Locus 7355

Sequence ID	2L_DroMel_CAF1
Location	20,500,218 – 20,500,309
Length	91
Max. P	0.924454

overview

Window 7

Location	20,500,218 – 20,500,309
Length	91
Sequences	6
Columns	91
Reading direction	forward
Mean pairwise identity	81.54
Mean single sequence MFE	-33.10
Consensus MFE	-14.47
Energy contribution	-18.02
Covariance contribution	3.54
Combinations/Pair	1.07
Mean z-score	-2.92
Structure conservation index	0.44
SVM decision value	0.18
SVM RNA-class probability	0.619369
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20500218 91 + 22407834
GCAUGGGCCUGGCAUUAGGUAUAAUUUACCUAACCAGCGUCUGGCGCUACUCAGCGCAGGUCACCUGCGCUAAAGUGGUGACCCAAACCGC
((..((((((((..(((((((.....))))))))))).))))(((((((((.((((((((...))))))))..))))))).))......)) ( -41.90)
>DroSec_CAF1 17193 91 + 1
GCGUGGGCCUGGCAUUAGGUAUAAUUUACCUAACCAGCGUCUGGCGCUACUCAGCGCAGGUCACCUACGCUAAAGUGGUGACCCAAACCGC
(((.((((((((..(((((((.....))))))))))).)))).(((((....))))).(((((((.((......))))))))).....))) ( -40.00)
>DroSim_CAF1 22296 91 + 1
GCGUGGGCCUGGCAUUAGGUAUAAUUUACCUAACCAGCGUCUGGCGCUACUCAGCGCAGGUCACCUACGCUAAAGUGGUGACCCAAACCGC
(((.((((((((..(((((((.....))))))))))).)))).(((((....))))).(((((((.((......))))))))).....))) ( -40.00)
>DroEre_CAF1 16281 91 + 1
GCGUGGGUCUGGCAUUACGUAUAAUUUACCUAACCAGCCUCUGCCGCCUCUCGGCGCAGGUCACCUGCGCUGAAGUGGUGACCCCAACCGC
(((.(((((.(((.(((.(((.....))).)))...)))...(((((...((((((((((...)))))))))).))))))))))....))) ( -38.50)
>DroYak_CAF1 16387 91 + 1
GCGUGAGUCUAGCAUUAAGUAUAAUUUACCUAACCAGCGUCUGCCGCUUCUCAACGCAGGUAACCUCCGCUAAGGUGGUGACCCAAACCGC
(((((((...(((.(((.(((.....))).)))...((....)).))).))).)))).(((.(((.((.....)).))).)))........ ( -24.20)
>DroAna_CAF1 9082 70 + 1
GCCUGGUUCUGGCAUUAAAUAUAAUUUACCUAACCAAAGUCUGG-GCCAC--------------------UCAAGUGGAGACUGAAACCGA
...(((((..((.((((....))))...)).))))).(((((..-.((((--------------------....)))))))))........ ( -14.00)
>consensus
GCGUGGGCCUGGCAUUAGGUAUAAUUUACCUAACCAGCGUCUGGCGCUACUCAGCGCAGGUCACCUACGCUAAAGUGGUGACCCAAACCGC
(((((((.((((..(((.(((.....))).)))))))..((((.((((....))))))))...)))))))....(((((.......))))) (-14.47 = -18.02 +   3.54)

alignment

secondary structure

dotplot

Window 8

Location	20,500,218 – 20,500,309
Length	91
Sequences	6
Columns	91
Reading direction	reverse
Mean pairwise identity	81.54
Mean single sequence MFE	-35.12
Consensus MFE	-25.90
Energy contribution	-26.78
Covariance contribution	0.88
Combinations/Pair	1.38
Mean z-score	-2.73
Structure conservation index	0.74
SVM decision value	1.16
SVM RNA-class probability	0.924454
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20500218 91 - 22407834
GCGGUUUGGGUCACCACUUUAGCGCAGGUGACCUGCGCUGAGUAGCGCCAGACGCUGGUUAGGUAAAUUAUACCUAAUGCCAGGCCCAUGC
...((.((((((.....(((((((((((...)))))))))))(((((.....)))))((((((((.....))))))))....)))))).)) ( -39.30)
>DroSec_CAF1 17193 91 - 1
GCGGUUUGGGUCACCACUUUAGCGUAGGUGACCUGCGCUGAGUAGCGCCAGACGCUGGUUAGGUAAAUUAUACCUAAUGCCAGGCCCACGC
(((((((((((((((((......)).))))))).(((((....)))))))))).(((((((((((.....))))))..))))).....))) ( -40.40)
>DroSim_CAF1 22296 91 - 1
GCGGUUUGGGUCACCACUUUAGCGUAGGUGACCUGCGCUGAGUAGCGCCAGACGCUGGUUAGGUAAAUUAUACCUAAUGCCAGGCCCACGC
(((((((((((((((((......)).))))))).(((((....)))))))))).(((((((((((.....))))))..))))).....))) ( -40.40)
>DroEre_CAF1 16281 91 - 1
GCGGUUGGGGUCACCACUUCAGCGCAGGUGACCUGCGCCGAGAGGCGGCAGAGGCUGGUUAGGUAAAUUAUACGUAAUGCCAGACCCACGC
(((....(((((((((((((.(((((((...)))))(((....))).)).)))).))))..((((............)))).))))).))) ( -40.40)
>DroYak_CAF1 16387 91 - 1
GCGGUUUGGGUCACCACCUUAGCGGAGGUUACCUGCGUUGAGAAGCGGCAGACGCUGGUUAGGUAAAUUAUACUUAAUGCUAGACUCACGC
(((...(((((((((..(((((((.(((...))).))))))).((((.....)))))))((((((.....))))))......))))))))) ( -32.10)
>DroAna_CAF1 9082 70 - 1
UCGGUUUCAGUCUCCACUUGA--------------------GUGGC-CCAGACUUUGGUUAGGUAAAUUAUAUUUAAUGCCAGAACCAGGC
..(((((.(((((((((....--------------------)))).-..))))).((((((((((.....))))))..))))))))).... ( -18.10)
>consensus
GCGGUUUGGGUCACCACUUUAGCGCAGGUGACCUGCGCUGAGUAGCGCCAGACGCUGGUUAGGUAAAUUAUACCUAAUGCCAGACCCACGC
(((....(((((.....(((((((((((...))))))))))).((((.....))))(((((((((.....))))))..))).))))).))) (-25.90 = -26.78 +   0.88)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:34:37 2006