Locus 7146

Sequence ID	2L_DroMel_CAF1
Location	20,016,674 – 20,016,834
Length	160
Max. P	0.829546

overview

Window 9

Location	20,016,674 – 20,016,794
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	98.00
Mean single sequence MFE	-25.44
Consensus MFE	-25.18
Energy contribution	-25.22
Covariance contribution	0.04
Combinations/Pair	1.03
Mean z-score	-1.28
Structure conservation index	0.99
SVM decision value	0.71
SVM RNA-class probability	0.829546
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20016674 120 + 22407834
GGAGUCAUUUAAUAUGCCCACCUAACGGCAGCUAAACAUGCUCAACUGUCACUCCUCAGAGUCCUGACUAUGAGCUCGAAAUGCCGUCAUAAAACUUCACAAGCAUCUGGAAAGUAAAAC
((.(.(((.....)))))).....((((((.........(((((...(((((((....))))...)))..)))))......))))))......((((..((......))..))))..... ( -26.36)
>DroSec_CAF1 194160 120 + 1
GGAGUCAUUUAAUAUGCCCACCUAACGGCAGCUAAACAUGCUCAACUGUCACUCCUCAGAGUCCUGACUAUGAGCUCGAAAUGCCGUCAUAAAAUUUCACAAGCAUCUGGAAAGUAAAAC
((.(.(((.....)))))).....((((((.........(((((...(((((((....))))...)))..)))))......)))))).......((((.((......))))))....... ( -24.66)
>DroSim_CAF1 196854 120 + 1
GGAGUCAUUUAAUAUGCCCACCUAACGGCAGCUAAACAUGCUCAACUGUCACUCCUCAGAGUCCUGACUAUGAGCUCGCAAUGCCGUCAUAAAACUUCACAAGCAUCUGGAAAGUAAAAC
((.(.(((.....)))))).....((((((.........(((((...(((((((....))))...)))..)))))......))))))......((((..((......))..))))..... ( -26.36)
>DroEre_CAF1 191888 120 + 1
GGAGUCAUUUAAUAUGCCCACCUAACGGCAGCUAAACAUGCUCAACUGUCACUCCUCAAAGUCCUGACUAUGAGCUCGAAAUGCCGUCAUAAAACUUCACAAGCAUCUGGAAAGUAAAAC
((.(.(((.....)))))).....((((((.........(((((...((((.............))))..)))))......))))))......((((..((......))..))))..... ( -23.48)
>DroYak_CAF1 192648 120 + 1
GGAGUCAUUUAAUAUGCCCACCUAACGGCAGCUAAACAUGCUCAACUGUCACUCCACAGAGUCUCGACUAUGAGCUCGAAAUGCCGUCAUAAAACUUCACAAGCAUCUGGAAAGUAAAAC
((.(.(((.....)))))).....((((((.........(((((...(((((((....))))...)))..)))))......))))))......((((..((......))..))))..... ( -26.36)
>consensus
GGAGUCAUUUAAUAUGCCCACCUAACGGCAGCUAAACAUGCUCAACUGUCACUCCUCAGAGUCCUGACUAUGAGCUCGAAAUGCCGUCAUAAAACUUCACAAGCAUCUGGAAAGUAAAAC
((.(.(((.....)))))).....((((((.........(((((...(((((((....))))...)))..)))))......))))))......((((..((......))..))))..... (-25.18 = -25.22 +   0.04)

alignment

secondary structure

dotplot

Window 0

Location	20,016,714 – 20,016,834
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	97.33
Mean single sequence MFE	-32.52
Consensus MFE	-29.76
Energy contribution	-29.84
Covariance contribution	0.08
Combinations/Pair	1.05
Mean z-score	-1.24
Structure conservation index	0.92
SVM decision value	0.17
SVM RNA-class probability	0.615338
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 20016714 120 - 22407834
ACUUUAAGCAGUCAGGACCACAGCUAAUGCAUGUUAUAAAGUUUUACUUUCCAGAUGCUUGUGAAGUUUUAUGACGGCAUUUCGAGCUCAUAGUCAGGACUCUGAGGAGUGACAGUUGAG
(((((.((.((((..(((...(((((((((.(((((((((..(((((.............)))))..))))))))))))))...))))....)))..))))))..))))).......... ( -33.12)
>DroSec_CAF1 194200 120 - 1
ACUUUAAGCAGUCAGGACCACAGCUAAUGCAUGUUAUAAAGUUUUACUUUCCAGAUGCUUGUGAAAUUUUAUGACGGCAUUUCGAGCUCAUAGUCAGGACUCUGAGGAGUGACAGUUGAG
(((((.((.((((..(((...(((((((((.((((((((((((((((.............)))))))))))))))))))))...))))....)))..))))))..))))).......... ( -35.92)
>DroSim_CAF1 196894 120 - 1
ACUUUAAGCAGUCAGGACCACAGCUAAUGCAUGUUAUAAAGUUUUACUUUCCAGAUGCUUGUGAAGUUUUAUGACGGCAUUGCGAGCUCAUAGUCAGGACUCUGAGGAGUGACAGUUGAG
(((((.((.((((..(((...(((((((((.(((((((((..(((((.............)))))..))))))))))))))...))))....)))..))))))..))))).......... ( -33.12)
>DroEre_CAF1 191928 120 - 1
ACUUUAAGCAGUAAGGACCACAGCUAAUGCAUGUUAUAAAGUUUUACUUUCCAGAUGCUUGUGAAGUUUUAUGACGGCAUUUCGAGCUCAUAGUCAGGACUUUGAGGAGUGACAGUUGAG
.(((((.....)))))....((((((((((.(((((((((..(((((.............)))))..))))))))))))))(((..((((.(((....))).))))...))).))))).. ( -29.52)
>DroYak_CAF1 192688 120 - 1
ACUUUAAGCAGCCAGGACCACAGCUAAUGCAUGUUAUAAAGUUUUACUUUCCAGAUGCUUGUGAAGUUUUAUGACGGCAUUUCGAGCUCAUAGUCGAGACUCUGUGGAGUGACAGUUGAG
........((((.....(((((...(((((.(((((((((..(((((.............)))))..))))))))))))))..((((((......))).)))))))).......)))).. ( -30.92)
>consensus
ACUUUAAGCAGUCAGGACCACAGCUAAUGCAUGUUAUAAAGUUUUACUUUCCAGAUGCUUGUGAAGUUUUAUGACGGCAUUUCGAGCUCAUAGUCAGGACUCUGAGGAGUGACAGUUGAG
(((((.((.((((..(((...(((((((((.((((((((((((((((.............)))))))))))))))))))))...))))....)))..))))))..))))).......... (-29.76 = -29.84 +   0.08)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:28:36 2006