Locus 989

Sequence ID	2L_DroMel_CAF1
Location	2,858,059 – 2,858,153
Length	94
Max. P	0.991714

overview

Window 6

Location	2,858,059 – 2,858,153
Length	94
Sequences	6
Columns	100
Reading direction	forward
Mean pairwise identity	71.83
Mean single sequence MFE	-23.26
Consensus MFE	-14.45
Energy contribution	-15.28
Covariance contribution	0.83
Combinations/Pair	1.00
Mean z-score	-2.25
Structure conservation index	0.62
SVM decision value	2.28
SVM RNA-class probability	0.991714
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2858059 94 + 22407834
UGCGCCGCCCACUUUCCGCCCGGUGCACUUGCACCCAAAUUGCACUCAAUUUGCACCGGGCGC-----CUUUCCCUUUCCUCCGCUCUCCACGCCCCAU-
.(((............(((((((((((..((((.......)))).......))))))))))).-----..............)))..............- ( -25.43)
>DroPse_CAF1 17910 92 + 1
UGCGC---CUACGUUCGACUCGGUGCAGCUGCACCUAAAUUGCACUCAACGCGCACUCAGCGC-----CAAGCGAACGCCUCCCCUCCCGUCACUCCCUC
.....---...((((((.((.(((((....)))))...............((((.....))))-----..))))))))...................... ( -23.10)
>DroSec_CAF1 8545 94 + 1
UGCGCCGCCCACUUUCCGCACGGUGCACUUGCACCCAAAUUGCACUCAAUUUGCACCGGGCGC-----CUUUCUCUCUCCUCCGCUCUCCUCGCCCCAU-
.(((((((.........)).(((((((..((((.......)))).......))))))))))))-----...............................- ( -23.20)
>DroSim_CAF1 8472 94 + 1
UGCGCCGCCCACUUUCCGCCCGGUGCACUUGCACCCAAAUUGCACUCAAUUUGCACCGGGCGC-----CUUUCUCUCUCCUCCGCUCUCCUUGCCCCAU-
.(((............(((((((((((..((((.......)))).......))))))))))).-----..............)))..............- ( -25.43)
>DroAna_CAF1 7535 94 + 1
UGCGCCACCCACAACACGCCCAGUGCAAGUGCACCCAUGUUGCACCCAAU-CGCACUUGGCCAACGAAUUGUGUCUUUGCCCCCCU----UUGCCCCCU-
.(((.....(((((...(((.(((((..(((((.......))))).....-.))))).))).......)))))....)))......----.........- ( -19.30)
>DroPer_CAF1 16961 92 + 1
UGCGC---CUACGUUCGACUCGGUGCAGCUGCACCUAAAUUGCACUCAACGCGCACUCAGCGC-----CAAGCGAACGCCUCCCCUCCCGUCACUCCCUC
.....---...((((((.((.(((((....)))))...............((((.....))))-----..))))))))...................... ( -23.10)
>consensus
UGCGCCGCCCACUUUCCGCCCGGUGCACUUGCACCCAAAUUGCACUCAAUUCGCACCGGGCGC_____CUUUCUCUCUCCUCCCCUCUCCUCGCCCCAU_
.(((((...............(((((....))))).....(((.........)))...)))))..................................... (-14.45 = -15.28 +   0.83)

alignment

secondary structure

dotplot

Window 7

Location	2,858,059 – 2,858,153
Length	94
Sequences	6
Columns	100
Reading direction	reverse
Mean pairwise identity	71.83
Mean single sequence MFE	-31.50
Consensus MFE	-18.64
Energy contribution	-18.92
Covariance contribution	0.28
Combinations/Pair	1.14
Mean z-score	-1.59
Structure conservation index	0.59
SVM decision value	0.90
SVM RNA-class probability	0.876944
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2858059 94 - 22407834
-AUGGGGCGUGGAGAGCGGAGGAAAGGGAAAG-----GCGCCCGGUGCAAAUUGAGUGCAAUUUGGGUGCAAGUGCACCGGGCGGAAAGUGGGCGGCGCA
-.....((((.(...((...............-----.(((((((((((.......((((.......))))..)))))))))))....))...).)))). ( -33.65)
>DroPse_CAF1 17910 92 - 1
GAGGGAGUGACGGGAGGGGAGGCGUUCGCUUG-----GCGCUGAGUGCGCGUUGAGUGCAAUUUAGGUGCAGCUGCACCGAGUCGAACGUAG---GCGCA
......(((.(....).....(((((((((((-----...((((((((((.....)))).))))))((((....)))))))).)))))))..---.))). ( -32.00)
>DroSec_CAF1 8545 94 - 1
-AUGGGGCGAGGAGAGCGGAGGAGAGAGAAAG-----GCGCCCGGUGCAAAUUGAGUGCAAUUUGGGUGCAAGUGCACCGUGCGGAAAGUGGGCGGCGCA
-((.(((((.......(........)......-----.))))).)).(((((((....)))))))(((((....)))))((((.(........).)))). ( -31.44)
>DroSim_CAF1 8472 94 - 1
-AUGGGGCAAGGAGAGCGGAGGAGAGAGAAAG-----GCGCCCGGUGCAAAUUGAGUGCAAUUUGGGUGCAAGUGCACCGGGCGGAAAGUGGGCGGCGCA
-..............(((..............-----.(((((((((((.......((((.......))))..)))))))))))....(....)..))). ( -30.40)
>DroAna_CAF1 7535 94 - 1
-AGGGGGCAA----AGGGGGGCAAAGACACAAUUCGUUGGCCAAGUGCG-AUUGGGUGCAACAUGGGUGCACUUGCACUGGGCGUGUUGUGGGUGGCGCA
-.........----....(.((.....((((((....((.(((.(((((-....((((((.......)))))))))))))).)).))))))....)).). ( -29.50)
>DroPer_CAF1 16961 92 - 1
GAGGGAGUGACGGGAGGGGAGGCGUUCGCUUG-----GCGCUGAGUGCGCGUUGAGUGCAAUUUAGGUGCAGCUGCACCGAGUCGAACGUAG---GCGCA
......(((.(....).....(((((((((((-----...((((((((((.....)))).))))))((((....)))))))).)))))))..---.))). ( -32.00)
>consensus
_AGGGGGCGAGGAGAGCGGAGGAGAGAGAAAG_____GCGCCCAGUGCAAAUUGAGUGCAAUUUGGGUGCAAGUGCACCGGGCGGAAAGUGGGCGGCGCA
.....................................(((((...((((.......)))).....(((((....)))))...............))))). (-18.64 = -18.92 +   0.28)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:50:25 2006