Locus 8632

Sequence ID	3L_DroMel_CAF1
Location	22,433,097 – 22,433,189
Length	92
Max. P	0.868378

overview

Window 4

Location	22,433,097 – 22,433,189
Length	92
Sequences	5
Columns	92
Reading direction	forward
Mean pairwise identity	78.81
Mean single sequence MFE	-14.51
Consensus MFE	-6.90
Energy contribution	-6.70
Covariance contribution	-0.20
Combinations/Pair	1.14
Mean z-score	-2.23
Structure conservation index	0.48
SVM decision value	0.86
SVM RNA-class probability	0.868378
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22433097 92 + 23771897
CAUCCCCCAACCAACACCACCCACCAUUACUUCACAAUCAAUGGGUGGCACUCGAGAAGAUUUAAUAUUUUCCUUUCCGCUUUACUUUAAGU
................(((((((..................))))))).......((((((.....))))))......((((......)))) ( -13.37)
>DroSec_CAF1 4973 77 + 1
CACCCCCC----------ACCCACCAUUACUUCACAAUCAAUGGGUGGCACUCGAGAAGAUUUAAUAUUUUCCUUUCCGCU-----UUAACU
......((----------(((((..................))))))).......((((((.....)))))).........-----...... ( -12.47)
>DroSim_CAF1 9956 82 + 1
CACCCCCC----------ACCAACCAUUACUUCACAAUCAAUGGGUGGCACUCGAGAAGAUUUAAUAUUUUCCUUUCCGCUUUACUUUAACU
........----------.....(((((...........)))))((((.....(.((((((.....)))))))...))))............ (  -9.00)
>DroEre_CAF1 10988 76 + 1
CAGCCCC----------------CCAUUUCUUCCCAAUCAAUGGGUGGCAGUCGGGAAGAUUUAAUCUUUUGCUCUCCGCCAUCCGUUGGCU
.......----------------..............((((((((((((((...(((((((...)))))))...))..)))))))))))).. ( -21.50)
>DroYak_CAF1 46687 76 + 1
CACCCCC----------------CUAUUACUUCCCAAUAAAUGGGUGGCACUCGGGAAGGCUUAAUAUUUUCCUCUCCGCUUUCCUUUAACU
(((((..----------------.((((.......))))...)))))......((((((((.................))))))))...... ( -16.23)
>consensus
CACCCCCC__________ACC_ACCAUUACUUCACAAUCAAUGGGUGGCACUCGAGAAGAUUUAAUAUUUUCCUUUCCGCUUUACUUUAACU
.......................(((((...........)))))((((.....(((((.........)))))....))))............ ( -6.90 =  -6.70 +  -0.20)

alignment

secondary structure

dotplot

Window 5

Location	22,433,097 – 22,433,189
Length	92
Sequences	5
Columns	92
Reading direction	reverse
Mean pairwise identity	78.81
Mean single sequence MFE	-21.66
Consensus MFE	-6.05
Energy contribution	-6.05
Covariance contribution	-0.00
Combinations/Pair	1.23
Mean z-score	-2.20
Structure conservation index	0.28
SVM decision value	0.73
SVM RNA-class probability	0.836652
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22433097 92 - 23771897
ACUUAAAGUAAAGCGGAAAGGAAAAUAUUAAAUCUUCUCGAGUGCCACCCAUUGAUUGUGAAGUAAUGGUGGGUGGUGUUGGUUGGGGGAUG
...............................((((((((.((..(((((((((.((((.....)))))))))))))..)).)..))))))). ( -25.20)
>DroSec_CAF1 4973 77 - 1
AGUUAA-----AGCGGAAAGGAAAAUAUUAAAUCUUCUCGAGUGCCACCCAUUGAUUGUGAAGUAAUGGUGGGU----------GGGGGGUG
......-----..((..((((...........))))..))...(((.((((((.((..(......)..)).)))----------))).))). ( -19.20)
>DroSim_CAF1 9956 82 - 1
AGUUAAAGUAAAGCGGAAAGGAAAAUAUUAAAUCUUCUCGAGUGCCACCCAUUGAUUGUGAAGUAAUGGUUGGU----------GGGGGGUG
.............((..((((...........))))..))...(((.(((((..((..(......)..))..))----------))).))). ( -21.20)
>DroEre_CAF1 10988 76 - 1
AGCCAACGGAUGGCGGAGAGCAAAAGAUUAAAUCUUCCCGACUGCCACCCAUUGAUUGGGAAGAAAUGG----------------GGGGCUG
((((..(((.(((.(((((.............)))))))).)))...((((((...........)))))----------------).)))). ( -22.52)
>DroYak_CAF1 46687 76 - 1
AGUUAAAGGAAAGCGGAGAGGAAAAUAUUAAGCCUUCCCGAGUGCCACCCAUUUAUUGGGAAGUAAUAG----------------GGGGGUG
.......((....(((..(((...........)))..)))....))((((.(((((((.....))))))----------------).)))). ( -20.20)
>consensus
AGUUAAAGGAAAGCGGAAAGGAAAAUAUUAAAUCUUCUCGAGUGCCACCCAUUGAUUGUGAAGUAAUGGU_GGU__________GGGGGGUG
.............(((.((((...........)))).)))...(((.(((...................................)))))). ( -6.05 =  -6.05 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:20:53 2006