Locus 5536

Sequence ID	3R_DroMel_CAF1
Location	14,621,059 – 14,621,184
Length	125
Max. P	0.995684

overview

Window 8

Location	14,621,059 – 14,621,154
Length	95
Sequences	5
Columns	95
Reading direction	reverse
Mean pairwise identity	94.00
Mean single sequence MFE	-30.33
Consensus MFE	-25.98
Energy contribution	-26.02
Covariance contribution	0.04
Combinations/Pair	1.05
Mean z-score	-2.26
Structure conservation index	0.86
SVM decision value	2.60
SVM RNA-class probability	0.995684
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14621059 95 - 27905053
UCCCAGUCGGUUAUCAAGCUUGAGUCAUUCCUUCUUGACUCUUUCUGAUUUAGUGGAAUCAAUGCGAUUGGGACUUUGGCUGCGAGAUGCUGACG
(((((((((............((((((........))))))....((((((....))))))...)))))))))..(..((........))..).. ( -29.40)
>DroSec_CAF1 36254 95 - 1
UCCCAGUCGAAUAUCAAGCUUGAUUCAUUCCUUCUUGACUCUUUCCGAUUUUGUGGAAUCAAUGCGAUUGGGACUUUGGCUGCGAGAUGCUGACG
(((((((((....(((((...((.....))...)))))....(((((......)))))......)))))))))..(..((........))..).. ( -25.00)
>DroSim_CAF1 44042 95 - 1
UCCCAGUCGAAUAUCAAGCUUGAGUCAUUCCUUCUUGACUCUUUCUGAUUUUGUGGAAUCAAUGCGAUUGGGACUUUGGCUGCGAGAUGCUGACG
(((((((((............((((((........))))))....((((((....))))))...)))))))))..(..((........))..).. ( -29.20)
>DroEre_CAF1 34736 95 - 1
UCCCAGUCGCAUCCCCCGCUUGAGUCAUUCCUUCUUGACUCUUUCUGAUAUUGUGGAAUAAAUGCGAUUGGGACUUUGGCUGCGAGAUGCUGACG
((((((((((((...((((..((((((........))))))...........)))).....))))))))))))..(..((........))..).. ( -33.52)
>DroYak_CAF1 35061 95 - 1
UCCCAGUCGCAUCUCCCGCUUGAGUCAUUCCUUCUUGACUCUUUCUGAUUUUGUGGAAUGAAUGCGAUUGGGACUUUGGCUGCGAGAUGCUGACG
(((((((((((((..((((..((((((........))))))...........))))...).))))))))))))..(..((........))..).. ( -34.52)
>consensus
UCCCAGUCGAAUAUCAAGCUUGAGUCAUUCCUUCUUGACUCUUUCUGAUUUUGUGGAAUCAAUGCGAUUGGGACUUUGGCUGCGAGAUGCUGACG
(((((((((............((((((........)))))).((((........))))......)))))))))..(..((........))..).. (-25.98 = -26.02 +   0.04)

alignment

secondary structure

dotplot

Window 9

Location	14,621,083 – 14,621,184
Length	101
Sequences	5
Columns	111
Reading direction	reverse
Mean pairwise identity	83.14
Mean single sequence MFE	-27.75
Consensus MFE	-21.28
Energy contribution	-21.56
Covariance contribution	0.28
Combinations/Pair	1.09
Mean z-score	-2.00
Structure conservation index	0.77
SVM decision value	0.91
SVM RNA-class probability	0.878912
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 14621083 101 - 27905053
CAUCAG-------CUGUGC---ACCCAAUUCCUGGGUACUUCCCAGUCGGUUAUCAAGCUUGAGUCAUUCCUUCUUGACUCUUUCUGAUUUAGUGGAAUCAAUGCGAUUGG
......-------......---(((((.....))))).....(((((((............((((((........))))))....((((((....))))))...))))))) ( -26.80)
>DroSec_CAF1 36278 111 - 1
CAGCAUCCUCAGCAUCCUCAGCACCCAAUUAAUGGGUUCUUCCCAGUCGAAUAUCAAGCUUGAUUCAUUCCUUCUUGACUCUUUCCGAUUUUGUGGAAUCAAUGCGAUUGG
..((.......))......((.(((((.....))))).))..(((((((....(((((...((.....))...)))))....(((((......)))))......))))))) ( -23.50)
>DroSim_CAF1 44066 101 - 1
CAGCAG-------AUGCUC---ACCCUAUUCCUGGGUACUUCCCAGUCGAAUAUCAAGCUUGAGUCAUUCCUUCUUGACUCUUUCUGAUUUUGUGGAAUCAAUGCGAUUGG
.(((..-------..))).---((((.......)))).....(((((((............((((((........))))))....((((((....))))))...))))))) ( -27.30)
>DroEre_CAF1 34760 101 - 1
CAACAC-------AUGUCC---ACCCGAUUAGUGGGUACUUCCCAGUCGCAUCCCCCGCUUGAGUCAUUCCUUCUUGACUCUUUCUGAUAUUGUGGAAUAAAUGCGAUUGG
......-------......---(((((.....))))).....((((((((((...((((..((((((........))))))...........)))).....)))))))))) ( -30.02)
>DroYak_CAF1 35085 101 - 1
UAACAC-------CUGGCC---CCCCGAUUCGUGGGUAGUUCCCAGUCGCAUCUCCCGCUUGAGUCAUUCCUUCUUGACUCUUUCUGAUUUUGUGGAAUGAAUGCGAUUGG
......-------..(((.---.((((.....))))..))).(((((((((((..((((..((((((........))))))...........))))...).)))))))))) ( -31.12)
>consensus
CAACAC_______AUGCCC___ACCCAAUUCCUGGGUACUUCCCAGUCGAAUAUCAAGCUUGAGUCAUUCCUUCUUGACUCUUUCUGAUUUUGUGGAAUCAAUGCGAUUGG
......................(((((.....))))).....(((((((............((((((........)))))).((((........))))......))))))) (-21.28 = -21.56 +   0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:57:32 2006