Locus 283

Sequence ID	3L_DroMel_CAF1
Location	801,238 – 801,348
Length	110
Max. P	0.930150

overview

Window 4

Location	801,238 – 801,348
Length	110
Sequences	5
Columns	114
Reading direction	forward
Mean pairwise identity	91.87
Mean single sequence MFE	-31.91
Consensus MFE	-24.95
Energy contribution	-24.71
Covariance contribution	-0.24
Combinations/Pair	1.16
Mean z-score	-2.14
Structure conservation index	0.78
SVM decision value	1.20
SVM RNA-class probability	0.930150
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 801238 110 + 23771897
AACCCGGCGCUUCAGGUUCAAAGAGAAAGACUCGGGUUCAAA--AGAACCAGCGAAGCGAACUUAACUCGAGUUAACCAAGACGAACCGA--GACAGGGCCAAAUACAAUUCGA
.....(((.((((.(((((.........(((((((((((...--.)))))((..(((....)))..)))))))).........)))))..--)).)).)))............. ( -29.27)
>DroSec_CAF1 164785 111 + 1
AGCCCGGCGCUUCAGGUUCAAAGAGAAAGACUCGGGUUCAAA--AGAACCAGCGAAGCGAACUUAACUCGAGUUAACCAAGACGAACCGAG-GACAGGGCCAAAUACAAUUCGA
.((((....((((.(((((.........(((((((((((...--.)))))((..(((....)))..)))))))).........))))))))-)...)))).............. ( -32.47)
>DroSim_CAF1 159439 112 + 1
AGCCCGGCGCUUCAGGUUCAAAGAGAAAGACUCGGGUUCAAA--AGAACCAGCGAAGCGAACUCAACUCGAGUUAACCAAGACGAACCGAGAGACAGGGCCAAAUGCAAUUCGA
.((((((((((((.........(((.....))).(((((...--.)))))...))))))(((((.....)))))..)).........(....)...)))).............. ( -32.20)
>DroEre_CAF1 164376 109 + 1
AGGCCGGCGCU-CGGGUUCAAAGAGAAAGACUCGGGUUCAAA--AGAACCAGCGAAGCGAACUUAACUUGAGUUAACCAAGACGAACCGA--GACAGGGCCAAAUCCAAUUCGA
.((((....((-(((((((...(((.....))).(((((...--.)))))........))))....((((.(....))))).....))))--)....))))............. ( -33.00)
>DroYak_CAF1 164313 112 + 1
AGAUCGGCGCUUUGGGUUCAAAGAGAAAGACUCGGUUUUGAACCCGAACCAGCGAAGCGAACUUAACUCGAGUUAACCAAGACGAACUGA--GACAGGGCCAAGUCCAAUUCGC
.......((((((((((((((((.((.....))..))))))))))))...))))..(((((.....(((.((((..........))))))--)...((((...))))..))))) ( -32.60)
>consensus
AGCCCGGCGCUUCAGGUUCAAAGAGAAAGACUCGGGUUCAAA__AGAACCAGCGAAGCGAACUUAACUCGAGUUAACCAAGACGAACCGA__GACAGGGCCAAAUACAAUUCGA
.....(((.((((.(((((.........(((((((((((......))))).((...))..........)))))).........)))))....)).)).)))............. (-24.95 = -24.71 +  -0.24)

alignment

secondary structure

dotplot

Window 5

Location	801,238 – 801,348
Length	110
Sequences	5
Columns	114
Reading direction	reverse
Mean pairwise identity	91.87
Mean single sequence MFE	-33.86
Consensus MFE	-25.06
Energy contribution	-25.54
Covariance contribution	0.48
Combinations/Pair	1.06
Mean z-score	-1.73
Structure conservation index	0.74
SVM decision value	-0.00
SVM RNA-class probability	0.532235
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 801238 110 - 23771897
UCGAAUUGUAUUUGGCCCUGUC--UCGGUUCGUCUUGGUUAACUCGAGUUAAGUUCGCUUCGCUGGUUCU--UUUGAACCCGAGUCUUUCUCUUUGAACCUGAAGCGCCGGGUU
.........(((((((.((.((--..((((((....((...((((((((.(((....))).)))(((((.--...))))))))))...))....)))))).)))).))))))). ( -32.10)
>DroSec_CAF1 164785 111 - 1
UCGAAUUGUAUUUGGCCCUGUC-CUCGGUUCGUCUUGGUUAACUCGAGUUAAGUUCGCUUCGCUGGUUCU--UUUGAACCCGAGUCUUUCUCUUUGAACCUGAAGCGCCGGGCU
.............(((((.((.-(((((((((....((...((((((((.(((....))).)))(((((.--...))))))))))...))....)))))).).)).)).))))) ( -34.50)
>DroSim_CAF1 159439 112 - 1
UCGAAUUGCAUUUGGCCCUGUCUCUCGGUUCGUCUUGGUUAACUCGAGUUGAGUUCGCUUCGCUGGUUCU--UUUGAACCCGAGUCUUUCUCUUUGAACCUGAAGCGCCGGGCU
.............(((((((..((..((((((....((...((((((((.(((....))).)))(((((.--...))))))))))...))....)))))).))..))..))))) ( -34.60)
>DroEre_CAF1 164376 109 - 1
UCGAAUUGGAUUUGGCCCUGUC--UCGGUUCGUCUUGGUUAACUCAAGUUAAGUUCGCUUCGCUGGUUCU--UUUGAACCCGAGUCUUUCUCUUUGAACCCG-AGCGCCGGCCU
.............((((..(((--((((((((....((...((((.(((.(((....))).)))(((((.--...))))).))))...))....)))).)))-)).)).)))). ( -32.80)
>DroYak_CAF1 164313 112 - 1
GCGAAUUGGACUUGGCCCUGUC--UCAGUUCGUCUUGGUUAACUCGAGUUAAGUUCGCUUCGCUGGUUCGGGUUCAAAACCGAGUCUUUCUCUUUGAACCCAAAGCGCCGAUCU
(((((((((((........)))--.)))))))).(((((.....(.(((.(((....))).))).)...(((((((((...(((.....)))))))))))).....)))))... ( -35.30)
>consensus
UCGAAUUGGAUUUGGCCCUGUC__UCGGUUCGUCUUGGUUAACUCGAGUUAAGUUCGCUUCGCUGGUUCU__UUUGAACCCGAGUCUUUCUCUUUGAACCUGAAGCGCCGGGCU
...........(((((.((.......((((((....((...((((((((.(((....))).)))(((((......))))))))))...))....))))))...)).)))))... (-25.06 = -25.54 +   0.48)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:38:17 2006