Locus 3567

Sequence ID	2R_DroMel_CAF1
Location	11,885,583 – 11,885,679
Length	96
Max. P	0.998074

overview

Window 8

Location	11,885,583 – 11,885,679
Length	96
Sequences	5
Columns	100
Reading direction	forward
Mean pairwise identity	90.95
Mean single sequence MFE	-31.76
Consensus MFE	-24.82
Energy contribution	-25.06
Covariance contribution	0.24
Combinations/Pair	1.07
Mean z-score	-2.67
Structure conservation index	0.78
SVM decision value	1.97
SVM RNA-class probability	0.984451
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11885583 96 + 20766785
GUGUGUGUCAACUACCCCUUUGUCAAUUUCAGUGCUGAAGUAUGUGCAAAAAGCGCUGGUAAGUGUGAGAG----GGGGCAGUUGGGAAACUUUCAUCUA
..((.(.((((((.(((((((..((...((((((((...((....))....))))))))....))...)))----)))).)))))).).))......... ( -32.50)
>DroSec_CAF1 25968 94 + 1
--GUGUGUCAACUACCCCUUUGUCAAUUUCAGCGCUGAAGUAUGUGCAAAAAGCGCUGGUAAGUGUGAGAG----GGGGCAGUUGGAAAACUUUCAUCUA
--((...((((((.(((((((..((...((((((((...((....))....))))))))....))...)))----)))).))))))...))......... ( -34.50)
>DroSim_CAF1 26153 96 + 1
GUGUGUGUCAACUACCCCUUUGUCAAUUUCAGUGCUGAAGUAUGUGCAAAAAGCGCUGGUAAGUGCGAAAG----GGGGCAGUUGGAAAACUUUCAUCUA
..((...((((((.(((((((..((...((((((((...((....))....))))))))....))...)))----)))).))))))...))......... ( -31.50)
>DroEre_CAF1 28029 92 + 1
----GUGUCAACUACCCCUUUGUCAAUUUCAGUGCUGAAGUAUGUGCAAAAAGCACUGGUGAGCGUGAGAG----GGGGCAGUUGGAAAACUUUCAUCUA
----((.((((((.(((((((.(((...((((((((...((....))....))))))))......))))))----)))).))))))...))......... ( -31.50)
>DroYak_CAF1 26244 99 + 1
-CGUGUGUCAACUACCCCUUUGUCAAUUUCAGUGCUGAAGUAUGUGCAAAAAGCGCUGUUGAGCUCAAGAGUGUGAGGGCAGUUGGAAAACUUUCAUCUA
-.((...((((((.(((.(((((((((((((....)))))).)).)))))..(((((.(((....))).)))))..))).))))))...))......... ( -28.80)
>consensus
__GUGUGUCAACUACCCCUUUGUCAAUUUCAGUGCUGAAGUAUGUGCAAAAAGCGCUGGUAAGUGUGAGAG____GGGGCAGUUGGAAAACUUUCAUCUA
....((.((((((.(((((((((((((((((....)))))).)).)))))..(((((....))))).........)))).))))))...))......... (-24.82 = -25.06 +   0.24)

alignment

secondary structure

dotplot

Window 9

Location	11,885,583 – 11,885,679
Length	96
Sequences	5
Columns	100
Reading direction	reverse
Mean pairwise identity	90.95
Mean single sequence MFE	-24.27
Consensus MFE	-21.30
Energy contribution	-21.14
Covariance contribution	-0.16
Combinations/Pair	1.05
Mean z-score	-2.31
Structure conservation index	0.88
SVM decision value	3.00
SVM RNA-class probability	0.998074
Prediction	RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 11885583 96 - 20766785
UAGAUGAAAGUUUCCCAACUGCCCC----CUCUCACACUUACCAGCGCUUUUUGCACAUACUUCAGCACUGAAAUUGACAAAGGGGUAGUUGACACACAC
.((((....))))..((((((((((----...(((.........(.((.....)).)....((((....))))..)))....))))))))))........ ( -22.60)
>DroSec_CAF1 25968 94 - 1
UAGAUGAAAGUUUUCCAACUGCCCC----CUCUCACACUUACCAGCGCUUUUUGCACAUACUUCAGCGCUGAAAUUGACAAAGGGGUAGUUGACACAC--
.((((....))))..((((((((((----...(((.......(((((((...............)))))))....)))....))))))))))......-- ( -27.36)
>DroSim_CAF1 26153 96 - 1
UAGAUGAAAGUUUUCCAACUGCCCC----CUUUCGCACUUACCAGCGCUUUUUGCACAUACUUCAGCACUGAAAUUGACAAAGGGGUAGUUGACACACAC
.((((....))))..((((((((((----....(((........)))...((((..((...((((....))))..)).))))))))))))))........ ( -23.40)
>DroEre_CAF1 28029 92 - 1
UAGAUGAAAGUUUUCCAACUGCCCC----CUCUCACGCUCACCAGUGCUUUUUGCACAUACUUCAGCACUGAAAUUGACAAAGGGGUAGUUGACAC----
.((((....))))..((((((((((----...(((.........((((.....))))....((((....))))..)))....))))))))))....---- ( -26.50)
>DroYak_CAF1 26244 99 - 1
UAGAUGAAAGUUUUCCAACUGCCCUCACACUCUUGAGCUCAACAGCGCUUUUUGCACAUACUUCAGCACUGAAAUUGACAAAGGGGUAGUUGACACACG-
.((((....))))..((((((((((...........(((....)))((.....)).((...((((....))))..)).....)))))))))).......- ( -21.50)
>consensus
UAGAUGAAAGUUUUCCAACUGCCCC____CUCUCACACUUACCAGCGCUUUUUGCACAUACUUCAGCACUGAAAUUGACAAAGGGGUAGUUGACACAC__
.((((....))))..((((((((((.....................((.....)).((...((((....))))..)).....))))))))))........ (-21.30 = -21.14 +  -0.16)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:58:42 2006