Locus 8735

Sequence ID	3L_DroMel_CAF1
Location	22,804,808 – 22,804,900
Length	92
Max. P	0.999432

overview

Window 5

Location	22,804,808 – 22,804,900
Length	92
Sequences	5
Columns	92
Reading direction	forward
Mean pairwise identity	96.85
Mean single sequence MFE	-26.78
Consensus MFE	-21.74
Energy contribution	-22.06
Covariance contribution	0.32
Combinations/Pair	1.10
Mean z-score	-1.66
Structure conservation index	0.81
SVM decision value	0.10
SVM RNA-class probability	0.581478
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22804808 92 + 23771897
GAGAAGAUGCUGAUGCCAGCUGACGAUAGUUGGCUUGGAAGCAGCCGAAAUCGAAAACUACACGUAGCAGCUUUUAAUUUAGCGCUGAGGGA
((......((((...(((((..((....))..)).)))...)))).....))........(...((((.(((........)))))))...). ( -25.50)
>DroSec_CAF1 66848 92 + 1
GAGAAGAUGCUGAUGCCAGCUGACGAUAGUUGGCUUGGAAGCAGCCGAAAUCGAAAACUACACGUAGCAGCUUUUAAUUUAGCGCUGAGGGA
((......((((...(((((..((....))..)).)))...)))).....))........(...((((.(((........)))))))...). ( -25.50)
>DroSim_CAF1 69712 92 + 1
GAGAAGAUGCUGAUGCCAGCUGACGAUAGUUGGCUUGGAAGCAGCCGAAAUCGAAAACUACACGUAGCAGCUUUUAAUUUAGCGCUGAGGGA
((......((((...(((((..((....))..)).)))...)))).....))........(...((((.(((........)))))))...). ( -25.50)
>DroEre_CAF1 69915 92 + 1
GAGAAGAGGCUGAUGCCAGCUGACGAUAGUUGGCUUGGCAGCAGCCGAAAUCGAAAACUACACGUAGCAGCUUUUAAUUUGGAGCGGAGGGA
((.....(((((.(((((((..((....))..)).))))).)))))....)).....(((....)))..(((((......)))))....... ( -32.20)
>DroYak_CAF1 69642 92 + 1
GAGAAGAGGCUGAUGCCAGCUGACGAUAGUUGGCUUGAAAGCAGCCGAAAUCGAAAACUACACGUAGCAGCUUUUAAUUUAGUGCUGAGGGA
((.....(((((...(.(((..((....))..))).)....)))))....))........(...(((((.((........)))))))...). ( -25.20)
>consensus
GAGAAGAUGCUGAUGCCAGCUGACGAUAGUUGGCUUGGAAGCAGCCGAAAUCGAAAACUACACGUAGCAGCUUUUAAUUUAGCGCUGAGGGA
((......((((...(((((..((....))..)).)))...)))).....))........(...((((.(((........)))))))...). (-21.74 = -22.06 +   0.32)

alignment

secondary structure

dotplot

Window 6

Location	22,804,808 – 22,804,900
Length	92
Sequences	5
Columns	92
Reading direction	reverse
Mean pairwise identity	96.85
Mean single sequence MFE	-25.04
Consensus MFE	-22.36
Energy contribution	-22.56
Covariance contribution	0.20
Combinations/Pair	1.00
Mean z-score	-2.81
Structure conservation index	0.89
SVM decision value	3.60
SVM RNA-class probability	0.999432
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 22804808 92 - 23771897
UCCCUCAGCGCUAAAUUAAAAGCUGCUACGUGUAGUUUUCGAUUUCGGCUGCUUCCAAGCCAACUAUCGUCAGCUGGCAUCAGCAUCUUCUC
.....((((...((((..((((((((.....))))))))..)))).((((.......))))...........))))((....))........ ( -23.70)
>DroSec_CAF1 66848 92 - 1
UCCCUCAGCGCUAAAUUAAAAGCUGCUACGUGUAGUUUUCGAUUUCGGCUGCUUCCAAGCCAACUAUCGUCAGCUGGCAUCAGCAUCUUCUC
.....((((...((((..((((((((.....))))))))..)))).((((.......))))...........))))((....))........ ( -23.70)
>DroSim_CAF1 69712 92 - 1
UCCCUCAGCGCUAAAUUAAAAGCUGCUACGUGUAGUUUUCGAUUUCGGCUGCUUCCAAGCCAACUAUCGUCAGCUGGCAUCAGCAUCUUCUC
.....((((...((((..((((((((.....))))))))..)))).((((.......))))...........))))((....))........ ( -23.70)
>DroEre_CAF1 69915 92 - 1
UCCCUCCGCUCCAAAUUAAAAGCUGCUACGUGUAGUUUUCGAUUUCGGCUGCUGCCAAGCCAACUAUCGUCAGCUGGCAUCAGCCUCUUCUC
............((((..((((((((.....))))))))..)))).(((((.(((((.((..((....))..))))))).)))))....... ( -30.60)
>DroYak_CAF1 69642 92 - 1
UCCCUCAGCACUAAAUUAAAAGCUGCUACGUGUAGUUUUCGAUUUCGGCUGCUUUCAAGCCAACUAUCGUCAGCUGGCAUCAGCCUCUUCUC
......(((...((((..((((((((.....))))))))..)))).((((.......))))...........)))(((....)))....... ( -23.50)
>consensus
UCCCUCAGCGCUAAAUUAAAAGCUGCUACGUGUAGUUUUCGAUUUCGGCUGCUUCCAAGCCAACUAUCGUCAGCUGGCAUCAGCAUCUUCUC
.....((((.(.((((..((((((((.....))))))))..)))).))))).......((((.((......)).)))).............. (-22.36 = -22.56 +   0.20)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:23:23 2006