Locus 490

Sequence ID	2R_DroMel_CAF1
Location	2,702,854 – 2,702,975
Length	121
Max. P	0.999385

overview

Window 3

Location	2,702,854 – 2,702,945
Length	91
Sequences	5
Columns	91
Reading direction	forward
Mean pairwise identity	94.62
Mean single sequence MFE	-27.00
Consensus MFE	-24.52
Energy contribution	-24.96
Covariance contribution	0.44
Combinations/Pair	1.12
Mean z-score	-2.31
Structure conservation index	0.91
SVM decision value	3.56
SVM RNA-class probability	0.999385
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2702854 91 + 20766785
GGGGCAUAGCUCUUUGUGGCGCAUGUGAAUCAUGCACAAGUGCCGCUUUUCCCAUUCGGAGACCGGUUUUCCCCACUUACCCACUACUCAU
((((...((((....(((((((.((((.......)))).))))))).(((((.....)))))..))))..))))................. ( -29.30)
>DroSec_CAF1 17749 88 + 1
GGGCCAGAGCUCUUUGUGCCACAUGUGAAUCAUGCACAAGUGCCGCUUUUCCCAUUCGGAGACCGGUUUUCCCCACUUACCCA---CUCAU
(((..((.....(((((((...(((.....)))))))))).((((..(((((.....))))).))))........))..))).---..... ( -20.30)
>DroSim_CAF1 15154 88 + 1
GGGCCAGAGCUCUUUGUGGCACAUGUGAAUCAUGCACAAGUGCCGCUUUUCCCAUUCGGAGACCGGUUUUCCCCACUUACCCA---CUCAU
(((..((((((....(((((((.((((.......)))).))))))).(((((.....)))))..)))))).))).........---..... ( -27.30)
>DroEre_CAF1 15181 88 + 1
GGGGCAGAGCUCUUUGUGGCACAUGUGAAUCAUGCACAAGUGCCCCUUUUCCCAUUCGAAGACCGGUUUUCCCCACUUACCCA---CUCAU
((((.(((((((((((.(((((.((((.......)))).)))))............))))))...))))))))).........---..... ( -26.22)
>DroYak_CAF1 14876 88 + 1
GGGGAAGAGCUCUUUGUGGCACAUGUGAAUCAUGCGCAAGUGCCGCUUUUCCCAUUCGAAGACCGGUUUUCCCCACUUACCCA---CUCAU
((((((((.(.....(((((((.((((.......)))).)))))))(((((......)))))..).)))))))).........---..... ( -31.90)
>consensus
GGGGCAGAGCUCUUUGUGGCACAUGUGAAUCAUGCACAAGUGCCGCUUUUCCCAUUCGGAGACCGGUUUUCCCCACUUACCCA___CUCAU
((((.((((((....(((((((.((((.......)))).)))))))(((((......)))))..))))))))))................. (-24.52 = -24.96 +   0.44)

alignment

secondary structure

dotplot

Window 4

Location	2,702,865 – 2,702,975
Length	110
Sequences	5
Columns	110
Reading direction	forward
Mean pairwise identity	96.12
Mean single sequence MFE	-24.44
Consensus MFE	-22.63
Energy contribution	-22.91
Covariance contribution	0.28
Combinations/Pair	1.09
Mean z-score	-1.28
Structure conservation index	0.93
SVM decision value	0.63
SVM RNA-class probability	0.804680
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2702865 110 + 20766785
CUUUGUGGCGCAUGUGAAUCAUGCACAAGUGCCGCUUUUCCCAUUCGGAGACCGGUUUUCCCCACUUACCCACUACUCAUUGGGCUCUAAUCACACCCGCUGUCUAACUG
....(((((((.((((.......)))).))))))).....((....))(((((((.............((((........))))............)))..))))..... ( -26.51)
>DroSec_CAF1 17760 107 + 1
CUUUGUGCCACAUGUGAAUCAUGCACAAGUGCCGCUUUUCCCAUUCGGAGACCGGUUUUCCCCACUUACCCA---CUCAUUGGGCUCUAAUCACACCCGCUGCCUAACUG
.(((((((...(((.....)))))))))).((((..(((((.....))))).))))................---....((((((................))))))... ( -20.79)
>DroSim_CAF1 15165 107 + 1
CUUUGUGGCACAUGUGAAUCAUGCACAAGUGCCGCUUUUCCCAUUCGGAGACCGGUUUUCCCCACUUACCCA---CUCAUUGGGCUCUAAUCACACCCGCUGUCUAACUG
....(((((((.((((.......)))).))))))).....((....))(((((((.............((((---.....))))............)))..))))..... ( -26.91)
>DroEre_CAF1 15192 107 + 1
CUUUGUGGCACAUGUGAAUCAUGCACAAGUGCCCCUUUUCCCAUUCGAAGACCGGUUUUCCCCACUUACCCA---CUCAUUGGGCUCUAAUCACACCCGCCGUCUAACUG
......(((((.((((.......)))).)))))...............((((.(((............((((---.....))))..............)))))))..... ( -22.17)
>DroYak_CAF1 14887 107 + 1
CUUUGUGGCACAUGUGAAUCAUGCGCAAGUGCCGCUUUUCCCAUUCGAAGACCGGUUUUCCCCACUUACCCA---CUCAUUGGGCUCUAAUCACACCCGCUGUCUAACUG
....(((((((.((((.......)))).))))))).............(((((((.............((((---.....))))............)))..))))..... ( -25.81)
>consensus
CUUUGUGGCACAUGUGAAUCAUGCACAAGUGCCGCUUUUCCCAUUCGGAGACCGGUUUUCCCCACUUACCCA___CUCAUUGGGCUCUAAUCACACCCGCUGUCUAACUG
....(((((((.((((.......)))).))))))).............(((((((.............((((........))))............)))..))))..... (-22.63 = -22.91 +   0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:40:01 2006