(.(((....))).).....(((((((..(((((((..----......------------------((....)).(((((((((.....))).)))))))))))-))..)))))))...-. ( -20.80)
>DroPse_CAF1 112616 73 + 1
GGGUCAGUUGACGC---------------------------UUUGUU------------------GCAUUUGUUUUGGCAUGUUUAUUGCACUGUCAACGACA-AUGCAUGAAAAGUU-U
..(((....)))((---------------------------(((..(------------------(((((.((((((((((((.....))).)))))).))))-)))))...))))).-. ( -21.30)
>DroSec_CAF1 90932 96 + 1
GGGCCAGUUGACGCUGUUGUUUUCAUAAGUUGUUGUC----UUUGUU------------------GCAUUUGUUUUGGCAUGUUUAUUGCACUGUCAACGGCA-AUGCAUGAAAAGUU-U
....((((....))))...(((((((..((((((((.----......------------------((....))..((((((((.....))).)))))))))))-))..)))))))...-. ( -19.80)
>DroWil_CAF1 171622 102 + 1
CAGUCAGUUGACGCUGUUGUUUUCAUAAGUUGCUGCUGCUGUUUGUU------------------GCAUUUGUUUUGGCAUGUUUAUUGCACUGUCAACGACAAAUGCAUGGAAAACUUU
..(((....)))......(((((((((((..((....))..)))))(------------------((((((((((((((((((.....))).)))))).))))))))))..))))))... ( -30.70)
>DroAna_CAF1 63665 114 + 1
GGGUCAGUUGACGCUAUUGUUCCCAUAAGUUGUUGGU----AUUGUUGGUGCUGGUGGGGGUGCUGCAUUUGUUUUGGCAUGUUUAUUGCACUGUCAACGGCA-AUGCAUGAAAAGUU-U
(((.((((.......))))..)))....((((((((.----.....((((((.((((((.(((((((....))...))))).)))))))))))))))))))).-..............-. ( -28.60)
>DroPer_CAF1 71147 73 + 1
GGGUCAGUUGACGC---------------------------UUUGUU------------------GCAUUUGUUUUGGCAUGUUUAUUGCACUGUCAACGACA-AUGCAUGAAAAGUU-U
..(((....)))((---------------------------(((..(------------------(((((.((((((((((((.....))).)))))).))))-)))))...))))).-. ( -21.30)
>consensus
GGGUCAGUUGACGCUGUUGUUUUCAUAAGUUGUUG______UUUGUU__________________GCAUUUGUUUUGGCAUGUUUAUUGCACUGUCAACGACA_AUGCAUGAAAAGUU_U
..(((....))).....................................................((((.(((((((((((((.....))).)))))).)))).))))............ (-16.80 = -16.72 +  -0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 15,281,588 – 15,281,684
Length 96
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 75.99
Mean single sequence MFE -16.08
Consensus MFE -8.32
Energy contribution -8.48
Covariance contribution 0.17
Combinations/Pair 1.07
Mean z-score -1.90
Structure conservation index 0.52
SVM decision value 0.57
SVM RNA-class probability 0.784412
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 15281588 96 - 20766785
A-AACUUUUCAUGCAU-UGCCGUUGACAGUGCAAUAAACAUGCCAAAACAAAUGC------------------AACAAA----GGCAACAACUUAUGAAAACAACAGCGUCAACUGACCC
.-...(((((((((((-((.......))))))........((((...........------------------......----)))).......))))))).......(((....))).. ( -16.43)
>DroPse_CAF1 112616 73 - 1
A-AACUUUUCAUGCAU-UGUCGUUGACAGUGCAAUAAACAUGCCAAAACAAAUGC------------------AACAAA---------------------------GCGUCAACUGACCC
.-.........(((((-((((...)))))))))....................((------------------......---------------------------))(((....))).. ( -14.30)
>DroSec_CAF1 90932 96 - 1
A-AACUUUUCAUGCAU-UGCCGUUGACAGUGCAAUAAACAUGCCAAAACAAAUGC------------------AACAAA----GACAACAACUUAUGAAAACAACAGCGUCAACUGGCCC
.-..............-.(((((((((.(.(((.......)))).........((------------------....((----(.......))).((....))...)))))))).))).. ( -13.90)
>DroWil_CAF1 171622 102 - 1
AAAGUUUUCCAUGCAUUUGUCGUUGACAGUGCAAUAAACAUGCCAAAACAAAUGC------------------AACAAACAGCAGCAGCAACUUAUGAAAACAACAGCGUCAACUGACUG
...((((((..(((((((((..(((.((((.......)).)).))).))))))))------------------).......((....)).......))))))......(((....))).. ( -21.90)
>DroAna_CAF1 63665 114 - 1
A-AACUUUUCAUGCAU-UGCCGUUGACAGUGCAAUAAACAUGCCAAAACAAAUGCAGCACCCCCACCAGCACCAACAAU----ACCAACAACUUAUGGGAACAAUAGCGUCAACUGACCC
.-..............-....((((((.((((........(((..........))))))).((((..((..........----........))..)))).........))))))...... ( -15.67)
>DroPer_CAF1 71147 73 - 1
A-AACUUUUCAUGCAU-UGUCGUUGACAGUGCAAUAAACAUGCCAAAACAAAUGC------------------AACAAA---------------------------GCGUCAACUGACCC
.-.........(((((-((((...)))))))))....................((------------------......---------------------------))(((....))).. ( -14.30)
>consensus
A_AACUUUUCAUGCAU_UGCCGUUGACAGUGCAAUAAACAUGCCAAAACAAAUGC__________________AACAAA______CAACAACUUAUGAAAACAACAGCGUCAACUGACCC
..................(((((((((.(.(((.......))))....(....)......................................................)))))).))).. ( -8.32 =  -8.48 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:26:20 2006