Locus 6250

Sequence ID	3L_DroMel_CAF1
Location	16,641,010 – 16,641,170
Length	160
Max. P	0.924194

overview

Window 2

Location	16,641,010 – 16,641,130
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	79.89
Mean single sequence MFE	-42.93
Consensus MFE	-24.23
Energy contribution	-24.68
Covariance contribution	0.45
Combinations/Pair	1.38
Mean z-score	-2.32
Structure conservation index	0.56
SVM decision value	0.80
SVM RNA-class probability	0.853082
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16641010 120 - 23771897
UCCGUUAAGAGAAGUGCGACUCAGCGAACUGGCGUAGUCGGCCAUUCGCUGGGUGCGUUUCUUCUUAUCGGACUGCACAUCGAGUUCCUUCUCCAGGUCCCUGAUCUUGACCUCCAGUCG
..((.((((((((((((.((((((((((.((((.......))))))))))))))))))))).))))).))(((((......(((......))).(((((.........))))).))))). ( -47.20)
>DroVir_CAF1 11854 120 - 1
CCCGGUCAGUGGAGUGCGUCCCAGUGCAUUGGCGUACUCGGUUAUGCGCUGGCUGCGCUUCUUGCGAUCAGCCUGCACGUCCAGCUCCUUCUCCAGCUCACGUAUCUUGGCCUCCAUGCG
...((((((((((((((.....(((((((.(.((....)).).)))))))((((((((.....)))..))))).)))).))))(((........))).........))))))........ ( -42.10)
>DroPse_CAF1 14151 120 - 1
UCCGUUAAGAGAAGAGCGACUCAGCGAACUGGCAUACUCGGCCAUUCGCUGGGUGCGCUUCUUCUUAUCGGACUGGACGUCCAGCUCCUUCUCCAUUUCCCGGAUCUUCGCCUCCAUGCG
((((....((((((((((((((((((((.((((.......)))))))))))))).))).)))))))...(((((((....)))).)))............))))....(((......))) ( -50.50)
>DroGri_CAF1 12512 120 - 1
GCCGGUUAGUGGAAUGCGACCCACUUGAUUGGCAUAUUCGGUGAUGCGUUGACUGCGCUUCUUGCGAUCCGUCUGCACAUCCAGCUCCUUCUCCAGGUCACGUAUCUUCACCUCCAUGCG
((((((((((((........)))).))))))))......((((((((((.((((.(((.....)))....(.(((......))))..........)))))))))...)))))........ ( -36.20)
>DroWil_CAF1 18103 120 - 1
ACCGCUCAGAGAGGUGCGACUCAAUGAAUUGGCAUAAUCGGCCAUGCGUUGGGUACGCUUCUUUUUAUCCGAUUGCACAUCCAGUUCCUUCUCCAACUCUCGAAUUUUCGCCUCCAUGCG
..(((...(.((((((((((((((((...((((.......))))..)))))))).)))............(((((......))))).......................))))))..))) ( -31.10)
>DroPer_CAF1 12593 120 - 1
UCCGUUAAGAGAAGAGCGACUCAGCGAACUGGCAUACUCGGCCAUUCGCUGGGUGCGCUUCUUCUUAUCGGACUGGACGUCCAGCUCCUUCUCCAUUUCCCGGAUCUUCGCCUCCAUGCG
((((....((((((((((((((((((((.((((.......)))))))))))))).))).)))))))...(((((((....)))).)))............))))....(((......))) ( -50.50)
>consensus
UCCGUUAAGAGAAGUGCGACUCAGCGAACUGGCAUACUCGGCCAUGCGCUGGGUGCGCUUCUUCUUAUCGGACUGCACAUCCAGCUCCUUCUCCAGCUCCCGGAUCUUCGCCUCCAUGCG
........((((((.(((((((((((((.((((.......)))))))))))))).)))..............(((......)))...))))))........................... (-24.23 = -24.68 +   0.45)

alignment

secondary structure

dotplot

Window 3

Location	16,641,050 – 16,641,170
Length	120
Sequences	6
Columns	120
Reading direction	reverse
Mean pairwise identity	77.17
Mean single sequence MFE	-44.78
Consensus MFE	-23.88
Energy contribution	-24.42
Covariance contribution	0.54
Combinations/Pair	1.43
Mean z-score	-2.24
Structure conservation index	0.53
SVM decision value	1.16
SVM RNA-class probability	0.924194
Prediction	RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16641050 120 - 23771897
GGUACUGGGACUGAUUUUCGAAGCAGAAGGAACCAAUCGAUCCGUUAAGAGAAGUGCGACUCAGCGAACUGGCGUAGUCGGCCAUUCGCUGGGUGCGUUUCUUCUUAUCGGACUGCACAU
......................((((..(....)......((((.((((((((((((.((((((((((.((((.......))))))))))))))))))))).))))).)))))))).... ( -44.70)
>DroVir_CAF1 11894 120 - 1
GGCACUGCGACUGAUUGUCAAAGCUAAACGAACUGAUGGACCCGGUCAGUGGAGUGCGUCCCAGUGCAUUGGCGUACUCGGUUAUGCGCUGGCUGCGCUUCUUGCGAUCAGCCUGCACGU
...((((((.(((((((.(((..........((((((.(...).))))))((((((((..(((((((((.(.((....)).).))))))))).))))))))))))))))))..)))).)) ( -47.20)
>DroGri_CAF1 12552 120 - 1
GACACUGCGACUGAUUGUCAAAGCUGAAGGAGCUGAUGGAGCCGGUUAGUGGAAUGCGACCCACUUGAUUGGCAUAUUCGGUGAUGCGUUGACUGCGCUUCUUGCGAUCCGUCUGCACAU
.....((((((.....)))..((((.....))))((((((((((((((((((........)))).))))))))....(((..((.((((.....)))).))...))))))))).)))... ( -40.90)
>DroWil_CAF1 18143 120 - 1
GAUAUUGCGAUUGAUUCUCAAAACUAAAUGAACCAAUGGAACCGCUCAGAGAGGUGCGACUCAAUGAAUUGGCAUAAUCGGCCAUGCGUUGGGUACGCUUCUUUUUAUCCGAUUGCACAU
.....((((((((....(((........)))................(((((((.(((((((((((...((((.......))))..)))))))).))).)))))))...))))))))... ( -34.50)
>DroAna_CAF1 11460 120 - 1
GGUACUGGGACUGAUUCUCGAAGCUGAAGGAACUGAUGGAUCCGUUAAGAGAAGUGCGACUCAGCGAACUGGCAUAGUCGGCCAUUCGCUGGGUGCGCUUCUUCUUGUCGGACUGCACAU
(((..(((((.....)))))..)))........((.(((.((((.((((((((((((.((((((((((.((((.......))))))))))))))))))))).))))).)))))))))... ( -48.70)
>DroPer_CAF1 12633 120 - 1
GAUAGAGGGAUUGGUUGUCGAAAGAGAACGACCCGAUGGAUCCGUUAAGAGAAGAGCGACUCAGCGAACUGGCAUACUCGGCCAUUCGCUGGGUGCGCUUCUUCUUAUCGGACUGGACGU
..(((.(((..(.(((.((....)).))).))))......((((.(((((((((.((.((((((((((.((((.......)))))))))))))))).)))).))))).)))))))..... ( -52.70)
>consensus
GAUACUGCGACUGAUUGUCAAAGCUGAAGGAACCGAUGGAUCCGUUAAGAGAAGUGCGACUCAGCGAACUGGCAUACUCGGCCAUGCGCUGGGUGCGCUUCUUCUUAUCGGACUGCACAU
..........(((((.....................((....))....((((((((((.(((((((((.((((.......)))))))))))))))))))))))...)))))......... (-23.88 = -24.42 +   0.54)

alignment

secondary structure

dotplot

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:13:46 2006