Locus 23

Sequence ID	3R_DroMel_CAF1
Location	205,251 – 205,371
Length	120
Max. P	0.993958

overview

Window 9

Location	205,251 – 205,371
Length	120
Sequences	5
Columns	120
Reading direction	forward
Mean pairwise identity	91.33
Mean single sequence MFE	-40.62
Consensus MFE	-33.56
Energy contribution	-34.28
Covariance contribution	0.72
Combinations/Pair	1.10
Mean z-score	-1.29
Structure conservation index	0.83
SVM decision value	-0.03
SVM RNA-class probability	0.519818
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 205251 120 + 27905053
CUUCUUCCUGCUGACCAACCCGCUUAAUGUGCUGGCCUCCGCCUCGAAGUUGGAGGAGGCCCGCCAGAUUGUGAUAAAGUACCGGGCUGGUAAGAAAGAAGAGUAGGUAACCAAAUUAGA
.((((((...((.((((.((((......((((((((((((.((........)).)))))))(((......)))....))))))))).)))).))...))))))................. ( -42.00)
>DroSec_CAF1 30998 120 + 1
CUUCUUCCUGCUGACCAACCCGCUGAAUGUGCUGGCCUCCGCCUCGAAGUUGGAGGAGGCCCGCCAGAUCGUGAUAAAGUACCGGGCUGGUAAGAAAGUAGAGUAAGUCACCAAAUUAGC
...(((((((((.((((.((((..((.((.((.(((((((.((........)).))))))).))))..))(((......))))))).)))).....))))).).)))............. ( -40.90)
>DroSim_CAF1 31788 120 + 1
CUUCUUCCUGCUGACCAACCCGCUGAAUGUGCUGGCCUCCGCCUCGAAGUUGGAGGAGGCCCGCCAGAUCGUGAUAAAGUACCGGGCUGGUAAGAAAGUAGAGUAAGUCACCAAAUUAGC
...(((((((((.((((.((((..((.((.((.(((((((.((........)).))))))).))))..))(((......))))))).)))).....))))).).)))............. ( -40.90)
>DroEre_CAF1 32920 118 + 1
CUUCUUCCUGCUGACCAACCCGCUUAAUGUGCUGGCCUCCGACUCGAAGUUGGAGGAGGCCCGCCAGAUAGUGCUGAGGUACCGGGCUGGUAAGAAAC--CAAUUAGUCACCAAUUUAGC
.(((((((.(((.(((....((((...((.((.(((((((..(........)..))))))).))))...))))....)))....))).)).)))))..--.................... ( -38.20)
>DroYak_CAF1 32636 120 + 1
CUUCUUCCUGCUGACCAACCCGCUUAAUGUGCUGGCCUCCGACUCGAAGUUAGAGGAGGCCCGCCAGAUAGUGCUGAGGUACCGGGCUGGUAAGAAAGAGGACUCUAUCACCAAUUUAGC
((((((.((....((((.((((.....((.((.((((((((((.....)))...))))))).))))....((((....)))))))).)))).)).))))))................... ( -41.10)
>consensus
CUUCUUCCUGCUGACCAACCCGCUUAAUGUGCUGGCCUCCGCCUCGAAGUUGGAGGAGGCCCGCCAGAUAGUGAUAAAGUACCGGGCUGGUAAGAAAGAAGAGUAAGUCACCAAAUUAGC
.((((.....((.((((.((((......((((((((((((.((........)).)))))))(((......)))....))))))))).)))).)).....))))................. (-33.56 = -34.28 +   0.72)

alignment

secondary structure

dotplot

Window 0

Location	205,251 – 205,371
Length	120
Sequences	5
Columns	120
Reading direction	reverse
Mean pairwise identity	91.33
Mean single sequence MFE	-44.04
Consensus MFE	-38.20
Energy contribution	-38.64
Covariance contribution	0.44
Combinations/Pair	1.03
Mean z-score	-2.11
Structure conservation index	0.87
SVM decision value	2.44
SVM RNA-class probability	0.993958
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 205251 120 - 27905053
UCUAAUUUGGUUACCUACUCUUCUUUCUUACCAGCCCGGUACUUUAUCACAAUCUGGCGGGCCUCCUCCAACUUCGAGGCGGAGGCCAGCACAUUAAGCGGGUUGGUCAGCAGGAAGAAG
..................(((((((.((.(((((((((((........))....((((.(((((((.((........)).))))))).)).)).....))))))))).)).))))))).. ( -47.20)
>DroSec_CAF1 30998 120 - 1
GCUAAUUUGGUGACUUACUCUACUUUCUUACCAGCCCGGUACUUUAUCACGAUCUGGCGGGCCUCCUCCAACUUCGAGGCGGAGGCCAGCACAUUCAGCGGGUUGGUCAGCAGGAAGAAG
........(....)....(((.(((.((.(((((((((((........))((....((.(((((((.((........)).))))))).))....))..))))))))).)).))).))).. ( -45.20)
>DroSim_CAF1 31788 120 - 1
GCUAAUUUGGUGACUUACUCUACUUUCUUACCAGCCCGGUACUUUAUCACGAUCUGGCGGGCCUCCUCCAACUUCGAGGCGGAGGCCAGCACAUUCAGCGGGUUGGUCAGCAGGAAGAAG
........(....)....(((.(((.((.(((((((((((........))((....((.(((((((.((........)).))))))).))....))..))))))))).)).))).))).. ( -45.20)
>DroEre_CAF1 32920 118 - 1
GCUAAAUUGGUGACUAAUUG--GUUUCUUACCAGCCCGGUACCUCAGCACUAUCUGGCGGGCCUCCUCCAACUUCGAGUCGGAGGCCAGCACAUUAAGCGGGUUGGUCAGCAGGAAGAAG
(((((((..((.....))..--))))...(((((((((.(....(((......)))((.(((((((..(........)..))))))).))......).))))))))).)))......... ( -41.50)
>DroYak_CAF1 32636 120 - 1
GCUAAAUUGGUGAUAGAGUCCUCUUUCUUACCAGCCCGGUACCUCAGCACUAUCUGGCGGGCCUCCUCUAACUUCGAGUCGGAGGCCAGCACAUUAAGCGGGUUGGUCAGCAGGAAGAAG
..................((.((((.((.(((((((((.(....(((......)))((.(((((((.((.......))..))))))).))......).))))))))).)).)))).)).. ( -41.10)
>consensus
GCUAAUUUGGUGACUUACUCUACUUUCUUACCAGCCCGGUACUUUAUCACGAUCUGGCGGGCCUCCUCCAACUUCGAGGCGGAGGCCAGCACAUUAAGCGGGUUGGUCAGCAGGAAGAAG
......................((((((.(((((((((((........))....((((.(((((((.((........)).))))))).)).)).....)))))))))....))))))... (-38.20 = -38.64 +   0.44)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:30:31 2006