Locus 941

Sequence ID	2L_DroMel_CAF1
Location	2,714,093 – 2,714,267
Length	174
Max. P	0.999346

overview

Window 4

Location	2,714,093 – 2,714,200
Length	107
Sequences	4
Columns	116
Reading direction	forward
Mean pairwise identity	84.28
Mean single sequence MFE	-23.18
Consensus MFE	-18.80
Energy contribution	-18.80
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-1.51
Structure conservation index	0.81
SVM decision value	0.14
SVM RNA-class probability	0.600635
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2714093 107 + 22407834
UGUGUUCUGACUGCUCCACUCCUUUUGAAUAUGCAGAACGUCACUUCCACUGCCGGCUGCUCCUCGAGCUGCUCGCACUCACCACACUCCUUGCA---------CUUCUCACACUU
.((((..(((((((..................))))..............(((.(((.((((...)))).))).))).)))..))))........---------............ ( -21.07)
>DroSec_CAF1 133021 116 + 1
UGUGAGCUGACUGCUCCACUCCUUUUGAAUAUGCAGAACGUCACUUCCACUGCCGGCCGCUCCUCGAGCUGCUCGCACUCCCCACACUCCUGGCACUCCUUUCACUCCUCACACUU
((((((.(((((((..................))))..............(((.(((.((((...)))).))).)))....(((......)))........)))...))))))... ( -23.97)
>DroSim_CAF1 136464 116 + 1
UGUGAGCUGACUGCGCCACUCCUUUUGAAUAUGCAGAACGUCACUUCCACUGCCGGCCGCUCCUCGAGCUGCUCGCACUCCCCACACUCCUUGCACUCCUUUCACUCCUCACACUU
((((((.((((((((....((.....))...)))))..............(((.(((.((((...)))).))).)))........................)))...))))))... ( -23.50)
>DroEre_CAF1 151171 97 + 1
UGUGAGUUGACUGCUCCACUCCUUUUGAAUAUGCAGGACGUCAUUUCCACUGCCGGCCGCUCCUCGAGCUGCUCGCACUCCUCACAG------------------UUCACAC-CCU
((((((..(.((((..................))))..............(((.(((.((((...)))).))).))))..)))))).------------------.......-... ( -24.17)
>consensus
UGUGAGCUGACUGCUCCACUCCUUUUGAAUAUGCAGAACGUCACUUCCACUGCCGGCCGCUCCUCGAGCUGCUCGCACUCCCCACACUCCUUGCA_________CUCCUCACACUU
((((......((((..................))))..............(((.(((.((((...)))).))).))).....)))).............................. (-18.80 = -18.80 +  -0.00)

alignment

secondary structure

dotplot

Window 5

Location	2,714,171 – 2,714,267
Length	96
Sequences	5
Columns	105
Reading direction	forward
Mean pairwise identity	75.42
Mean single sequence MFE	-25.22
Consensus MFE	-20.81
Energy contribution	-21.30
Covariance contribution	0.49
Combinations/Pair	1.05
Mean z-score	-3.39
Structure conservation index	0.83
SVM decision value	3.53
SVM RNA-class probability	0.999346
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2714171 96 + 22407834
UCACCACACUCCUUGCA---------CUUCUCACACUUUCCCCAAUAGGCGCAUGUCCUUGCAGCGAAUGCCAAGCAGCCGUUGCUCAUACGCCCUGUUGUCAGU
.................---------................(((((((((.(((.....((((((..(((...)))..)))))).))).)).)))))))..... ( -23.40)
>DroSec_CAF1 133099 105 + 1
UCCCCACACUCCUGGCACUCCUUUCACUCCUCACACUUUCCCCAAUAGCCGCGUGUCCUUGCAGCGACUGCCAAGCAGUCGUUGCUCAUACGCCCUGUUGUCAGU
...(((......)))...........................((((((..((((((....(((((((((((...)))))))))))..)))))).))))))..... ( -31.70)
>DroSim_CAF1 136542 105 + 1
UCCCCACACUCCUUGCACUCCUUUCACUCCUCACACUUUCCCUAAUAGCCGCGUGUCCUUGCAGCGACUGCCAAGCAGUCGUUGCUCAUACGCCCUGUUGUCAGU
..........................................((((((..((((((....(((((((((((...)))))))))))..)))))).))))))..... ( -29.00)
>DroEre_CAF1 151249 74 + 1
UCCUCACAG------------------UUCACAC-CCUUUCCCAAUAGCCGCGUGUCCUUGCAGC------CAA------GUUGCUCAUACGCCCUGUUGUCACU
.........------------------.......-.......((((((..((((((....(((((------...------)))))..)))))).))))))..... ( -16.20)
>DroYak_CAF1 140578 78 + 1
UCCUCACA---------------------------CUUUUCCCAAUAGCCGCGUGUCCUUGCAGCGACUGCCAAGCAGCCGUUGCUCAUACGCCCUGUUGUCAGU
........---------------------------.......((((((..((((((....((((((.((((...)))).))))))..)))))).))))))..... ( -25.80)
>consensus
UCCCCACACUCCU_GCA_________CUCCUCACACUUUCCCCAAUAGCCGCGUGUCCUUGCAGCGACUGCCAAGCAGCCGUUGCUCAUACGCCCUGUUGUCAGU
..........................................((((((..((((((....((((((.((((...)))).))))))..)))))).))))))..... (-20.81 = -21.30 +   0.49)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:49:16 2006