Locus 4995

Sequence ID	X_DroMel_CAF1
Location	13,049,262 – 13,049,378
Length	116
Max. P	0.601504

overview

Window 5

Location	13,049,262 – 13,049,352
Length	90
Sequences	6
Columns	90
Reading direction	forward
Mean pairwise identity	80.71
Mean single sequence MFE	-34.54
Consensus MFE	-23.67
Energy contribution	-24.14
Covariance contribution	0.48
Combinations/Pair	1.29
Mean z-score	-1.37
Structure conservation index	0.69
SVM decision value	0.14
SVM RNA-class probability	0.601504
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13049262 90 + 22224390
UCACAUGUGGUGACCCCACCAGGCUGCGCUGGCUUGGUAAUAGCCAUCGUUUCCCCAGCUAAAGAUGCUAAGAGGGGGCGGCGGUGGUGU
((((.....))))....((((((((.....))))))))....((((((((..(((((((.......))).....))))..)))))))).. ( -37.00)
>DroPse_CAF1 1 87 + 1
UUAUAUGU---GUCCCCACCAGGUGGCACUGGCUUGGUAGUAUCCAUCGUGGCCCCAAUUCAGAACGCUUAGGGGCGGCGGUGGCGGCGU
........---(((.(((((.(((((.((((......))))..)))))((.(((((...............))))).))))))).))).. ( -34.26)
>DroWil_CAF1 1 87 + 1
UCACAUGU---GUCCCCACCAGUUGGCACUUGCCUGAUAGUAGCCAUCGUUGCCCCAAUUGAGAAAGCUCAAUGGCGGCGGUGGCGGCGU
........---(((.(((((.(.(((((((........))).)))).)...((((((.(((((....)))))))).)))))))).))).. ( -34.80)
>DroYak_CAF1 1 90 + 1
UCACAUGUGGUGACCCCACCAGGCGGCGCUGGCUUGGUAAUAGCCAUCGUUUCCCCAGCUGAGGAUGCUAAGAGGUGGCGGCGGUGGUGU
((((.....))))....(((((((.......)))))))....((((((((..(((((((.......)))....)).))..)))))))).. ( -32.10)
>DroAna_CAF1 1 87 + 1
UCACAUGU---GACCCCACCAGGCGGCACUGGCCUGGUAGUAGCCAUCGUUGCCCCAACUAAGGAUACUAAUGGGUGGUGGUGGCGGUGU
........---.(((..(((((((.......)))))))....(((((((..((((......((....))...))))..)))))))))).. ( -34.80)
>DroPer_CAF1 1 87 + 1
UUAUAUGU---GUCCCCACCAGGUGGCACUGGCUUGGUAGUAUCCAUCGUGGCCCCAAUUCAGAACGCUUAGGGGCGGCGGUGGCGGCGU
........---(((.(((((.(((((.((((......))))..)))))((.(((((...............))))).))))))).))).. ( -34.26)
>consensus
UCACAUGU___GACCCCACCAGGCGGCACUGGCUUGGUAGUAGCCAUCGUUGCCCCAACUAAGAAUGCUAAGGGGCGGCGGUGGCGGCGU
...............(((((((((.......)))))))....((((((((((((...................))))))))))))))... (-23.67 = -24.14 +   0.48)

alignment

secondary structure

dotplot

Window 6

Location	13,049,272 – 13,049,378
Length	106
Sequences	6
Columns	106
Reading direction	forward
Mean pairwise identity	79.10
Mean single sequence MFE	-40.67
Consensus MFE	-28.47
Energy contribution	-29.41
Covariance contribution	0.95
Combinations/Pair	1.28
Mean z-score	-1.07
Structure conservation index	0.70
SVM decision value	-0.03
SVM RNA-class probability	0.517107
Prediction	RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 13049272 106 + 22224390
UGACCCCACCAGGCUGCGCUGGCUUGGUAAUAGCCAUCGUUUCCCCAGCUAAAGAUGCUAAGAGGGGGCGGCGGUGGUGUCAGCGAAAGUACGUCCACAUCGCUGU
...((((((((((((.....))))))))..((((.(((...............)))))))...))))(((((((((((((..((....))))).))))..)))))) ( -41.96)
>DroPse_CAF1 9 105 + 1
-GUCCCCACCAGGUGGCACUGGCUUGGUAGUAUCCAUCGUGGCCCCAAUUCAGAACGCUUAGGGGCGGCGGUGGCGGCGUCAGCGAAAGGAUGUCCAGCUCGUUGU
-(((.(((((.(((((.((((......))))..)))))((.(((((...............))))).))))))).)))..((((((..((....))...)))))). ( -41.76)
>DroGri_CAF1 7879 105 + 1
-GACCCCACCAGGUGGCGCUCGCCUGAUAGUAGCCAUCGUUGCCCCAAUUCAAUACGCUAAGCGGCGGCGGUGGCGGCGUCAAGGAUAACACAUCAAAUUCAUCAU
-(((.((..((((((.....))))))......((((((((((((.(...............).)))))))))))))).)))......................... ( -36.06)
>DroYak_CAF1 11 106 + 1
UGACCCCACCAGGCGGCGCUGGCUUGGUAAUAGCCAUCGUUUCCCCAGCUGAGGAUGCUAAGAGGUGGCGGCGGUGGUGUCAGCGAAAGUACGUCCACAUCGCUGU
...(((((((.((..(((.(((((.......))))).)))..))..(((.......)))....))))).))(((((((((..(((......)))..))))))))). ( -41.50)
>DroAna_CAF1 9 105 + 1
-GACCCCACCAGGCGGCACUGGCCUGGUAGUAGCCAUCGUUGCCCCAACUAAGGAUACUAAUGGGUGGUGGUGGCGGUGUCAGUGACAGGACAUCCACCUCCUCCU
-(((.(((((((((.......)))))))....(((((((..((((......((....))...))))..))))))))).)))......((((........))))... ( -41.00)
>DroPer_CAF1 9 105 + 1
-GUCCCCACCAGGUGGCACUGGCUUGGUAGUAUCCAUCGUGGCCCCAAUUCAGAACGCUUAGGGGCGGCGGUGGCGGCGUCAGCGAAAGGAUGUCCAGCUCGUUGU
-(((.(((((.(((((.((((......))))..)))))((.(((((...............))))).))))))).)))..((((((..((....))...)))))). ( -41.76)
>consensus
_GACCCCACCAGGCGGCACUGGCUUGGUAGUAGCCAUCGUUGCCCCAACUCAGGACGCUAAGGGGCGGCGGUGGCGGCGUCAGCGAAAGGACGUCCACCUCGUUGU
.(((.(((((((((.......)))))))....((((((((((((...................)))))))))))))).)))(((((.............))))).. (-28.47 = -29.41 +   0.95)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:37:44 2006