Locus 138

Sequence ID	X_DroMel_CAF1
Location	527,054 – 527,150
Length	96
Max. P	0.843343

overview

Window 6

Location	527,054 – 527,150
Length	96
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	81.19
Mean single sequence MFE	-23.89
Consensus MFE	-18.62
Energy contribution	-19.70
Covariance contribution	1.08
Combinations/Pair	1.10
Mean z-score	-1.82
Structure conservation index	0.78
SVM decision value	0.76
SVM RNA-class probability	0.843343
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 527054 96 + 22224390
CAGCCCCCUAGUUUUGCGCCCAGUUUUUCCUCUCUUUUUCACCGCUUAUCCGCU------------------------UGCCCAGUGCAAUUUAAUUAUGCAGAACUCACCACAGGGGGC
..((((((((((((((((.........................((......))(------------------------(((.....))))........)))))))))......))))))) ( -25.90)
>DroSec_CAF1 13632 100 + 1
CAGCCCCCUAGUUUUGCGCCCAGUUUUUCCUCUCUUUUUCACCGCUUAUCCGCU--------------------UGCUUGCCCAGUGCAAUUUAAUUAUGCAGAACUCGACACAGGGGGC
..((((((((((((((((.........................((......))(--------------------(((.........))))........)))))))))......))))))) ( -26.30)
>DroSim_CAF1 13948 96 + 1
CAGCCCCCUAGUUUUGCGCCCAGUUUUUCCUCUCUUUUUCACCGCUUAUCCGCU------------------------UGCCCAGUGCAAUUUAAUUAUGCAGAACUCGCCACAGGGGGC
..((((((((((((((((.........................((......))(------------------------(((.....))))........)))))))))......))))))) ( -25.90)
>DroEre_CAF1 18527 102 + 1
CAGCCCCCUAGUU-UGCGCCCACUUUUUCCUCUCAUUUCCGCCGCUUACCCC-----------------UUGCCCGCUUGCCUAGUGCAAUUUAAUUAUGCAGACCUCGCCGCAGGAGGU
..(((.(((.((.-.(((......................((.((.......-----------------..))..))((((.((((........)))).))))....))).))))).))) ( -16.10)
>DroYak_CAF1 12883 119 + 1
CAGCCCCCUAGUU-UGCGGCCACUUUUUUCUCUCUUUUCCACCGCUUACCCGCUUUCCCGAUUUCCCGAUUUCCCGCUUUUCCAGUGCAAUUUAAUUAUGCAGAACUCGCCACAGGGGGC
..(((((((.((.-.((((......................))))..)).........(((.(((.((......)).........((((.........))))))).)))....))))))) ( -25.25)
>consensus
CAGCCCCCUAGUUUUGCGCCCAGUUUUUCCUCUCUUUUUCACCGCUUAUCCGCU_____________________GCUUGCCCAGUGCAAUUUAAUUAUGCAGAACUCGCCACAGGGGGC
..((((((((((((((((.........................((......)).........................(((.....))).........)))))))))......))))))) (-18.62 = -19.70 +   1.08)

alignment

secondary structure

dotplot

Window 7

Location	527,054 – 527,150
Length	96
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	81.19
Mean single sequence MFE	-29.60
Consensus MFE	-21.08
Energy contribution	-22.24
Covariance contribution	1.16
Combinations/Pair	1.14
Mean z-score	-1.55
Structure conservation index	0.71
SVM decision value	0.07
SVM RNA-class probability	0.570883
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 527054 96 - 22224390
GCCCCCUGUGGUGAGUUCUGCAUAAUUAAAUUGCACUGGGCA------------------------AGCGGAUAAGCGGUGAAAAAGAGAGGAAAAACUGGGCGCAAAACUAGGGGGCUG
(((((((((..((.((((((((.........))))((...((------------------------.((......))..))....))............)))).))..)).))))))).. ( -29.20)
>DroSec_CAF1 13632 100 - 1
GCCCCCUGUGUCGAGUUCUGCAUAAUUAAAUUGCACUGGGCAAGCA--------------------AGCGGAUAAGCGGUGAAAAAGAGAGGAAAAACUGGGCGCAAAACUAGGGGGCUG
((((((((((((.((((((.(.........((((.....)))).((--------------------.((......))..)).......).)))...))).)))))......))))))).. ( -29.90)
>DroSim_CAF1 13948 96 - 1
GCCCCCUGUGGCGAGUUCUGCAUAAUUAAAUUGCACUGGGCA------------------------AGCGGAUAAGCGGUGAAAAAGAGAGGAAAAACUGGGCGCAAAACUAGGGGGCUG
(((((((((.(((...(((((.........((((.....)))------------------------))))))....((((................))))..)))...)).))))))).. ( -29.79)
>DroEre_CAF1 18527 102 - 1
ACCUCCUGCGGCGAGGUCUGCAUAAUUAAAUUGCACUAGGCAAGCGGGCAA-----------------GGGGUAAGCGGCGGAAAUGAGAGGAAAAAGUGGGCGCA-AACUAGGGGGCUG
.(((((((..(((...(((((.........((((.....))))((..((..-----------------...))..)).)))))..(....)...........))).-...)))))))... ( -25.70)
>DroYak_CAF1 12883 119 - 1
GCCCCCUGUGGCGAGUUCUGCAUAAUUAAAUUGCACUGGAAAAGCGGGAAAUCGGGAAAUCGGGAAAGCGGGUAAGCGGUGGAAAAGAGAGAAAAAAGUGGCCGCA-AACUAGGGGGCUG
(((((((....((..(((((((.........))))((((.....(((....))).....)))))))..))(((..(((((.(................).))))).-.)))))))))).. ( -33.39)
>consensus
GCCCCCUGUGGCGAGUUCUGCAUAAUUAAAUUGCACUGGGCAAGC_____________________AGCGGAUAAGCGGUGAAAAAGAGAGGAAAAACUGGGCGCAAAACUAGGGGGCUG
(((((((((.(((.((((((((.........))))..))))..........................((......)).........................)))...)).))))))).. (-21.08 = -22.24 +   1.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:35:58 2006