Locus 3596

Sequence ID	3L_DroMel_CAF1
Location	10,582,903 – 10,583,045
Length	142
Max. P	0.998672

overview

Window 6

Location	10,582,903 – 10,583,005
Length	102
Sequences	5
Columns	102
Reading direction	forward
Mean pairwise identity	97.44
Mean single sequence MFE	-23.30
Consensus MFE	-20.24
Energy contribution	-20.64
Covariance contribution	0.40
Combinations/Pair	1.00
Mean z-score	-2.27
Structure conservation index	0.87
SVM decision value	2.18
SVM RNA-class probability	0.989863
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10582903 102 + 23771897
GAGGAGCUUAUCUUUUAUUACCAUGUAUUCAUUAGGUUCCUGUUCUUGUUUAUAUACCCUUUUUGGGGGGUAUAUGGUGCUUACUUCUGGAUUGCCUAAUUA
.(((((((((.....(((......))).....)))))))))......((((((((((((((....)))))))))))).))........((....))...... ( -24.40)
>DroSec_CAF1 462333 101 + 1
GAGGAGCUUAUCUUUUAUUACCAUGUAUUCAUUAGGUUCCUGUUCUUGUUUAUAUACCCUUUUUGG-GGGUAUAUUGUGCUUACUUCUGGAUUGCCUAAUUA
.(((((((((.....(((......))).....)))))))))......((..(((((((((.....)-))))))))...))........((....))...... ( -23.40)
>DroSim_CAF1 464690 101 + 1
GAGGAGCUUAUCUUUUAUUACCAUGUAUUCAUUAGGUUCCUGUUCUUGUUUAUAUACCCUUUUUGG-GGGUAUAUGGUGCUUACUUCUGGAUUGCCUAAUUA
.(((((((((.....(((......))).....)))))))))......(((((((((((((.....)-)))))))))).))........((....))...... ( -23.90)
>DroEre_CAF1 471830 101 + 1
GAGGAGCUUAUCUUUUAUUACCAUGUAUUCAUUAGGUUGCUGUUCUUGUUUAUAUACCCUUUUUGG-GGGUAUAUGGUGCUUACUUCUCGAUUGCCUAAUUA
((((((.............((((((....)))..)))..........(((((((((((((.....)-)))))))))).))...))))))............. ( -21.10)
>DroYak_CAF1 473764 101 + 1
GAGGAGCUUAUCUUUUAUUACCAUGUAUUCAUUAGGUUCCUGUUCUUGUUUAUAUACCCUUUUUGG-GGGUAUAUGGUGCUUACUUUCCGAUUGCCUAAUUA
.(((((((((.....(((......))).....)))))))))......(((((((((((((.....)-)))))))))).))...................... ( -23.70)
>consensus
GAGGAGCUUAUCUUUUAUUACCAUGUAUUCAUUAGGUUCCUGUUCUUGUUUAUAUACCCUUUUUGG_GGGUAUAUGGUGCUUACUUCUGGAUUGCCUAAUUA
.(((((((((.....(((......))).....)))))))))......((((((((((((........)))))))))).))...................... (-20.24 = -20.64 +   0.40)

alignment

secondary structure

dotplot

Window 7

Location	10,582,931 – 10,583,045
Length	114
Sequences	5
Columns	114
Reading direction	reverse
Mean pairwise identity	93.27
Mean single sequence MFE	-22.76
Consensus MFE	-18.90
Energy contribution	-18.78
Covariance contribution	-0.12
Combinations/Pair	1.08
Mean z-score	-3.01
Structure conservation index	0.83
SVM decision value	3.18
SVM RNA-class probability	0.998672
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 10582931 114 - 23771897
CAACAUUAGUCGGAAUUUCUCUCCCCAAAAUAGAUUAUCUUAAUUAGGCAAUCCAGAAGUAAGCACCAUAUACCCCCCAAAAAGGGUAUAUAAACAAGAACAGGAACCUAAUGA
...((((((..(((.......)))((......((((..((.....))..))))..............((((((((........))))))))...........))...)))))). ( -21.60)
>DroSec_CAF1 462361 112 - 1
CAACAUUAGUCGGAAUUUCUCCCACCA-AAUAGAUUAUCUUAAUUAGGCAAUCCAGAAGUAAGCACAAUAUACCC-CCAAAAAGGGUAUAUAAACAAGAACAGGAACCUAAUGA
...((((((..(((.....)))..((.-....((((..((.....))..))))..............((((((((-.......))))))))...........))...)))))). ( -21.80)
>DroSim_CAF1 464718 113 - 1
CAACAUUAGUCGGAAUUUCUCCCCCCAAAAUAGAUUAUCUUAAUUAGGCAAUCCAGAAGUAAGCACCAUAUACCC-CCAAAAAGGGUAUAUAAACAAGAACAGGAACCUAAUGA
...((((((..(((.....)))..((......((((..((.....))..))))..............((((((((-.......))))))))...........))...)))))). ( -21.60)
>DroEre_CAF1 471858 111 - 1
CAACAUUAGUCGGAAUUUA-CCCUCCA-CACUGAUUAUCUUAAUUAGGCAAUCGAGAAGUAAGCACCAUAUACCC-CCAAAAAGGGUAUAUAAACAAGAACAGCAACCUAAUGA
...((((((..((..((((-(.(((..-..(((((((...)))))))......)))..)))))..))((((((((-.......))))))))................)))))). ( -24.30)
>DroYak_CAF1 473792 111 - 1
CAACAUUAGUCGGAAUUUA-CCCACCA-AACUGGUUAUCUUAAUUAGGCAAUCGGAAAGUAAGCACCAUAUACCC-CCAAAAAGGGUAUAUAAACAAGAACAGGAACCUAAUGA
...((((((..((......-.)).((.-..((((((..((.....))..))))))............((((((((-.......))))))))...........))...)))))). ( -24.50)
>consensus
CAACAUUAGUCGGAAUUUCUCCCACCA_AAUAGAUUAUCUUAAUUAGGCAAUCCAGAAGUAAGCACCAUAUACCC_CCAAAAAGGGUAUAUAAACAAGAACAGGAACCUAAUGA
...((((((..((........)).((......((((..((.....))..))))..............((((((((........))))))))...........))...)))))). (-18.90 = -18.78 +  -0.12)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:01:51 2006