Locus 8362

Sequence ID	3R_DroMel_CAF1
Location	22,309,212 – 22,309,306
Length	94
Max. P	0.729048

overview

Window 2

Location	22,309,212 – 22,309,306
Length	94
Sequences	6
Columns	95
Reading direction	forward
Mean pairwise identity	87.70
Mean single sequence MFE	-29.20
Consensus MFE	-22.64
Energy contribution	-24.70
Covariance contribution	2.06
Combinations/Pair	1.04
Mean z-score	-2.59
Structure conservation index	0.78
SVM decision value	0.28
SVM RNA-class probability	0.664830
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22309212 94 + 27905053
AAUAUGCUGCUGCCCAUAAGCGAACUCAUUUCCGCUGAAAU-UUGGCACCAACUUUUGCAGUGCUGUGCAUUGCAGUGCACAGUGCCGCAGUGCA
....(((.(((((.....((((..........)))).....-..(((((......(((((((((...)))))))))......))))))))))))) ( -32.90)
>DroSec_CAF1 25633 94 + 1
AAUAUGCUGCUGCCCAUAAGCGAACUCAUUUCCGCUGAAAU-UUGGCACCAACUUUUGCAGUGCUGAGCAUUGCAGUGCACAGUGCCGCAGUGCA
....(((.(((((.....((((..........)))).....-..(((((......(((((((((...)))))))))......))))))))))))) ( -32.90)
>DroSim_CAF1 25114 94 + 1
AAUAUGCUGCUGCCCAUAAGCGAACUCAUUUCCGCUGAAAU-UUGGCACCAACUUUUGCAGUGCUGUGCAUUGCAGUGCACAGUGCCGCAGUGCA
....(((.(((((.....((((..........)))).....-..(((((......(((((((((...)))))))))......))))))))))))) ( -32.90)
>DroEre_CAF1 26671 94 + 1
AAUAUGCUGCUGCCCAUAAGCGAACUCAUUUCCGCUGAAAU-UUGGCACCAACUUUUGCAGUGCUGUGCAUUGCAGUGCAUAGUGCCGCAGUGCA
....(((.(((((.....((((..........)))).....-..(((((......(((((((((...)))))))))......))))))))))))) ( -32.90)
>DroWil_CAF1 28567 76 + 1
AAUAUGGUUCCUCCCAUAAACGAAUUCAUUUCCGUUGAAAUUUUGGCACCAACU-----------------CGCAAUGCACAGACCAACAG--CA
..(((((......)))))...............((((....(((((((......-----------------.....))).))))....)))--). ( -10.70)
>DroYak_CAF1 25452 94 + 1
AAUAUGCUGCUGCCCAUAAGCGAACUCAUUUCCGCUGAAAU-UUGGCACCAACUUUUGCAGUGCUGUGCAUUGCAGUGCACAGUGCCGCAGUGCA
....(((.(((((.....((((..........)))).....-..(((((......(((((((((...)))))))))......))))))))))))) ( -32.90)
>consensus
AAUAUGCUGCUGCCCAUAAGCGAACUCAUUUCCGCUGAAAU_UUGGCACCAACUUUUGCAGUGCUGUGCAUUGCAGUGCACAGUGCCGCAGUGCA
....(((.(((((.....((((..........))))........(((((......(((((((((...)))))))))......))))))))))))) (-22.64 = -24.70 +   2.06)

alignment

secondary structure

dotplot

Window 3

Location	22,309,212 – 22,309,306
Length	94
Sequences	6
Columns	95
Reading direction	reverse
Mean pairwise identity	87.70
Mean single sequence MFE	-31.55
Consensus MFE	-24.88
Energy contribution	-27.30
Covariance contribution	2.42
Combinations/Pair	1.07
Mean z-score	-2.55
Structure conservation index	0.79
SVM decision value	0.42
SVM RNA-class probability	0.729048
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 22309212 94 - 27905053
UGCACUGCGGCACUGUGCACUGCAAUGCACAGCACUGCAAAAGUUGGUGCCAA-AUUUCAGCGGAAAUGAGUUCGCUUAUGGGCAGCAGCAUAUU
.....(((((..(((((((......)))))))..)))))...((((.((((..-.....((((((......))))))....)))).))))..... ( -35.90)
>DroSec_CAF1 25633 94 - 1
UGCACUGCGGCACUGUGCACUGCAAUGCUCAGCACUGCAAAAGUUGGUGCCAA-AUUUCAGCGGAAAUGAGUUCGCUUAUGGGCAGCAGCAUAUU
((((.(((((((.(((.....))).))))..))).))))...((((.((((..-.....((((((......))))))....)))).))))..... ( -32.80)
>DroSim_CAF1 25114 94 - 1
UGCACUGCGGCACUGUGCACUGCAAUGCACAGCACUGCAAAAGUUGGUGCCAA-AUUUCAGCGGAAAUGAGUUCGCUUAUGGGCAGCAGCAUAUU
.....(((((..(((((((......)))))))..)))))...((((.((((..-.....((((((......))))))....)))).))))..... ( -35.90)
>DroEre_CAF1 26671 94 - 1
UGCACUGCGGCACUAUGCACUGCAAUGCACAGCACUGCAAAAGUUGGUGCCAA-AUUUCAGCGGAAAUGAGUUCGCUUAUGGGCAGCAGCAUAUU
(((.(((((((((((.....((((.(((...))).)))).....)))))))..-.....((((((......)))))).....))))..))).... ( -32.30)
>DroWil_CAF1 28567 76 - 1
UG--CUGUUGGUCUGUGCAUUGCG-----------------AGUUGGUGCCAAAAUUUCAACGGAAAUGAAUUCGUUUAUGGGAGGAACCAUAUU
..--(((((((..((.(((((...-----------------....))))))).....)))))))(((((....)))))((((......))))... ( -16.50)
>DroYak_CAF1 25452 94 - 1
UGCACUGCGGCACUGUGCACUGCAAUGCACAGCACUGCAAAAGUUGGUGCCAA-AUUUCAGCGGAAAUGAGUUCGCUUAUGGGCAGCAGCAUAUU
.....(((((..(((((((......)))))))..)))))...((((.((((..-.....((((((......))))))....)))).))))..... ( -35.90)
>consensus
UGCACUGCGGCACUGUGCACUGCAAUGCACAGCACUGCAAAAGUUGGUGCCAA_AUUUCAGCGGAAAUGAGUUCGCUUAUGGGCAGCAGCAUAUU
.....(((((..(((((((......)))))))..)))))...((((.((((...((...((((((......)))))).)).)))).))))..... (-24.88 = -27.30 +   2.42)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:09:41 2006