Locus 6845

Sequence ID	3R_DroMel_CAF1
Location	18,112,212 – 18,112,347
Length	135
Max. P	0.896877

overview

Window 9

Location	18,112,212 – 18,112,314
Length	102
Sequences	6
Columns	107
Reading direction	reverse
Mean pairwise identity	82.58
Mean single sequence MFE	-26.85
Consensus MFE	-17.22
Energy contribution	-17.55
Covariance contribution	0.33
Combinations/Pair	1.00
Mean z-score	-1.81
Structure conservation index	0.64
SVM decision value	0.02
SVM RNA-class probability	0.542002
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18112212 102 - 27905053
AAGGAAAAGUCUCAAGACGGCGACGUCUUUCGCAGAGUUUUCCA-UGACUACCACUCCCACUCGCCAGAAUCAAUCCACAAUAUCGAACUGUGAGAGAG----AGUC
..((((((.((((((((((....))))))..).))).)))))).-........((((.(.(((((.((..((.............)).))))))).).)----))). ( -27.42)
>DroSec_CAF1 142993 100 - 1
AAGGAAAAGUCUCAAGACGGCGACGUCUUUCGCAGAGUUUUCCA-UGACUCCCACUCCCACGCGCCAGAAUCAAUCCAGAA--UCGAACUGCGAGAGAG----AGUC
..((((((.((((((((((....))))))..).))).)))))).-.(((((...(((...((((...((.((......)).--))....)))).))).)----)))) ( -31.10)
>DroSim_CAF1 147773 100 - 1
AAGGAAAAGUCUCAAGACGGCGACGUCUUUCGCAGAGUUUUCCA-UGACUCCCACUCCCACUUGCCAGAAUCAAUCCACAA--UCGAACUGCGAGAGAG----AGUC
..((((((.((((((((((....))))))..).))).)))))).-........((((.(.(((((.((..((.........--..)).))))))).).)----))). ( -27.40)
>DroEre_CAF1 152889 103 - 1
AAGGAAAAGUCUCAAGACGGCGACGUCUUUCGCAGAGUUUUCCAGUUACUCCCACUCCAC--CACAAGAAUCAGUCCACAA--UCGAACUGUGAGGGAGAGUGAGUC
..((((((.((((((((((....))))))..).))).))))))....((((.(.((((..--((((...............--......))))..)))).).)))). ( -32.80)
>DroYak_CAF1 150953 98 - 1
AAGGAAAAGUCUCAAGACGGCGACGUCUUUCGCAGAGUUUUCCA-UGACGCCCACUCCGC--CACAAGAAUCAGUCCACAA--UCGAACUGUAAGAGAG----AGUC
..((((((.((((((((((....))))))..).))).)))))).-.(((((.......))--.........((((.(....--..).))))........----.))) ( -22.30)
>DroAna_CAF1 138425 86 - 1
AAGGAAAAGUCUCAAGACGGCGACGUCUUUCCCA---UUUUCCCCUU--CCCCACCCCGC-----C--GAUCAAUUCACAA--UCA---UCAGACCGGG----AGUC
..((((((.....((((((....)))))).....---))))))....--....((((((.-----.--((.....))....--((.---...)).))))----.)). ( -20.10)
>consensus
AAGGAAAAGUCUCAAGACGGCGACGUCUUUCGCAGAGUUUUCCA_UGACUCCCACUCCCA__CGCCAGAAUCAAUCCACAA__UCGAACUGUGAGAGAG____AGUC
..((((((.(((.((((((....))))))....))).))))))................................................................ (-17.22 = -17.55 +   0.33)

alignment

secondary structure

dotplot

Window 0

Location	18,112,245 – 18,112,347
Length	102
Sequences	6
Columns	104
Reading direction	reverse
Mean pairwise identity	84.58
Mean single sequence MFE	-25.18
Consensus MFE	-20.62
Energy contribution	-21.45
Covariance contribution	0.83
Combinations/Pair	1.00
Mean z-score	-2.56
Structure conservation index	0.82
SVM decision value	0.99
SVM RNA-class probability	0.896877
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 18112245 102 - 27905053
AAAAAAAAUCA-AGGGGCAAAGAAAAUUAUGCAAAAGGAAAAGUCUCAAGACGGCGACGUCUUUCGCAGAGUUUUCCA-UGACUACCACUCCCACUCGCCAGAA
...........-.((((((..........)))....((((((.((((((((((....))))))..).))).)))))).-...........)))........... ( -25.10)
>DroSec_CAF1 143024 100 - 1
AA--AAAAUCA-AGGGGCAAGGAAAAUUAUGCAAAAGGAAAAGUCUCAAGACGGCGACGUCUUUCGCAGAGUUUUCCA-UGACUCCCACUCCCACGCGCCAGAA
..--.......-.((((((.((((((((.(((.....((......))((((((....))))))..))).)))))))).-)).).)))................. ( -27.60)
>DroSim_CAF1 147804 100 - 1
AA--AAAAUCA-AGGGGCAAAGAAAAUUAUGCAAAAGGAAAAGUCUCAAGACGGCGACGUCUUUCGCAGAGUUUUCCA-UGACUCCCACUCCCACUUGCCAGAA
..--.....((-(((((((..........)))....((((((.((((((((((....))))))..).))).)))))).-............)).))))...... ( -25.20)
>DroEre_CAF1 152924 99 - 1
AA--AAAAUCA-AGGGGCAAAGAAAAUUAUGCAAAAGGAAAAGUCUCAAGACGGCGACGUCUUUCGCAGAGUUUUCCAGUUACUCCCACUCCAC--CACAAGAA
..--.......-.((((((..........)))....((((((.((((((((((....))))))..).))).)))))).......))).......--........ ( -25.10)
>DroYak_CAF1 150984 98 - 1
AA--AAAAUCA-AGGGGCAAAGAAAAUUAUGCUAAAGGAAAAGUCUCAAGACGGCGACGUCUUUCGCAGAGUUUUCCA-UGACGCCCACUCCGC--CACAAGAA
..--.......-..((((..((.........))...((((((.((((((((((....))))))..).))).)))))).-....)))).......--........ ( -25.40)
>DroAna_CAF1 138453 85 - 1
-------GUUAGGAAGGCAAAGAAAAUUAUGCAAAAGGAAAAGUCUCAAGACGGCGACGUCUUUCCCA---UUUUCCCCUU--CCCCACCCCGC-----C--GA
-------((..((((((((..........)))....((((((.....((((((....)))))).....---)))))).)))--))..)).....-----.--.. ( -22.70)
>consensus
AA__AAAAUCA_AGGGGCAAAGAAAAUUAUGCAAAAGGAAAAGUCUCAAGACGGCGACGUCUUUCGCAGAGUUUUCCA_UGACUCCCACUCCCA__CGCCAGAA
.............((((((..........)))....((((((.(((.((((((....))))))....))).)))))).......)))................. (-20.62 = -21.45 +   0.83)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:31:22 2006