Locus 7190

Sequence ID	3L_DroMel_CAF1
Location	19,300,117 – 19,300,222
Length	105
Max. P	0.894988

overview

Window 9

Location	19,300,117 – 19,300,222
Length	105
Sequences	3
Columns	115
Reading direction	forward
Mean pairwise identity	88.72
Mean single sequence MFE	-39.20
Consensus MFE	-31.50
Energy contribution	-32.50
Covariance contribution	1.00
Combinations/Pair	1.00
Mean z-score	-2.63
Structure conservation index	0.80
SVM decision value	0.82
SVM RNA-class probability	0.859589
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19300117 105 + 23771897
UGCUGAGAAAGGCGCACAGAAGAAAGACUUGAAGACUUGUAGACUCGGCAGCGAAGAGCCAGCUACAGUCUUUUCAAGCGCGGCUUGAGUCUUCGCCCUCUUUCU----------
....((((.(((.((...(((((.......(((((((.((((.((.(((........))))))))))))))))((((((...)))))).)))))))))).)))).---------- ( -35.60)
>DroSec_CAF1 133512 107 + 1
UGCUGAGAAAGGCGCACAGAAGAAAGA--------CUUGUAGACUCGGCAGCGAAGAGCCAGCUACAGUCUUUUCAAGCCCGGCUUGAGUCUUCGCCCUCUUUCUCCGCACUUUG
(((.((((((((.((...(((((((((--------((.((((.((.(((........)))))))))))))))(((((((...)))))))))))))).).))))))).)))..... ( -41.00)
>DroSim_CAF1 149992 107 + 1
UGCUGAGAAAGGCGCACAGAAGAAAGA--------CUUGUAGACUCGGCAGCGAAGAGCCAGCUACAGUCUUUUCAAGCCCGGCUUGAGUCUUCGCCCUCUUUCUCCGCACUUUG
(((.((((((((.((...(((((((((--------((.((((.((.(((........)))))))))))))))(((((((...)))))))))))))).).))))))).)))..... ( -41.00)
>consensus
UGCUGAGAAAGGCGCACAGAAGAAAGA________CUUGUAGACUCGGCAGCGAAGAGCCAGCUACAGUCUUUUCAAGCCCGGCUUGAGUCUUCGCCCUCUUUCUCCGCACUUUG
.((.((((((((.((...(((((.............((((((.((.(((........)))))))))))....(((((((...)))))))))))))).).))))))).))...... (-31.50 = -32.50 +   1.00)

alignment

secondary structure

dotplot

Window 0

Location	19,300,117 – 19,300,222
Length	105
Sequences	3
Columns	115
Reading direction	reverse
Mean pairwise identity	88.72
Mean single sequence MFE	-40.60
Consensus MFE	-33.10
Energy contribution	-34.10
Covariance contribution	1.00
Combinations/Pair	1.00
Mean z-score	-2.73
Structure conservation index	0.82
SVM decision value	0.98
SVM RNA-class probability	0.894988
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 19300117 105 - 23771897
----------AGAAAGAGGGCGAAGACUCAAGCCGCGCUUGAAAAGACUGUAGCUGGCUCUUCGCUGCCGAGUCUACAAGUCUUCAAGUCUUUCUUCUGUGCGCCUUUCUCAGCA
----------.((.(((((((((((((((((((...)))))).(((((((((((((((........))).)).)))).))))))...)))))).......)).))))).)).... ( -35.61)
>DroSec_CAF1 133512 107 - 1
CAAAGUGCGGAGAAAGAGGGCGAAGACUCAAGCCGGGCUUGAAAAGACUGUAGCUGGCUCUUCGCUGCCGAGUCUACAAG--------UCUUUCUUCUGUGCGCCUUUCUCAGCA
.....(((.(((((((.(.(((.(((.((((((...))))))((((((((((((((((........))).)).)))).))--------)))))..))).))).)))))))).))) ( -43.10)
>DroSim_CAF1 149992 107 - 1
CAAAGUGCGGAGAAAGAGGGCGAAGACUCAAGCCGGGCUUGAAAAGACUGUAGCUGGCUCUUCGCUGCCGAGUCUACAAG--------UCUUUCUUCUGUGCGCCUUUCUCAGCA
.....(((.(((((((.(.(((.(((.((((((...))))))((((((((((((((((........))).)).)))).))--------)))))..))).))).)))))))).))) ( -43.10)
>consensus
CAAAGUGCGGAGAAAGAGGGCGAAGACUCAAGCCGGGCUUGAAAAGACUGUAGCUGGCUCUUCGCUGCCGAGUCUACAAG________UCUUUCUUCUGUGCGCCUUUCUCAGCA
......((.(((((((.(.(((((((.((((((...))))))......((((((((((........))).)).)))))..............))))).)).)..))))))).)). (-33.10 = -34.10 +   1.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:40:27 2006