Locus 1629

Sequence ID	X_DroMel_CAF1
Location	4,640,937 – 4,641,033
Length	96
Max. P	0.999344

overview

Window 0

Location	4,640,937 – 4,641,033
Length	96
Sequences	5
Columns	96
Reading direction	forward
Mean pairwise identity	95.42
Mean single sequence MFE	-32.68
Consensus MFE	-30.96
Energy contribution	-30.76
Covariance contribution	-0.20
Combinations/Pair	1.08
Mean z-score	-2.02
Structure conservation index	0.95
SVM decision value	3.32
SVM RNA-class probability	0.999005
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4640937 96 + 22224390
GGACUUUAAGCUGGAACAGCAGCUGCAAGUCUGUCCACUGGAUGCGAAUGUGGAUGAUGACGUUGACAACGACGAGGAAGGACCAAAGCUGCUGUC
...............(((((((((....((((((((((...........)))))).....(((((....))))).....))))...))))))))). ( -31.30)
>DroSec_CAF1 26555 96 + 1
GGACUUUAAGCUGGAGCAGCAGCUGCAAGUCUGUCCACUGGAUGCGAAUGUGGAUGAUGACGUUGACAACGACGAGGAAGGACCAAAGCUGCUGUC
...............(((((((((....((((((((((...........)))))).....(((((....))))).....))))...))))))))). ( -31.60)
>DroSim_CAF1 8214 96 + 1
GGACUUUAAGCUGGAGCAGCAGCUGCAAGUCUGUCCACUGGAUGCGAAUGUGGAUGAUGACGUUGACAACGACGAGGAAGGACCAAAGCUGCUGUC
...............(((((((((....((((((((((...........)))))).....(((((....))))).....))))...))))))))). ( -31.60)
>DroEre_CAF1 24643 96 + 1
AGAUUUUAAGCUGGAACAGCAGCUGCAAGUCUGUCCACUGCAUGCGAAUGUGGAUGAUGACGUUGACAACGACGAGGAGGAACCAAAGCUGCUGUC
...............(((((((((.....(((.(((.(..(((....)))..).......(((((....))))).)))))).....))))))))). ( -31.40)
>DroYak_CAF1 26131 96 + 1
GGAUUUUAAGCUGGAACAGCAGCUGCAAGUCCGUCCACUGGAUGUGAAUGUGGAUGAUGACGUUGACAACGACGUGGAAGGACCAGAGCUGCUGUC
...............(((((((((.(..((((.((((((.(.(((.(((((........))))).))).).).))))).))))..)))))))))). ( -37.50)
>consensus
GGACUUUAAGCUGGAACAGCAGCUGCAAGUCUGUCCACUGGAUGCGAAUGUGGAUGAUGACGUUGACAACGACGAGGAAGGACCAAAGCUGCUGUC
...............(((((((((....((((((((((...........)))))).....(((((....))))).....))))...))))))))). (-30.96 = -30.76 +  -0.20)

alignment

secondary structure

dotplot

Window 1

Location	4,640,937 – 4,641,033
Length	96
Sequences	5
Columns	96
Reading direction	reverse
Mean pairwise identity	95.42
Mean single sequence MFE	-28.10
Consensus MFE	-25.88
Energy contribution	-25.72
Covariance contribution	-0.16
Combinations/Pair	1.04
Mean z-score	-2.25
Structure conservation index	0.92
SVM decision value	3.53
SVM RNA-class probability	0.999344
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 4640937 96 - 22224390
GACAGCAGCUUUGGUCCUUCCUCGUCGUUGUCAACGUCAUCAUCCACAUUCGCAUCCAGUGGACAGACUUGCAGCUGCUGUUCCAGCUUAAAGUCC
((((((((((..((((.......(.(((.....))).)....(((((...........)))))..))))...)))))))))).............. ( -27.70)
>DroSec_CAF1 26555 96 - 1
GACAGCAGCUUUGGUCCUUCCUCGUCGUUGUCAACGUCAUCAUCCACAUUCGCAUCCAGUGGACAGACUUGCAGCUGCUGCUCCAGCUUAAAGUCC
((((((.((...((.....))..)).))))))..........(((((...........)))))..(((((..(((((......)))))..))))). ( -26.60)
>DroSim_CAF1 8214 96 - 1
GACAGCAGCUUUGGUCCUUCCUCGUCGUUGUCAACGUCAUCAUCCACAUUCGCAUCCAGUGGACAGACUUGCAGCUGCUGCUCCAGCUUAAAGUCC
((((((.((...((.....))..)).))))))..........(((((...........)))))..(((((..(((((......)))))..))))). ( -26.60)
>DroEre_CAF1 24643 96 - 1
GACAGCAGCUUUGGUUCCUCCUCGUCGUUGUCAACGUCAUCAUCCACAUUCGCAUGCAGUGGACAGACUUGCAGCUGCUGUUCCAGCUUAAAAUCU
((((((((((..((((.......(.(((.....))).)....(((((...........)))))..))))...)))))))))).............. ( -25.50)
>DroYak_CAF1 26131 96 - 1
GACAGCAGCUCUGGUCCUUCCACGUCGUUGUCAACGUCAUCAUCCACAUUCACAUCCAGUGGACGGACUUGCAGCUGCUGUUCCAGCUUAAAAUCC
(((((((((((.(((((.(((((.....(((.((.((........)).)).)))....))))).))))).).)))))))))).............. ( -34.10)
>consensus
GACAGCAGCUUUGGUCCUUCCUCGUCGUUGUCAACGUCAUCAUCCACAUUCGCAUCCAGUGGACAGACUUGCAGCUGCUGUUCCAGCUUAAAGUCC
((((((((((..((((.......(.(((.....))).)....(((((...........)))))..))))...)))))))).))............. (-25.88 = -25.72 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:15:09 2006