Locus 7208

Sequence ID	X_DroMel_CAF1
Location	18,047,453 – 18,047,613
Length	160
Max. P	0.792107

overview

Window 4

Location	18,047,453 – 18,047,573
Length	120
Sequences	3
Columns	120
Reading direction	forward
Mean pairwise identity	92.78
Mean single sequence MFE	-40.40
Consensus MFE	-38.22
Energy contribution	-38.80
Covariance contribution	0.58
Combinations/Pair	1.00
Mean z-score	-1.78
Structure conservation index	0.95
SVM decision value	0.59
SVM RNA-class probability	0.792107
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18047453 120 + 22224390
UUCGCGGAUCGUCGUCCUUCAAAUAGCCGUGUCCAUGUGCAUGUCCAUGUCCAUGACCAUGUCCGUGCCCAUGUCCGUGACCAUGUCCCUGGGCAUGCGGACGACUGAGCACCAUCUUGC
.....((.(((((((((........((.(((((((.(..((((..((((..((((..(((....)))..))))..))))..))))..).)))))))))))))))).))...))....... ( -43.60)
>DroSec_CAF1 35315 108 + 1
UUCGCGGAUCGUCGUCCUUCAAAUAGCCGUGUCCAUGUGCAUGUCCAUGUCCAUGACCAUGU------------CCGUGACCAUGUCCCUGGGCAUGCGAACGACUGAGCACCAUCUUGC
(((((((((....))))...........(((((((.(..((((..((((..(((....))).------------.))))..))))..).)))))))))))).......(((......))) ( -34.00)
>DroSim_CAF1 36419 120 + 1
UUCGCGGAUCGUCGUCCUUCAAAUAGCCGUGUCCAUGUGCAUGUCCAUGUCCAUGACCAUGUCCGUGCCCAUGUCCGUGACCAUGUCCCUGGGCAUGCGGACGACUGAGCACCAUCUUGC
.....((.(((((((((........((.(((((((.(..((((..((((..((((..(((....)))..))))..))))..))))..).)))))))))))))))).))...))....... ( -43.60)
>consensus
UUCGCGGAUCGUCGUCCUUCAAAUAGCCGUGUCCAUGUGCAUGUCCAUGUCCAUGACCAUGUCCGUGCCCAUGUCCGUGACCAUGUCCCUGGGCAUGCGGACGACUGAGCACCAUCUUGC
.....((.(((((((((..........(((....))).(((((((((.(..((((..((((..(((....)))..))))..))))..).)))))))))))))))).))...))....... (-38.22 = -38.80 +   0.58)

alignment

secondary structure

dotplot

Window 5

Location	18,047,493 – 18,047,613
Length	120
Sequences	3
Columns	120
Reading direction	reverse
Mean pairwise identity	92.78
Mean single sequence MFE	-49.17
Consensus MFE	-44.87
Energy contribution	-44.73
Covariance contribution	-0.14
Combinations/Pair	1.03
Mean z-score	-1.77
Structure conservation index	0.91
SVM decision value	0.29
SVM RNA-class probability	0.669216
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 18047493 120 - 22224390
CGCAUCAUGAUGGUCUACAGGCGGACCUGCGAGCGCCGCCGCAAGAUGGUGCUCAGUCGUCCGCAUGCCCAGGGACAUGGUCACGGACAUGGGCACGGACAUGGUCAUGGACAUGGACAU
....(((((((.((((....((((((..((((((((((.(....).)))))))).)).)))))).((((((.(..(........)..).)))))).))))...))))))).......... ( -51.90)
>DroSec_CAF1 35355 108 - 1
CGCAUCAUGAUGGUCUACAGGCGGACCUGCGAGCGCCGCCGCAAGAUGGUGCUCAGUCGUUCGCAUGCCCAGGGACAUGGUCACGG------------ACAUGGUCAUGGACAUGGACAU
.((...((((((((((......)))))...((((((((.(....).)))))))).)))))..))(((.(((.(..((((..((...------------...))..))))..).))).))) ( -43.70)
>DroSim_CAF1 36459 120 - 1
CGCAUCAUGAUGGUCUACAGGCGGACCUGCGAGCGCCGCCGCAAGAUGGUGCUCAGUCGUCCGCAUGCCCAGGGACAUGGUCACGGACAUGGGCACGGACAUGGUCAUGGACAUGGACAU
....(((((((.((((....((((((..((((((((((.(....).)))))))).)).)))))).((((((.(..(........)..).)))))).))))...))))))).......... ( -51.90)
>consensus
CGCAUCAUGAUGGUCUACAGGCGGACCUGCGAGCGCCGCCGCAAGAUGGUGCUCAGUCGUCCGCAUGCCCAGGGACAUGGUCACGGACAUGGGCACGGACAUGGUCAUGGACAUGGACAU
.((((.....((.....)).((((((..((((((((((.(....).)))))))).)).))))))))))(((.(..((((..((.(..(........)..).))..))))..).))).... (-44.87 = -44.73 +  -0.14)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:32:48 2006