Locus 5587

Sequence ID	X_DroMel_CAF1
Location	14,430,374 – 14,430,485
Length	111
Max. P	0.979807

overview

Window 0

Location	14,430,374 – 14,430,485
Length	111
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	75.26
Mean single sequence MFE	-25.42
Consensus MFE	-13.18
Energy contribution	-13.02
Covariance contribution	-0.16
Combinations/Pair	1.33
Mean z-score	-2.05
Structure conservation index	0.52
SVM decision value	1.11
SVM RNA-class probability	0.916530
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14430374 111 + 22224390
UUUAUUGCUACUCAAAAAAAAAAAAUGGUGCAAACCGGUUAUAAACCGAUUUUGAGUGGCUUGUGUGGUUAUUUAAUAACACCAAAUAAAUUGAUAAUAAAU---------AAUUACAUA
......(((((((((((.........(((....)))(((.....)))..))))))))))).((((((((((((((.((.((..........)).)).)))))---------))))))))) ( -30.40)
>DroSec_CAF1 9699 113 + 1
UUUAUUGCCACUCAAAUUGCAAA-------UUAACCGGUUAUAAGCCGAUUUUGAGUGGUUAGUGUGGUUAAUUAACAAUACCAAAUAGUGUGGUGAUGUUUUGAUACUUUUGUUAUAUA
..((((((((((((((.......-------.....((((.....))))..))))))))).))))).(((.....((((.(((((.......))))).)))).....)))........... ( -24.44)
>DroSim_CAF1 21010 113 + 1
UUUAUUGCCACUCAAAUUGCAAA-------UUAACCGGUUAUAAGCCGAUUUUGAGUGGUUAGUGUGGUUAAUUAACAAUACCAAAUAGUGUGGUGAUGUUUUGAUACUUUUGUUAUAUA
..((((((((((((((.......-------.....((((.....))))..))))))))).))))).(((.....((((.(((((.......))))).)))).....)))........... ( -24.44)
>DroEre_CAF1 9406 113 + 1
UGUAUUGCUACUGAGACCAAU-------UGCAAACCUGUUAUAAGCCGAUUUCGAGUGGUUCGUGUGGUUAAUUUAUAAUACCAAAUAAUGUGGUGAUGAUUUGAUACUAUUGCUAUAUA
.((((((((((...(((((.(-------((.(((.(.((.....)).).)))))).)))))...)))))........)))))......((((((..(((.........)))..)))))). ( -19.90)
>DroYak_CAF1 9591 108 + 1
UGUAUUGCCGCUAAAACCACU-------UGCAAACCGGUUAUAAGCCGAUUUCGAGUGGUUAGUGUGGUUAAAUAAUAACACCAAAUAAUUCGCUAUAGAUUUGAUACU-----UAUAUA
.((((((((((...(((((((-------((.(((.((((.....)))).))))))))))))...))))).....................((......))...))))).-----...... ( -27.90)
>consensus
UUUAUUGCCACUCAAACCACAAA_____UGCAAACCGGUUAUAAGCCGAUUUUGAGUGGUUAGUGUGGUUAAUUAAUAAUACCAAAUAAUGUGGUGAUGAUUUGAUACU_UUGUUAUAUA
......((((((((((...................((((.....))))..))))))))))..((((.(((....))).))))...................................... (-13.18 = -13.02 +  -0.16)

alignment

secondary structure

dotplot

Window 1

Location	14,430,374 – 14,430,485
Length	111
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	75.26
Mean single sequence MFE	-21.14
Consensus MFE	-9.16
Energy contribution	-10.32
Covariance contribution	1.16
Combinations/Pair	1.06
Mean z-score	-2.33
Structure conservation index	0.43
SVM decision value	1.85
SVM RNA-class probability	0.979807
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14430374 111 - 22224390
UAUGUAAUU---------AUUUAUUAUCAAUUUAUUUGGUGUUAUUAAAUAACCACACAAGCCACUCAAAAUCGGUUUAUAACCGGUUUGCACCAUUUUUUUUUUUUGAGUAGCAAUAAA
..(((..((---------(((((.((((((.....))))))....)))))))..)))...((.((((((((..(((.....)))(((....))).........)))))))).))...... ( -23.20)
>DroSec_CAF1 9699 113 - 1
UAUAUAACAAAAGUAUCAAAACAUCACCACACUAUUUGGUAUUGUUAAUUAACCACACUAACCACUCAAAAUCGGCUUAUAACCGGUUAA-------UUUGCAAUUUGAGUGGCAAUAAA
...................((((..((((.......))))..))))...............((((((((((((((.......)))))...-------.......)))))))))....... ( -20.70)
>DroSim_CAF1 21010 113 - 1
UAUAUAACAAAAGUAUCAAAACAUCACCACACUAUUUGGUAUUGUUAAUUAACCACACUAACCACUCAAAAUCGGCUUAUAACCGGUUAA-------UUUGCAAUUUGAGUGGCAAUAAA
...................((((..((((.......))))..))))...............((((((((((((((.......)))))...-------.......)))))))))....... ( -20.70)
>DroEre_CAF1 9406 113 - 1
UAUAUAGCAAUAGUAUCAAAUCAUCACCACAUUAUUUGGUAUUAUAAAUUAACCACACGAACCACUCGAAAUCGGCUUAUAACAGGUUUGCA-------AUUGGUCUCAGUAGCAAUACA
((((.(((.((((((((((((.((......)).))))))))))))............(((.....)))......)))))))...(..((((.-------((((....)))).))))..). ( -19.30)
>DroYak_CAF1 9591 108 - 1
UAUAUA-----AGUAUCAAAUCUAUAGCGAAUUAUUUGGUGUUAUUAUUUAACCACACUAACCACUCGAAAUCGGCUUAUAACCGGUUUGCA-------AGUGGUUUUAGCGGCAAUACA
......-----...............((........((((...........))))(.(((((((((.((((((((.......))))))).).-------))))))..))).)))...... ( -21.80)
>consensus
UAUAUAACAA_AGUAUCAAAUCAUCACCACAUUAUUUGGUAUUAUUAAUUAACCACACUAACCACUCAAAAUCGGCUUAUAACCGGUUUGCA_____UUUGUAAUUUGAGUGGCAAUAAA
....................................((((...........))))......((((((((((((((.......)))))).................))))))))....... ( -9.16 = -10.32 +   1.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:37 2006