Locus 4790

Sequence ID	3R_DroMel_CAF1
Location	12,521,966 – 12,522,096
Length	130
Max. P	0.584346

overview

Window 0

Location	12,521,966 – 12,522,056
Length	90
Sequences	6
Columns	104
Reading direction	reverse
Mean pairwise identity	92.04
Mean single sequence MFE	-20.50
Consensus MFE	-17.50
Energy contribution	-17.50
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.55
Structure conservation index	0.85
SVM decision value	0.10
SVM RNA-class probability	0.584346
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12521966 90 - 27905053
GGCCAACAACAUUUUAUACUCGAGCGCAUAAUAUUCAUAUGCAGGCCAUAAAAAACUUUGGCAGCUCAACGAGAGAUCUUCUUC--CGACGU------------
.....................(((((((((.......)))))..((((..........)))).))))..((..((.....))..--))....------------ ( -20.20)
>DroPse_CAF1 9847 97 - 1
GGCCAACAACAUUUUAUACUCGAGCGCAUAAUAUUCAUAUGCAGGCCAUAAAAAACUUUGGCAGCUCAACGAGAGAUCUUCUUC--CGACGUA---CC--GACG
((...................(((((((((.......)))))..((((..........)))).))))..((..((.....))..--)).....---))--.... ( -21.50)
>DroYak_CAF1 7808 90 - 1
GGCCAACAACAUUUUAUACUCGAGCGCAUAAUAUUCAUAUGCAGGCCAUAAAAAACUUUGGCAGCUCAACGAGAGAUCUUCUUC--CGACGU------------
.....................(((((((((.......)))))..((((..........)))).))))..((..((.....))..--))....------------ ( -20.20)
>DroMoj_CAF1 2554 102 - 1
GGCCAACAACAUUUUAUACUCGAGCGCAUAAUAUUCAUAUGCAGGCCAUAAAAAACUUUGGCAGCUCAACGAGAGAUCUCCAUUUUCGACU--GCUCCUUCUCG
(((..................(((((((((.......)))))..((((..........)))).))))..((((((.......))))))...--)))........ ( -20.70)
>DroAna_CAF1 11462 90 - 1
GGCCAACAACAUUUUAUACUCGAGCGCAUAAUAUUCAUAUGCAGGCCAUAAAAAACUUUGGCAGCUCAACGAGAGAUCUUCUUC--CGACGU------------
.....................(((((((((.......)))))..((((..........)))).))))..((..((.....))..--))....------------ ( -20.20)
>DroPer_CAF1 13887 90 - 1
GGCCAACAACAUUUUAUACUCGAGCGCAUAAUAUUCAUAUGCAGGCCAUAAAAAACUUUGGCAGCUCAACGAGAGAUCUUCUUC--CGACGU------------
.....................(((((((((.......)))))..((((..........)))).))))..((..((.....))..--))....------------ ( -20.20)
>consensus
GGCCAACAACAUUUUAUACUCGAGCGCAUAAUAUUCAUAUGCAGGCCAUAAAAAACUUUGGCAGCUCAACGAGAGAUCUUCUUC__CGACGU____________
..................((((((((((((.......)))))..((((..........)))).))))...)))............................... (-17.50 = -17.50 +   0.00)

alignment

secondary structure

dotplot

Window 1

Location	12,521,976 – 12,522,096
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	95.19
Mean single sequence MFE	-30.08
Consensus MFE	-27.17
Energy contribution	-27.17
Covariance contribution	0.00
Combinations/Pair	1.00
Mean z-score	-1.09
Structure conservation index	0.90
SVM decision value	0.07
SVM RNA-class probability	0.570288
Prediction	RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 12521976 120 - 27905053
CAGCUCGAGUCGAGUGCAGGAAGUGAAACGUAGGAAGUGUGGCCAACAACAUUUUAUACUCGAGCGCAUAAUAUUCAUAUGCAGGCCAUAAAAAACUUUGGCAGCUCAACGAGAGAUCUU
...((((....(((((...((((((....((.((........)).))..)))))).)))))(((((((((.......)))))..((((..........)))).))))..))))....... ( -31.90)
>DroPse_CAF1 9864 116 - 1
----UCGAGUGGAGUGCAGGAAGUGGAACGUAGGAAGUGUGGCCAACAACAUUUUAUACUCGAGCGCAUAAUAUUCAUAUGCAGGCCAUAAAAAACUUUGGCAGCUCAACGAGAGAUCUU
----(((....(((((...((((((....((.((........)).))..)))))).)))))(((((((((.......)))))..((((..........)))).))))..)))........ ( -29.60)
>DroEre_CAF1 8581 120 - 1
CAGCUCGAGUCGAGUGCAGGAAGUGAAACGUAGGAAGUGUGGCCAACAACAUUUUAUACUCGAGCGCAUAAUAUUCAUAUGCAGGCCAUAAAAAACUUUGGCAGCUCAACGAGAGAUCUU
...((((....(((((...((((((....((.((........)).))..)))))).)))))(((((((((.......)))))..((((..........)))).))))..))))....... ( -31.90)
>DroYak_CAF1 7818 120 - 1
CAGCUCGAGUCGAGUGCAGGAAGUGAAACGUAGGAAGUGUGGCCAACAACAUUUUAUACUCGAGCGCAUAAUAUUCAUAUGCAGGCCAUAAAAAACUUUGGCAGCUCAACGAGAGAUCUU
...((((....(((((...((((((....((.((........)).))..)))))).)))))(((((((((.......)))))..((((..........)))).))))..))))....... ( -31.90)
>DroAna_CAF1 11472 110 - 1
----------CGAGUGCAGGAAGUGAAACGUAGGAAGUGUGGCCAACAACAUUUUAUACUCGAGCGCAUAAUAUUCAUAUGCAGGCCAUAAAAAACUUUGGCAGCUCAACGAGAGAUCUU
----------.(((((...((((((....((.((........)).))..)))))).)))))(((((((((.......)))))..((((..........)))).))))..(....)..... ( -26.90)
>DroPer_CAF1 13897 116 - 1
----CCGAGUGGAGUGCAGGAAGUGGAACGUAGGAAGUGUGGCCAACAACAUUUUAUACUCGAGCGCAUAAUAUUCAUAUGCAGGCCAUAAAAAACUUUGGCAGCUCAACGAGAGAUCUU
----.((....(((((...((((((....((.((........)).))..)))))).)))))(((((((((.......)))))..((((..........)))).))))..))......... ( -28.30)
>consensus
____UCGAGUCGAGUGCAGGAAGUGAAACGUAGGAAGUGUGGCCAACAACAUUUUAUACUCGAGCGCAUAAUAUUCAUAUGCAGGCCAUAAAAAACUUUGGCAGCUCAACGAGAGAUCUU
...........(((((...((((((....((.((........)).))..)))))).)))))(((((((((.......)))))..((((..........)))).))))..(....)..... (-27.17 = -27.17 +   0.00)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:39:01 2006