Locus 6816

Sequence ID	2L_DroMel_CAF1
Location	19,043,942 – 19,044,034
Length	92
Max. P	0.782122

overview

Window 5

Location	19,043,942 – 19,044,034
Length	92
Sequences	6
Columns	97
Reading direction	forward
Mean pairwise identity	78.82
Mean single sequence MFE	-38.77
Consensus MFE	-21.84
Energy contribution	-22.15
Covariance contribution	0.31
Combinations/Pair	1.18
Mean z-score	-1.94
Structure conservation index	0.56
SVM decision value	0.49
SVM RNA-class probability	0.757974
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19043942 92 + 22407834
ACCGCCAGCGCGAGACGCGUCGCAAUCGUUCCAACGAACGGCGACGAUCUCGCAGUCGCGAGCGGGAGCGAAGACGUUACUAGGCGGAGGCU-----
.(((((...((((((..((((((...(((((....))))))))))).)))))).(((....((....))...))).......))))).....----- ( -43.90)
>DroVir_CAF1 11955 97 + 1
AUCGUCCCCGGGAUAAUCGUCGGAAUCGCUCCAACGAACGUCGACGUUCGCGCAGUCGCGAUAGGGAGCGACGGCGUUACUAGACAGUAACUAAGUG
...((((...))))....((((...(((((((..((((((....))))))(((....)))....)))))))))))((((((....))))))...... ( -35.10)
>DroGri_CAF1 13300 97 + 1
AUCGUCAGCGGGAUACACGUCGUAAUCGCUCAAAUGAACGUCGACGCUCGCGCAGUCGCGAUCGGGAGCGACGGCGUUACUAGGCAGUAACUAAAUG
...(((.(((.((....(((((....((.((....)).)).))))).)).))).(((((........))))))))((((((....))))))...... ( -32.40)
>DroEre_CAF1 5689 92 + 1
ACCGCCAGCGCGACACUCGUCGGAAUCGUUCUAAUGAACGGCGACGAUCUCGCAGUCGCGAGCGGGAGCGAAGACGUUACUAGGCGGAGGCU-----
.(((((...((((...((((((...((((((....))))))))))))..)))).(((....((....))...))).......))))).....----- ( -39.20)
>DroMoj_CAF1 11587 97 + 1
AUCGUCAGCGAGAUACUCGACGCAAUCGAUCAACCGAGCGUCGGCGUUCGCGCAGUCGCGAGCGGGAGCGACGGCGUUACUAGACAGUAACUAAAUG
.(((((.((.......(((((((..(((......))))))))))((((((((....))))))))...))))))).((((((....))))))...... ( -37.50)
>DroAna_CAF1 12709 92 + 1
ACCGGCAGCGCGAUUCGCGCCGUAACCGUUCCAAUGAACGGCGGCGAUCGCGCAGUCGCGAGCGGGAACGGCGACGUUACUAGGCGGAGGCU-----
.(((.(.(((((((...(((((...((((((....)))))))))))))))))).(((((...((....))))))).......).))).....----- ( -44.50)
>consensus
ACCGUCAGCGCGAUACUCGUCGCAAUCGUUCCAACGAACGGCGACGAUCGCGCAGUCGCGAGCGGGAGCGACGACGUUACUAGGCAGAAACU_____
...(((.(((.((....(((((....((.((....)).)).))))).)).))).(((((........)))))..........)))............ (-21.84 = -22.15 +   0.31)

alignment

secondary structure

dotplot

Window 6

Location	19,043,942 – 19,044,034
Length	92
Sequences	6
Columns	97
Reading direction	reverse
Mean pairwise identity	78.82
Mean single sequence MFE	-36.53
Consensus MFE	-24.15
Energy contribution	-24.40
Covariance contribution	0.25
Combinations/Pair	1.24
Mean z-score	-1.58
Structure conservation index	0.66
SVM decision value	0.56
SVM RNA-class probability	0.782122
Prediction	RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 19043942 92 - 22407834
-----AGCCUCCGCCUAGUAACGUCUUCGCUCCCGCUCGCGACUGCGAGAUCGUCGCCGUUCGUUGGAACGAUUGCGACGCGUCUCGCGCUGGCGGU
-----.....(((((.(((.......((((........))))..((((((((((((((((((....)))))...)))))).))))))))))))))). ( -43.10)
>DroVir_CAF1 11955 97 - 1
CACUUAGUUACUGUCUAGUAACGCCGUCGCUCCCUAUCGCGACUGCGCGAACGUCGACGUUCGUUGGAGCGAUUCCGACGAUUAUCCCGGGGACGAU
......((((((....))))))...((((.(((((.(((((....))))).(((((.(((((....)))))....)))))........))))))))) ( -35.10)
>DroGri_CAF1 13300 97 - 1
CAUUUAGUUACUGCCUAGUAACGCCGUCGCUCCCGAUCGCGACUGCGCGAGCGUCGACGUUCAUUUGAGCGAUUACGACGUGUAUCCCGCUGACGAU
......((((((....))))))..((((((......(((((....)))))((((((.(((((....)))))....)))))).......)).)))).. ( -32.60)
>DroEre_CAF1 5689 92 - 1
-----AGCCUCCGCCUAGUAACGUCUUCGCUCCCGCUCGCGACUGCGAGAUCGUCGCCGUUCAUUAGAACGAUUCCGACGAGUGUCGCGCUGGCGGU
-----.....(((((.(((.......((((........))))..((((.(((((((.(((((....)))))....)))))).).)))))))))))). ( -36.00)
>DroMoj_CAF1 11587 97 - 1
CAUUUAGUUACUGUCUAGUAACGCCGUCGCUCCCGCUCGCGACUGCGCGAACGCCGACGCUCGGUUGAUCGAUUGCGUCGAGUAUCUCGCUGACGAU
......((((((....))))))((.(((((........))))).))((((..((((((((((((....))))..)))))).))...))))....... ( -34.90)
>DroAna_CAF1 12709 92 - 1
-----AGCCUCCGCCUAGUAACGUCGCCGUUCCCGCUCGCGACUGCGCGAUCGCCGCCGUUCAUUGGAACGGUUACGGCGCGAAUCGCGCUGCCGGU
-----.....(((.(.......(((((.((....))..))))).((((((((((((((((((....))))))...)))))...))))))).).))). ( -37.50)
>consensus
_____AGCCACCGCCUAGUAACGCCGUCGCUCCCGCUCGCGACUGCGCGAUCGUCGACGUUCAUUGGAACGAUUACGACGAGUAUCGCGCUGACGAU
...........((((.(((..(((.(((((........))))).)))....(((((.(((((....)))))....)))))........))))))).. (-24.15 = -24.40 +   0.25)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:20:34 2006