Locus 5355

Sequence ID 3R_DroMel_CAF1
Location 14,052,021 – 14,052,132
Length 111
Max. P 0.730645
window8731

overview

Window 1

Location 14,052,021 – 14,052,132
Length 111
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 86.17
Mean single sequence MFE -19.38
Consensus MFE -13.12
Energy contribution -13.16
Covariance contribution 0.04
Combinations/Pair 1.06
Mean z-score -2.14
Structure conservation index 0.68
SVM decision value 0.42
SVM RNA-class probability 0.730645
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14052021 111 + 27905053
AAUCAAAACC----CAACGAAAAGCUUU-CAUUCAAGUAAAAGCUCCCUCAGCGAAAGCAACCCUGUUCUCCCCCGCCC-CCACGGCAACAACAACAACAACAU-GGAUUCGCAAAUC
..........----...((((..(((((-.((....)).)))))(((....((....))................(((.-....))).................-)))))))...... ( -17.00)
>DroSec_CAF1 4675 115 + 1
AAUCGAAACCGAAUCAACCAAAAGCUUU-UGUUCAAGUAAAAGCUCCCACAGCGAUAGCAACCCUGUUCUCCCCCGCCC-CCAAGGCAACAACAACAACAACAU-GGAUUCGCAAAUC
.........((((((.......((((((-((......))))))))....((((....))................(((.-....)))................)-)))))))...... ( -19.10)
>DroSim_CAF1 4710 115 + 1
AAUCGAAACCGAAUCAACCAAAAGCUUU-UGUUCAAGUAAAAGCUCCCACAGCGAUAGCAACCCUGUUCUCCCCCGCCC-CCAAGGCAACAACAACAACAACAU-GGAUUCGCAAAUC
.........((((((.......((((((-((......))))))))....((((....))................(((.-....)))................)-)))))))...... ( -19.10)
>DroEre_CAF1 4668 113 + 1
AAUCA----CGAAUCAACCAAAAGCUUUUGUUCCUCGUGAAAGCUCU-UGAGCGAUAGCAACCCUGUACUCCCCCGCCCCCCACGGCAACAACAACAACAACAUGGGAUUCGCAAAUC
.....----((((((..(((...(((.((((((...((....))...-.)))))).)))................(((......)))................)))))))))...... ( -24.00)
>DroYak_CAF1 4671 107 + 1
AAUCA----CCAAUCAGCCAAAAGCUUU-GAUUCACGUAAAAGCUCU-AAAGCGAAAGCAACCCUGCUCUCCCCCGCCC-CCACGGCAACAACAACAA---CAU-GGAUUCGCAAAUC
.....----(((...(((....((((((-..........))))))..-...((....))......))).......(((.-....)))...........---..)-))........... ( -17.70)
>consensus
AAUCAAAACCGAAUCAACCAAAAGCUUU_GAUUCAAGUAAAAGCUCCCACAGCGAUAGCAACCCUGUUCUCCCCCGCCC_CCACGGCAACAACAACAACAACAU_GGAUUCGCAAAUC
......................((((((...........))))))......((((.((((....)))).......(((......)))......................))))..... (-13.12 = -13.16 +   0.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:52:47 2006