Locus 7469

Sequence ID 3L_DroMel_CAF1
Location 20,033,134 – 20,033,254
Length 120
Max. P 0.874088
window12142 window12143

overview

Window 2

Location 20,033,134 – 20,033,254
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 92.33
Mean single sequence MFE -39.02
Consensus MFE -34.12
Energy contribution -34.82
Covariance contribution 0.70
Combinations/Pair 1.03
Mean z-score -1.76
Structure conservation index 0.87
SVM decision value 0.88
SVM RNA-class probability 0.874088
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20033134 120 + 23771897
CUUCUCGUCGAUGGAAUCGGAGCAGAUGGCUAGGAUUAUUGUCGCCACAUAGAUCAUGGUGAUGAUGAGCCACCGAAACGAGAUCAGUUCGCUGGCAUUCGAGAAGCUCCAGCGACAGAU
..(((.((((.((((.(((((((.....))).((.((((..((((((.........))))))..)))).)).))))..((((.((((....))))..))))......)))).))))))). ( -41.30)
>DroSec_CAF1 276 120 + 1
CUUCUCGUCGAUGGAAUCGGAGCAGAUGGUUAGGAUUAUUGUCGCCACAUAGAUCAUGGUGAUGAUGAGCCACCGAAAGGAGAUCAGUUCGCUGGCGUUCGAGAAGCUCCAGCGACAGAU
..(((.((((.((((.(((((((((.(((((.((.((((..((((((.........))))))..)))).)).((....)).))))).....)).)).))))).....)))).))))))). ( -41.80)
>DroSim_CAF1 271 120 + 1
CUUCUCGUCGAUGGAAUCGGAGCAGAUGGUUAGGAUUAUUGUCGCCACAUAGAUCAUGGUGAUGAUGAGCCACCGAAACGAGAUCAGUUCGCUGGCGUUCGAGAAGCUCCAGCGACAGAU
..(((.((((.((((.((.((((............((((..((((((.........))))))..))))((((.((((..(....)..)))).))))))))..))...)))).))))))). ( -39.80)
>DroEre_CAF1 4418 120 + 1
CUUCUCGUCGAUGGAAUCGGAGCAAAUAGUGAGGAUUAUUGUCGCCACGUAGAUCAUGGUGAUGAUGAGCCACCGAAACGAGAUCAGUUCGCUGGCGUUCGAGAAGCUCCAGCGACAGAU
..(((.((((.((((.((.((((............((((..((((((.(.....).))))))..))))((((.((((..(....)..)))).))))))))..))...)))).))))))). ( -40.90)
>DroWil_CAF1 114512 120 + 1
UUUCUCAUCGAUAGAGUCCGAGCAUAUGGUGAGUAUUAUUGUCGCUAUGUAGAUCAUUGUGAUGAUGAGCCAACGAAAUGAUAUCAGUUCGCUGGCAUUUGAAAAGCUCCAACGACAAAU
...............(((.((((............((((..((((.(((.....))).))))..))))((((.((((.((....)).)))).)))).........))))....))).... ( -31.40)
>DroYak_CAF1 52 120 + 1
CUUCUCGUCGAUGGAAUCGGAGCAAAUAGUUAGGAUUAUUGUCGCCACAUAGAUCAUGGUGAUGAUAAGCCACCGAAACGAGAUCAGUUCGCUGGCAUUCGAGAAGCUCCAGCGACAGAU
..(((.((((.((((.(((((((.....))).((.((((..((((((.........))))))..)))).)).))))..((((.((((....))))..))))......)))).))))))). ( -38.90)
>consensus
CUUCUCGUCGAUGGAAUCGGAGCAGAUGGUUAGGAUUAUUGUCGCCACAUAGAUCAUGGUGAUGAUGAGCCACCGAAACGAGAUCAGUUCGCUGGCAUUCGAGAAGCUCCAGCGACAGAU
..(((.((((.((((.(((((..............((((..((((((.........))))))..))))((((.((((..(....)..)))).)))).))))).....)))).))))))). (-34.12 = -34.82 +   0.70)

alignment

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secondary structure

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dotplot

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Window 3

Location 20,033,134 – 20,033,254
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 92.33
Mean single sequence MFE -33.00
Consensus MFE -30.27
Energy contribution -29.75
Covariance contribution -0.52
Combinations/Pair 1.22
Mean z-score -1.34
Structure conservation index 0.92
SVM decision value 0.78
SVM RNA-class probability 0.848587
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 20033134 120 - 23771897
AUCUGUCGCUGGAGCUUCUCGAAUGCCAGCGAACUGAUCUCGUUUCGGUGGCUCAUCAUCACCAUGAUCUAUGUGGCGACAAUAAUCCUAGCCAUCUGCUCCGAUUCCAUCGACGAGAAG
.((..(((((((..(.....)....)))))))...))(((((..(((((((.......((.((((.......)))).))....((((..(((.....)))..)))))))))))))))).. ( -35.60)
>DroSec_CAF1 276 120 - 1
AUCUGUCGCUGGAGCUUCUCGAACGCCAGCGAACUGAUCUCCUUUCGGUGGCUCAUCAUCACCAUGAUCUAUGUGGCGACAAUAAUCCUAACCAUCUGCUCCGAUUCCAUCGACGAGAAG
.(((((((.(((((....(((...((((.((((..(....)..)))).))))......((.((((.......)))).))......................)))))))).)))).))).. ( -31.10)
>DroSim_CAF1 271 120 - 1
AUCUGUCGCUGGAGCUUCUCGAACGCCAGCGAACUGAUCUCGUUUCGGUGGCUCAUCAUCACCAUGAUCUAUGUGGCGACAAUAAUCCUAACCAUCUGCUCCGAUUCCAUCGACGAGAAG
.(((((((.(((((....(((...((((.((((.((....)).)))).))))......((.((((.......)))).))......................)))))))).)))).))).. ( -32.60)
>DroEre_CAF1 4418 120 - 1
AUCUGUCGCUGGAGCUUCUCGAACGCCAGCGAACUGAUCUCGUUUCGGUGGCUCAUCAUCACCAUGAUCUACGUGGCGACAAUAAUCCUCACUAUUUGCUCCGAUUCCAUCGACGAGAAG
.(((((((.(((((....(((...((((.((((.((....)).)))).))))......((.(((((.....))))).))......................)))))))).)))).))).. ( -34.70)
>DroWil_CAF1 114512 120 - 1
AUUUGUCGUUGGAGCUUUUCAAAUGCCAGCGAACUGAUAUCAUUUCGUUGGCUCAUCAUCACAAUGAUCUACAUAGCGACAAUAAUACUCACCAUAUGCUCGGACUCUAUCGAUGAGAAA
..(((((((((.((..........(((((((((.((....)).)))))))))..(((((....)))))))...))))))))).....((((........((((......))))))))... ( -30.60)
>DroYak_CAF1 52 120 - 1
AUCUGUCGCUGGAGCUUCUCGAAUGCCAGCGAACUGAUCUCGUUUCGGUGGCUUAUCAUCACCAUGAUCUAUGUGGCGACAAUAAUCCUAACUAUUUGCUCCGAUUCCAUCGACGAGAAG
.(((((((.(((((....(((...((((.((((.((....)).)))).))))((((..((.((((.......)))).))..))))................)))))))).)))).))).. ( -33.40)
>consensus
AUCUGUCGCUGGAGCUUCUCGAACGCCAGCGAACUGAUCUCGUUUCGGUGGCUCAUCAUCACCAUGAUCUAUGUGGCGACAAUAAUCCUAACCAUCUGCUCCGAUUCCAUCGACGAGAAG
.(((((((.(((((....(((...((((.((((.((....)).)))).))))......((.(((((.....))))).))......................)))))))).)))).))).. (-30.27 = -29.75 +  -0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:47:58 2006