Locus 721

Sequence ID	2R_DroMel_CAF1
Location	3,537,244 – 3,537,357
Length	113
Max. P	0.930307

overview

Window 2

Location	3,537,244 – 3,537,357
Length	113
Sequences	4
Columns	113
Reading direction	forward
Mean pairwise identity	89.07
Mean single sequence MFE	-36.80
Consensus MFE	-24.52
Energy contribution	-26.02
Covariance contribution	1.50
Combinations/Pair	1.00
Mean z-score	-1.91
Structure conservation index	0.67
SVM decision value	0.01
SVM RNA-class probability	0.537183
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3537244 113 + 20766785
UCGCUUCCACAGACCAUUUUGGGCACGAUUAUUUUAACCAAAUAUGGCAAAUUCGAUAUUGUCCACAAGGACAAUGAGCGUGGUAUUGGAUGGCGGAGGGAGAGAGGGUGCAU
((.(((((.(.(.((((((..(.((((..........(((....))).........((((((((....))))))))..)))).)...))))))).).))))).))........ ( -31.10)
>DroSec_CAF1 9677 112 + 1
UCGCUUCCACAGACCAUUUUGGGCCCGAUUAUUUUGACCAAAUAUGGCAAAUUCGAUAUUGUCCACAAGGACAAUGAGCGAGGUAUCGGACGGCGGUGGG-GAGAGGGAGCAU
..((((((.(...((((..(.(..(((((...((((.(((....)))))))((((.((((((((....))))))))..))))..))))).).)..)))).-..).)))))).. ( -39.60)
>DroSim_CAF1 7334 113 + 1
UCGCUUCCACAGACCAUUUUGGGCCCGAUUAUUUUGACCAAAUAUGGCAAAUUCGAUAUUGUCCACAAGGACAAUGAGCGAGGUAUCGGACGGCAGUGGGAGAGAGGGAGCAU
..((((((.(...(((((.(.(..(((((...((((.(((....)))))))((((.((((((((....))))))))..))))..))))).).).)))))....).)))))).. ( -38.50)
>DroEre_CAF1 4855 105 + 1
UCGCUUCCACAGACCAUU-UGGGCCCGAUUAUUUUGACCAAAUAUGGCAAAUUCGAUAUUGUCCACAAGGACAAUGGGCGCGGC---GGAGGGAGGCUGU-GAGGG---GGAU
((.((..(((((.((..(-((.((((((....((((.(((....))))))).))...(((((((....))))))))))).))).---...))....))))-)..))---.)). ( -38.00)
>consensus
UCGCUUCCACAGACCAUUUUGGGCCCGAUUAUUUUGACCAAAUAUGGCAAAUUCGAUAUUGUCCACAAGGACAAUGAGCGAGGUAUCGGACGGCGGUGGG_GAGAGGGAGCAU
((((((((...(.(((((((((...(((.....))).))))).)))))...((((.((((((((....))))))))..)))).....))).)))))................. (-24.52 = -26.02 +   1.50)

alignment

secondary structure

dotplot

Window 3

Location	3,537,244 – 3,537,357
Length	113
Sequences	4
Columns	113
Reading direction	reverse
Mean pairwise identity	89.07
Mean single sequence MFE	-31.59
Consensus MFE	-25.61
Energy contribution	-25.55
Covariance contribution	-0.06
Combinations/Pair	1.18
Mean z-score	-2.21
Structure conservation index	0.81
SVM decision value	1.20
SVM RNA-class probability	0.930307
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3537244 113 - 20766785
AUGCACCCUCUCUCCCUCCGCCAUCCAAUACCACGCUCAUUGUCCUUGUGGACAAUAUCGAAUUUGCCAUAUUUGGUUAAAAUAAUCGUGCCCAAAAUGGUCUGUGGAAGCGA
..................(((..((((..((((.....(((((((....)))))))..(((((((((((....))))..))))..))).........))))...)))).))). ( -25.90)
>DroSec_CAF1 9677 112 - 1
AUGCUCCCUCUC-CCCACCGCCGUCCGAUACCUCGCUCAUUGUCCUUGUGGACAAUAUCGAAUUUGCCAUAUUUGGUCAAAAUAAUCGGGCCCAAAAUGGUCUGUGGAAGCGA
.((((.((.(..-.(((.....(((((((...(((...(((((((....)))))))..))).(((((((....))).))))...)))))))......)))...).)).)))). ( -35.00)
>DroSim_CAF1 7334 113 - 1
AUGCUCCCUCUCUCCCACUGCCGUCCGAUACCUCGCUCAUUGUCCUUGUGGACAAUAUCGAAUUUGCCAUAUUUGGUCAAAAUAAUCGGGCCCAAAAUGGUCUGUGGAAGCGA
.((((.((.(...((.......(((((((...(((...(((((((....)))))))..))).(((((((....))).))))...))))))).......))...).)).)))). ( -34.54)
>DroEre_CAF1 4855 105 - 1
AUCC---CCCUC-ACAGCCUCCCUCC---GCCGCGCCCAUUGUCCUUGUGGACAAUAUCGAAUUUGCCAUAUUUGGUCAAAAUAAUCGGGCCCA-AAUGGUCUGUGGAAGCGA
....---.....-...((.((((...---((((.(((((((((((....)))))))......(((((((....))).))))......))))...-..))))..).))).)).. ( -30.90)
>consensus
AUGCUCCCUCUC_CCCACCGCCGUCCGAUACCUCGCUCAUUGUCCUUGUGGACAAUAUCGAAUUUGCCAUAUUUGGUCAAAAUAAUCGGGCCCAAAAUGGUCUGUGGAAGCGA
..................(((..((((..(((..(((((((((((....)))))))......(((((((....))).))))......)))).......)))...)))).))). (-25.61 = -25.55 +  -0.06)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:45:38 2006