Locus 8348

Sequence ID 3L_DroMel_CAF1
Location 21,895,699 – 21,895,838
Length 139
Max. P 0.953135
window13659 window13660

overview

Window 9

Location 21,895,699 – 21,895,798
Length 99
Sequences 3
Columns 111
Reading direction reverse
Mean pairwise identity 87.58
Mean single sequence MFE -24.83
Consensus MFE -19.17
Energy contribution -19.50
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.02
Structure conservation index 0.77
SVM decision value 0.13
SVM RNA-class probability 0.596858
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21895699 99 - 23771897
ACUACAAACAUUGAAUUGUUUGUAAAGUAUGUUUGAUCAGUUAAAUGAUCGGAACAUUUACGCAGUU------------CGUCAUGAACAGAUUACACUGGUGUCAUUAUU
............(((((((..(((((.....((((((((......))))))))...)))))))))))------------)...((((.(((......)))...)))).... ( -22.20)
>DroSec_CAF1 16385 108 - 1
ACUACAAACAUUGAAUUGUUUGUAAAGUGUGUUUGAUCAGUUAAAUGAUCGUUACAUUUACACAGUUUGAAGUGCUUCUCGCCAUGAACAGAUUACACUGGUGUCA---UU
..((((((((......))))))))(((((((..((((((......)))))).)))))))(((((((.(((..((.(((.......)))))..))).))).))))..---.. ( -26.20)
>DroSim_CAF1 16557 108 - 1
ACUACAAACAUUGAAUUGUUUGUAAAGUGUGUUUGAUCAGUUAAAUGAUCGUUACAUUUACACAGUUUAAAGUGCUUCUCGCCAUGAACAGAUUACACUGGUGUCA---UU
..((((((((......))))))))(((((((..((((((......)))))).)))))))(((((((.(((..((.(((.......)))))..))).))).))))..---.. ( -26.10)
>consensus
ACUACAAACAUUGAAUUGUUUGUAAAGUGUGUUUGAUCAGUUAAAUGAUCGUUACAUUUACACAGUUU_AAGUGCUUCUCGCCAUGAACAGAUUACACUGGUGUCA___UU
..((((((((......))))))))((((((...((((((......))))))..)))))).........................(((.(((......)))...)))..... (-19.17 = -19.50 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 21,895,731 – 21,895,838
Length 107
Sequences 5
Columns 111
Reading direction reverse
Mean pairwise identity 78.36
Mean single sequence MFE -29.08
Consensus MFE -17.09
Energy contribution -18.78
Covariance contribution 1.69
Combinations/Pair 1.18
Mean z-score -2.26
Structure conservation index 0.59
SVM decision value 1.43
SVM RNA-class probability 0.953135
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 21895731 107 - 23771897
UGCGGGCUACAACCGAGGCAAAGGUGGGCUACUCGAGUUGACUACAAACAUUGAAUUGUUUGUAAAGUAUGUUUGAUCAGUUAAAUGAUCGGAACAUUUACGCAGUU----
((((.(((.((((((((((........))..)))).))))..((((((((......)))))))).)))(((((((((((......))))).))))))...))))...---- ( -32.60)
>DroSec_CAF1 16422 111 - 1
AGCGGGCUACAACCGAGACAAUGGUGGGCUACUCGAGUUCACUACAAACAUUGAAUUGUUUGUAAAGUGUGUUUGAUCAGUUAAAUGAUCGUUACAUUUACACAGUUUGAA
..(((.......)))((((..(((((((((.....)))))))((((((((......))))))))(((((((..((((((......)))))).))))))).))..))))... ( -31.30)
>DroSim_CAF1 16594 111 - 1
AGCGGGCUACAACCGAGACAAUGGUGGGCUACUCGAGUUCACUACAAACAUUGAAUUGUUUGUAAAGUGUGUUUGAUCAGUUAAAUGAUCGUUACAUUUACACAGUUUAAA
..(((.......)))((((..(((((((((.....)))))))((((((((......))))))))(((((((..((((((......)))))).))))))).))..))))... ( -31.30)
>DroEre_CAF1 14607 88 - 1
AGCGAUCUACACCCGGGACAAGGGUGGGCUACUCGAGUUUUCUACA-ACAUGGAAUUGU-------------UUGAUCAGUUCAAUGAUCAUUACA---------UUUUAA
...((((..(((((.......)))))((((..(((((..(((((..-...)))))...)-------------))))..))))....))))......---------...... ( -19.70)
>DroYak_CAF1 20052 110 - 1
AGUCAACUACACAAGAGACACAGGUGGGCUACUCGAGCUUACUACA-ACAUUGAAUUGUUUGUGAAGUAUGUUUGAUCAGUUCAAUGAUCAUUACAUGCACGACCUUUUAA
.(((..............((((((((((((.....))))))))..(-(((......))))))))..((((((.((((((......))))))..))))))..)))....... ( -30.50)
>consensus
AGCGGGCUACAACCGAGACAAAGGUGGGCUACUCGAGUUCACUACAAACAUUGAAUUGUUUGUAAAGUAUGUUUGAUCAGUUAAAUGAUCGUUACAUUUACACAGUUUUAA
..(((.......)))(((((..((((((((.....))))))))(((((((......)))))))......)))))(((((......)))))..................... (-17.09 = -18.78 +   1.69)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:13:11 2006