Locus 9386

Sequence ID	3R_DroMel_CAF1
Location	24,909,841 – 24,909,998
Length	157
Max. P	0.994021

overview

Window 7

Location	24,909,841 – 24,909,960
Length	119
Sequences	5
Columns	119
Reading direction	reverse
Mean pairwise identity	99.16
Mean single sequence MFE	-25.06
Consensus MFE	-25.30
Energy contribution	-25.06
Covariance contribution	-0.24
Combinations/Pair	1.03
Mean z-score	-1.49
Structure conservation index	1.01
SVM decision value	1.16
SVM RNA-class probability	0.923773
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24909841 119 - 27905053
UAUCUUCGAGAUGUGGGCACAAUUGCAUUUUGUUUCACAUUUCCACAAUCGCAGCGCUCGUCUGCAGCUGUCUACAUUAAUUAAUUCCUUUGAAUGCAUACACAAAAGCAUACAAACGC
.......((((((((((.((((.......)))))))))))))).......(((((((......)).))))).................((((.((((..........)))).))))... ( -25.90)
>DroSec_CAF1 21441 119 - 1
UAUCUUCGAGAUGUGGGCACAAUUGCAUUUUGUUUCACAUUUCCACAAUCGCAGCGCUCGUCUGCAGCUGUCUACAUUAAUUAAUUCCUUUGAAUGCAUACACAAAAGCAUACAAACGC
.......((((((((((.((((.......)))))))))))))).......(((((((......)).))))).................((((.((((..........)))).))))... ( -25.90)
>DroSim_CAF1 21092 119 - 1
UACCUUCGAGAUGUGGGCACAAUUGCAUUUUGUUUCACAUUUCCACAAUCGCAGCGCUCGUCUGCAGCUGUCUACAUUAAUUAAUUCCUUUGAAUGCAUACACAAAAGCAUACAAACGC
.......((((((((((.((((.......)))))))))))))).......(((((((......)).))))).................((((.((((..........)))).))))... ( -25.90)
>DroEre_CAF1 21525 119 - 1
UAUCUUCGAGAUGUGGGCACAAUUGCAUUUUGUUUCACAUUUCCACAAUCGCAGCGUUCGUCUGCAGCUGUCUACAUUAAUUAAUUCCUUUGAAUGCAUACACAAAAGCAUACAAACGC
.......((((((((((.((((.......)))))))))))))).......(((((((......)).))))).................((((.((((..........)))).))))... ( -23.80)
>DroYak_CAF1 21806 119 - 1
UAUCUUCGAGAUGUGGGCACAAUUGCAUUUUGUUUCACAUUUCCACAAUCGCAGCGUUCGUCUGCAGCUGUCUACAUUAAUUAAUUCCUUUGAAUGCAUACACAAAAGCAUACAAACGC
.......((((((((((.((((.......)))))))))))))).......(((((((......)).))))).................((((.((((..........)))).))))... ( -23.80)
>consensus
UAUCUUCGAGAUGUGGGCACAAUUGCAUUUUGUUUCACAUUUCCACAAUCGCAGCGCUCGUCUGCAGCUGUCUACAUUAAUUAAUUCCUUUGAAUGCAUACACAAAAGCAUACAAACGC
.......((((((((((.((((.......)))))))))))))).......(((((((......)).))))).................((((.((((..........)))).))))... (-25.30 = -25.06 +  -0.24)

alignment

secondary structure

dotplot

Window 8

Location	24,909,881 – 24,909,998
Length	117
Sequences	5
Columns	119
Reading direction	reverse
Mean pairwise identity	93.82
Mean single sequence MFE	-27.52
Consensus MFE	-24.90
Energy contribution	-24.90
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.86
Structure conservation index	0.90
SVM decision value	2.44
SVM RNA-class probability	0.994021
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 24909881 117 - 27905053
CUUGUA--UACGUACAUAUCUCGCUCUCCAUCGCUCCAGCUAUCUUCGAGAUGUGGGCACAAUUGCAUUUUGUUUCACAUUUCCACAAUCGCAGCGCUCGUCUGCAGCUGUCUACAUUA
..((((--..............((........))..(((((......((((((((((.((((.......)))))))))))))).......(((((....).)))))))))..))))... ( -27.10)
>DroSec_CAF1 21481 114 - 1
CGUGU---UACUG--GUAUCUCACUCUCCAUCGCUCCAGCUAUCUUCGAGAUGUGGGCACAAUUGCAUUUUGUUUCACAUUUCCACAAUCGCAGCGCUCGUCUGCAGCUGUCUACAUUA
.(((.---...((--(...........))).)))..(((((......((((((((((.((((.......)))))))))))))).......(((((....).)))))))))......... ( -27.30)
>DroSim_CAF1 21132 115 - 1
CGUGUA--UACUU--GUAUCUCGCUCUCCAUCGCUCCAGCUACCUUCGAGAUGUGGGCACAAUUGCAUUUUGUUUCACAUUUCCACAAUCGCAGCGCUCGUCUGCAGCUGUCUACAUUA
.(((((--.....--.......((........))..(((((......((((((((((.((((.......)))))))))))))).......(((((....).)))))))))..))))).. ( -28.10)
>DroEre_CAF1 21565 117 - 1
UUUGUACAUAUGU--GUAUCUCGCUCUCCAUCGCUCCAGCUAUCUUCGAGAUGUGGGCACAAUUGCAUUUUGUUUCACAUUUCCACAAUCGCAGCGUUCGUCUGCAGCUGUCUACAUUA
...........((--(((....((........))..(((((......((((((((((.((((.......)))))))))))))).......(((((....).)))))))))..))))).. ( -28.00)
>DroYak_CAF1 21846 113 - 1
CUUGU----AUCU--GUAUCUCGCUCUCCAUCGCUCCAGCUAUCUUCGAGAUGUGGGCACAAUUGCAUUUUGUUUCACAUUUCCACAAUCGCAGCGUUCGUCUGCAGCUGUCUACAUUA
..(((----(...--.......((........))..(((((......((((((((((.((((.......)))))))))))))).......(((((....).)))))))))..))))... ( -27.10)
>consensus
CUUGUA__UACGU__GUAUCUCGCUCUCCAUCGCUCCAGCUAUCUUCGAGAUGUGGGCACAAUUGCAUUUUGUUUCACAUUUCCACAAUCGCAGCGCUCGUCUGCAGCUGUCUACAUUA
....................................(((((......((((((((((.((((.......)))))))))))))).......(((((....).)))))))))......... (-24.90 = -24.90 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:33:21 2006