Locus 971

Sequence ID	2L_DroMel_CAF1
Location	2,798,670 – 2,798,767
Length	97
Max. P	0.992048

overview

Window 8

Location	2,798,670 – 2,798,767
Length	97
Sequences	5
Columns	105
Reading direction	forward
Mean pairwise identity	91.01
Mean single sequence MFE	-40.16
Consensus MFE	-31.20
Energy contribution	-32.32
Covariance contribution	1.12
Combinations/Pair	1.06
Mean z-score	-2.26
Structure conservation index	0.78
SVM decision value	1.34
SVM RNA-class probability	0.944407
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2798670 97 + 22407834
UCGGCAGCAGUGGCGACUAUUUGGCAGGAAGGAUAUGGUGAUGCGGGUCCUGGCGCUU-GUCGAUGUAUGUG--UG--CUGCUG---CUGCUGCCUGAUUUAUGU
.(((((((((..((((((((((((((((.(((((.((......)).)))))....)))-))))).))).)).--))--)..)))---))))))............ ( -40.50)
>DroSec_CAF1 21738 102 + 1
GCGGCAGCAGUGGCGACUAUUUGGCAGGAAGGAUAUGGUGAUGCGGAUCCUGGCGCUU-GUCGAUGUAUGUG--UGAGCUGCUGCUGCUGCUGCCUGAUUUAUGU
((((((((((..((.(((((((((((((.(((((.((......)).)))))....)))-))))).))).)).--...))..)))))))))).............. ( -42.50)
>DroSim_CAF1 23122 99 + 1
GCGGCAGCAGUGGCGACUAUUUGGCAGGAAGGAUAUGGUGAUGCGGAUCCUGGCGCUU-GUCGAUGUAUGUG--UGAGCUGCUG---CUGCUGCCUGAUUUAUGU
((((((((((..((.(((((((((((((.(((((.((......)).)))))....)))-))))).))).)).--...))..)))---)))))))........... ( -42.10)
>DroEre_CAF1 22014 104 + 1
GCGGCAGCAGUGGCGACUGUUUGGCAGGAAGGAUAUGGUGAUGCGGGUCCUGGCGCUU-GUCGAUGUGUGUGUGUGAGCUGCUCCUGCUGCUGCCUGCUAUUUGU
((((((((((..(((((...((((((((.(((((.((......)).)))))....)))-)))))...))((......)))))..))))))))))........... ( -40.30)
>DroYak_CAF1 21186 105 + 1
GCGGCAGCAGUGGCGACUGUUUGGCAGGAAGGAUAUGGUGAUGCGGGUCCUGGCGCUUCGUCGAUGUGUGUGUGUGAGCUCCUCCUGCUGCUGCCUGUUAUUUGU
..((((((((..(((((.(..((.(((((.(.((......)).)...))))).))..).))))............(((...))))..)))))))).......... ( -35.40)
>consensus
GCGGCAGCAGUGGCGACUAUUUGGCAGGAAGGAUAUGGUGAUGCGGGUCCUGGCGCUU_GUCGAUGUAUGUG__UGAGCUGCUGCUGCUGCUGCCUGAUUUAUGU
..(((((((((((((((.(..((.(((((.(.((......)).)...))))).))..).))))..(((.((......)))))..))))))))))).......... (-31.20 = -32.32 +   1.12)

alignment

secondary structure

dotplot

Window 9

Location	2,798,670 – 2,798,767
Length	97
Sequences	5
Columns	105
Reading direction	reverse
Mean pairwise identity	91.01
Mean single sequence MFE	-26.54
Consensus MFE	-21.95
Energy contribution	-21.95
Covariance contribution	-0.00
Combinations/Pair	1.00
Mean z-score	-2.35
Structure conservation index	0.83
SVM decision value	2.30
SVM RNA-class probability	0.992048
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2798670 97 - 22407834
ACAUAAAUCAGGCAGCAG---CAGCAG--CA--CACAUACAUCGAC-AAGCGCCAGGACCCGCAUCACCAUAUCCUUCCUGCCAAAUAGUCGCCACUGCUGCCGA
..........((((((((---..((.(--(.--.............-..))(.(((((..................))))).)........))..)))))))).. ( -24.56)
>DroSec_CAF1 21738 102 - 1
ACAUAAAUCAGGCAGCAGCAGCAGCAGCUCA--CACAUACAUCGAC-AAGCGCCAGGAUCCGCAUCACCAUAUCCUUCCUGCCAAAUAGUCGCCACUGCUGCCGC
..........((((((((..((.((.(((..--.............-.)))(.(((((..................))))).).....)).))..)))))))).. ( -27.56)
>DroSim_CAF1 23122 99 - 1
ACAUAAAUCAGGCAGCAG---CAGCAGCUCA--CACAUACAUCGAC-AAGCGCCAGGAUCCGCAUCACCAUAUCCUUCCUGCCAAAUAGUCGCCACUGCUGCCGC
..........((((((((---..((.(((..--.............-.)))(.(((((..................))))).)........))..)))))))).. ( -26.26)
>DroEre_CAF1 22014 104 - 1
ACAAAUAGCAGGCAGCAGCAGGAGCAGCUCACACACACACAUCGAC-AAGCGCCAGGACCCGCAUCACCAUAUCCUUCCUGCCAAACAGUCGCCACUGCUGCCGC
.......((.((((((.((((((((.(((.................-.))))).((((..............)))))))))).....(((....))))))))))) ( -25.61)
>DroYak_CAF1 21186 105 - 1
ACAAAUAACAGGCAGCAGCAGGAGGAGCUCACACACACACAUCGACGAAGCGCCAGGACCCGCAUCACCAUAUCCUUCCUGCCAAACAGUCGCCACUGCUGCCGC
..........((((((.((((((((((......)............((.(((........))).))......))).)))))).....(((....))))))))).. ( -28.70)
>consensus
ACAUAAAUCAGGCAGCAGCAGCAGCAGCUCA__CACAUACAUCGAC_AAGCGCCAGGACCCGCAUCACCAUAUCCUUCCUGCCAAAUAGUCGCCACUGCUGCCGC
..........((((((((........(......)........((((.......(((((..................))))).......))))...)))))))).. (-21.95 = -21.95 +  -0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:49:58 2006