Locus 2519

Sequence ID	3L_DroMel_CAF1
Location	7,073,779 – 7,073,881
Length	102
Max. P	0.717312

overview

Window 2

Location	7,073,779 – 7,073,881
Length	102
Sequences	5
Columns	111
Reading direction	forward
Mean pairwise identity	88.89
Mean single sequence MFE	-30.92
Consensus MFE	-25.37
Energy contribution	-25.77
Covariance contribution	0.40
Combinations/Pair	1.07
Mean z-score	-1.54
Structure conservation index	0.82
SVM decision value	0.39
SVM RNA-class probability	0.717312
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7073779 102 + 23771897
----AGAUAUUGGGAGAGAGAGACGAUGGUUUUGCACUUCCGCCCCCCGAUUAGCUGGCCCAGUUUGCUUUUUGGGCUAC-----GCCACUCCACUUUCUAGAUACCCAAU
----....(((((((.((((((....(((....((......))...)))....((((((((((........)))))))).-----)).......))))))...).)))))) ( -28.70)
>DroSec_CAF1 86307 100 + 1
----AGAUAUUGGGAGA--GAGACGCUGGUUUGGCACUUCCGCCCCCCGAUUAGCUGGCCCAGUUUGCUUUUUGGGCUAC-----GCCACUCCACUUUCUAGCUACCCAAU
----....((((((((.--.(((.(.(((..((((......((..........))((((((((........)))))))).-----))))..))).).)))..)).)))))) ( -34.10)
>DroSim_CAF1 118999 100 + 1
----AGUUAUUGGGAGA--GAGACGUUGGUUUGGCACUUCCGCCCCCCGAUUAGCUGGCCCAGUUUGCUUUUUGGGCUAC-----GCCACUCCACUUUCUAGAUACCCAAU
----....(((((((((--(((..(((((...(((......)))..)))))..((((((((((........)))))))).-----)).......)))))).....)))))) ( -33.20)
>DroEre_CAF1 102517 100 + 1
----AUAUAUUGGGAGA--GAGACGAUGGCUUGGCACUUCCGCCCCCCGAUUGGCUGACCCAGUUGGCUUUUUGGGCAAC-----GCCACUCCACUUUCUAGAUACCCACU
----......(((((((--(((..((((((..(((......))).(((((..(((..((...))..)))..)))))....-----)))).))..)))))).....)))).. ( -34.40)
>DroYak_CAF1 101317 109 + 1
GAAGAUAUAUUGGAAGA--UAGACGAUGGCUUGGCACUUCCGCCCCCCGAUUAGCUGACCCAGUUUGCUAUUUGGGCCACUUCACUCCACUCCACUUUCUAGAUACCCAAU
........(((((....--((((.(.(((...(((......))).(((((.((((.(((...))).)))).)))))...............))).).)))).....))))) ( -24.20)
>consensus
____AGAUAUUGGGAGA__GAGACGAUGGUUUGGCACUUCCGCCCCCCGAUUAGCUGGCCCAGUUUGCUUUUUGGGCUAC_____GCCACUCCACUUUCUAGAUACCCAAU
........((((((......(((.(.(((..((((..........(((((..(((..((...))..)))..))))).........))))..))).).))).....)))))) (-25.37 = -25.77 +   0.40)

alignment

secondary structure

dotplot

Window 3

Location	7,073,779 – 7,073,881
Length	102
Sequences	5
Columns	111
Reading direction	reverse
Mean pairwise identity	88.89
Mean single sequence MFE	-33.66
Consensus MFE	-26.28
Energy contribution	-26.72
Covariance contribution	0.44
Combinations/Pair	1.12
Mean z-score	-1.64
Structure conservation index	0.78
SVM decision value	0.36
SVM RNA-class probability	0.703797
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 7073779 102 - 23771897
AUUGGGUAUCUAGAAAGUGGAGUGGC-----GUAGCCCAAAAAGCAAACUGGGCCAGCUAAUCGGGGGGCGGAAGUGCAAAACCAUCGUCUCUCUCUCCCAAUAUCU----
((((((.............((.((((-----...(((((..........)))))..)))).))(((((((((..((.....))..)))))))))...))))))....---- ( -33.50)
>DroSec_CAF1 86307 100 - 1
AUUGGGUAGCUAGAAAGUGGAGUGGC-----GUAGCCCAAAAAGCAAACUGGGCCAGCUAAUCGGGGGGCGGAAGUGCCAAACCAGCGUCUC--UCUCCCAAUAUCU----
((((((.((..(((...(((..((((-----...(((((..........)))))..)))).....((.((....)).))...)))...))).--.))))))))....---- ( -34.60)
>DroSim_CAF1 118999 100 - 1
AUUGGGUAUCUAGAAAGUGGAGUGGC-----GUAGCCCAAAAAGCAAACUGGGCCAGCUAAUCGGGGGGCGGAAGUGCCAAACCAACGUCUC--UCUCCCAAUAACU----
((((((.....(((...(((..((((-----...(((((..........)))))..)))).....((.((....)).))...)))...))).--...))))))....---- ( -33.70)
>DroEre_CAF1 102517 100 - 1
AGUGGGUAUCUAGAAAGUGGAGUGGC-----GUUGCCCAAAAAGCCAACUGGGUCAGCCAAUCGGGGGGCGGAAGUGCCAAGCCAUCGUCUC--UCUCCCAAUAUAU----
..((((.....(((..((((..((((-----(((((((.....(((.....)))...((....)).))))))...)))))..))))..))).--...))))......---- ( -34.20)
>DroYak_CAF1 101317 109 - 1
AUUGGGUAUCUAGAAAGUGGAGUGGAGUGAAGUGGCCCAAAUAGCAAACUGGGUCAGCUAAUCGGGGGGCGGAAGUGCCAAGCCAUCGUCUA--UCUUCCAAUAUAUCUUC
((((((....((((..((((..(((.....(((((((((..........))))))).)).........((....)).)))..))))..))))--...))))))........ ( -32.30)
>consensus
AUUGGGUAUCUAGAAAGUGGAGUGGC_____GUAGCCCAAAAAGCAAACUGGGCCAGCUAAUCGGGGGGCGGAAGUGCCAAACCAUCGUCUC__UCUCCCAAUAUCU____
((((((.....(((..((((..((((........(((((..........)))))..(((........)))......))))..))))..)))......))))))........ (-26.28 = -26.72 +   0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:34:43 2006