Locus 5058

Sequence ID	3L_DroMel_CAF1
Location	13,854,768 – 13,854,873
Length	105
Max. P	0.972965

overview

Window 9

Location	13,854,768 – 13,854,873
Length	105
Sequences	6
Columns	112
Reading direction	forward
Mean pairwise identity	77.67
Mean single sequence MFE	-33.37
Consensus MFE	-24.07
Energy contribution	-25.43
Covariance contribution	1.36
Combinations/Pair	1.04
Mean z-score	-2.26
Structure conservation index	0.72
SVM decision value	1.70
SVM RNA-class probability	0.972965
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13854768 105 + 23771897
AAUAUUUAUGCG----AGCGUA---AAUAUUUUGUGGGAUGCUUACCUUCAGCGCCUCCUCGUGAUUGAUUGAGGUGAAGGGGGUGCCAUUCACCUCUAGGAUUGUAUCACC
((((((((((..----..))))---))))))....(((((((...((((((((((......))).))))..((((((((.((....)).)))))))).)))...))))).)) ( -33.90)
>DroVir_CAF1 26435 95 + 1
-------UUGUA-------GAA---AAUCAUUUGCAGUUUGCUCACCUUAAGCGCCUCCUCGUGAUUGAUUGAGGUGAAUGGCGUGCCGUUCACCUCUAGGAUUGUAUCACC
-------(((((-------((.---.....)))))))...(((.......)))........(((((((((((((((((((((....)))))))))))...))))).))))). ( -29.00)
>DroPse_CAF1 18813 108 + 1
AAUAUAUAGGCU----UGUUUGUGGGCUAUUUCGAUGGAUGCUCACCUUCAGCGCCUCCUCGUGAUUGAUUGAGGUGAAUGGGGUGCCGUUCACCUCUAGGAUUGUAUCACC
.......(((((----((...((((((.(((......)))))))))...))).))))....(((((((((((((((((((((....)))))))))))...))))).))))). ( -38.90)
>DroMoj_CAF1 21715 86 + 1
--------------------------AGCAUUUGCAGUUAGCUCACCUUAAGCGCCUCCUCGUGAUUGAUUGAAGUGAAUGGCGUGCCGUUCACCUCUAGGAUUGUAUCACC
--------------------------.((....)).....(((.......)))........((((((((((((.((((((((....)))))))).))...))))).))))). ( -21.10)
>DroAna_CAF1 17536 107 + 1
AAUA--UAUGCGAUUCAGUGUA---UAUAUUUCGAGAGAUGCUCACCUUCAACGCCUCCUCGUGAUUGAUGGAGGUGAAUGGGGUGCCGUUCACCUCUAGGAUUGUAUCACC
((((--((((((......))))---))))))......(((((...((.(((((((......))).))))(((((((((((((....)))))))))))))))...)))))... ( -38.40)
>DroPer_CAF1 11122 108 + 1
AAUAUAUAGGCU----UGUUUGUGGGCUAUUUCGAUGGAUGCUCACCUUCAGCGCCUCCUCGUGAUUGAUUGAGGUGAAUGGGGUGCCGUUCACCUCUAGGAUUGUAUCACC
.......(((((----((...((((((.(((......)))))))))...))).))))....(((((((((((((((((((((....)))))))))))...))))).))))). ( -38.90)
>consensus
AAUA__UAUGCG_____GUGUA___AAUAUUUCGAAGGAUGCUCACCUUCAGCGCCUCCUCGUGAUUGAUUGAGGUGAAUGGGGUGCCGUUCACCUCUAGGAUUGUAUCACC
.....................................(((((...((((((((((......))).))))..(((((((((((....))))))))))).)))...)))))... (-24.07 = -25.43 +   1.36)

alignment

secondary structure

dotplot

Window 0

Location	13,854,768 – 13,854,873
Length	105
Sequences	6
Columns	112
Reading direction	reverse
Mean pairwise identity	77.67
Mean single sequence MFE	-26.47
Consensus MFE	-19.12
Energy contribution	-19.51
Covariance contribution	0.39
Combinations/Pair	1.10
Mean z-score	-1.45
Structure conservation index	0.72
SVM decision value	0.84
SVM RNA-class probability	0.863052
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 13854768 105 - 23771897
GGUGAUACAAUCCUAGAGGUGAAUGGCACCCCCUUCACCUCAAUCAAUCACGAGGAGGCGCUGAAGGUAAGCAUCCCACAAAAUAUU---UACGCU----CGCAUAAAUAUU
((.(((....(((..((((((((.((....)).))))))))..((......)))))...(((.......))))))))....((((((---((.(..----..).)))))))) ( -26.70)
>DroVir_CAF1 26435 95 - 1
GGUGAUACAAUCCUAGAGGUGAACGGCACGCCAUUCACCUCAAUCAAUCACGAGGAGGCGCUUAAGGUGAGCAAACUGCAAAUGAUU---UUC-------UACAA-------
.(((...........((((((((.((....)).))))))))....(((((...(.((..((((.....))))...)).)...)))))---...-------)))..------- ( -24.30)
>DroPse_CAF1 18813 108 - 1
GGUGAUACAAUCCUAGAGGUGAACGGCACCCCAUUCACCUCAAUCAAUCACGAGGAGGCGCUGAAGGUGAGCAUCCAUCGAAAUAGCCCACAAACA----AGCCUAUAUAUU
(((.......(((..((((((((.((....)).))))))))..((......)))))((.((((..((((......))))....)))))).......----.)))........ ( -29.40)
>DroMoj_CAF1 21715 86 - 1
GGUGAUACAAUCCUAGAGGUGAACGGCACGCCAUUCACUUCAAUCAAUCACGAGGAGGCGCUUAAGGUGAGCUAACUGCAAAUGCU--------------------------
.(((((.........((((((((.((....)).)))))))).....)))))..(.((..((((.....))))...)).).......-------------------------- ( -21.14)
>DroAna_CAF1 17536 107 - 1
GGUGAUACAAUCCUAGAGGUGAACGGCACCCCAUUCACCUCCAUCAAUCACGAGGAGGCGUUGAAGGUGAGCAUCUCUCGAAAUAUA---UACACUGAAUCGCAUA--UAUU
.(((((.((......((((((((.((....)).)))))))).........((((((.((...........)).)).)))).......---.....)).)))))...--.... ( -27.90)
>DroPer_CAF1 11122 108 - 1
GGUGAUACAAUCCUAGAGGUGAACGGCACCCCAUUCACCUCAAUCAAUCACGAGGAGGCGCUGAAGGUGAGCAUCCAUCGAAAUAGCCCACAAACA----AGCCUAUAUAUU
(((.......(((..((((((((.((....)).))))))))..((......)))))((.((((..((((......))))....)))))).......----.)))........ ( -29.40)
>consensus
GGUGAUACAAUCCUAGAGGUGAACGGCACCCCAUUCACCUCAAUCAAUCACGAGGAGGCGCUGAAGGUGAGCAUCCAUCAAAAUAUC___UACAC_____AGCAUA__UAUU
.(((((.........((((((((.((....)).)))))))).....)))))..(((.((...........)).))).................................... (-19.12 = -19.51 +   0.39)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:41:00 2006