Locus 6698

Sequence ID 2L_DroMel_CAF1
Location 18,729,529 – 18,729,649
Length 120
Max. P 0.980637
window10694 window10695

overview

Window 4

Location 18,729,529 – 18,729,649
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 99.50
Mean single sequence MFE -36.41
Consensus MFE -34.87
Energy contribution -35.27
Covariance contribution 0.40
Combinations/Pair 1.00
Mean z-score -1.89
Structure conservation index 0.96
SVM decision value 1.87
SVM RNA-class probability 0.980637
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18729529 120 + 22407834
AUUAACAUACGGUCAGAGAAGGGUCUCUGGUCUUAACUUGUGUGUCCUACUUGGCACGAGACUGGAAUCGGGCAUUUUCAAUGUCCAUGUCCAUGUUCAAGACCAUGUCAUGUGCCUUCU
....(((((((..((((((....))))))..).......)))))).......((((((((..((((...((((((.....))))))...))))..)))..(((...)))..))))).... ( -38.41)
>DroSec_CAF1 22140 120 + 1
AUUAACAUACGGUCAGAGAAGGGUCUCUGGUCUUAACUUGUGUGUCCUACUUGGCACGAGACUGGAAUCGGGCAUUUUCAAUGUCCAUGUCCAUGUUCAAGACCAUGUCAUGUGCCUUCU
....(((((((..((((((....))))))..).......)))))).......((((((((..((((...((((((.....))))))...))))..)))..(((...)))..))))).... ( -38.41)
>DroSim_CAF1 20639 120 + 1
AUUAACAUACGGUCAGAGAAGGGUCUCUGGUCUUAACUUGUGUGUCCUACUUGGCACGAGACUGGAAUCGGGCAUUUUCAAUGUCCAUGUCCAUGUUCAAGACCAUGUCAUGUGCCUUCU
....(((((((..((((((....))))))..).......)))))).......((((((((..((((...((((((.....))))))...))))..)))..(((...)))..))))).... ( -38.41)
>DroEre_CAF1 22394 120 + 1
AUUAACAUACGGUCAGAGAAGGGUCUCUAGUCUUAACUUGUGUGUCCUACUUGGCACGAGACUGGAAUCGGGCAUUUUCAAUGUCCAUGUCCAUGUUCAAGACCAUGUCAUGUGCCUUCU
....((((((((..(((((....)))))..)).......)))))).......((((((((..((((...((((((.....))))))...))))..)))..(((...)))..))))).... ( -33.41)
>DroYak_CAF1 22352 120 + 1
AUUAACAUACGGUCAGAGAAGGGUCUCUAGUCUUAACUUGUGUGUCCUACUUGGCACGAGACUGGAAUCGGGCAUUUUCAAUGUCCAUGUCCAUGUUCAAGACCAUGUCAUGUGCCUUCU
....((((((((..(((((....)))))..)).......)))))).......((((((((..((((...((((((.....))))))...))))..)))..(((...)))..))))).... ( -33.41)
>consensus
AUUAACAUACGGUCAGAGAAGGGUCUCUGGUCUUAACUUGUGUGUCCUACUUGGCACGAGACUGGAAUCGGGCAUUUUCAAUGUCCAUGUCCAUGUUCAAGACCAUGUCAUGUGCCUUCU
....(((((((((((((((....))))))).......)))))))).......((((((((..((((...((((((.....))))))...))))..)))..(((...)))..))))).... (-34.87 = -35.27 +   0.40)

alignment

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secondary structure

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dotplot

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Window 5

Location 18,729,529 – 18,729,649
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 99.50
Mean single sequence MFE -32.88
Consensus MFE -33.06
Energy contribution -32.82
Covariance contribution -0.24
Combinations/Pair 1.03
Mean z-score -1.54
Structure conservation index 1.01
SVM decision value 1.16
SVM RNA-class probability 0.924127
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18729529 120 - 22407834
AGAAGGCACAUGACAUGGUCUUGAACAUGGACAUGGACAUUGAAAAUGCCCGAUUCCAGUCUCGUGCCAAGUAGGACACACAAGUUAAGACCAGAGACCCUUCUCUGACCGUAUGUUAAU
..........((((((((((((((...(((((.((((.((((........)))))))))))..(((((.....)).))).))..))))))))(((((....)))))......)))))).. ( -33.60)
>DroSec_CAF1 22140 120 - 1
AGAAGGCACAUGACAUGGUCUUGAACAUGGACAUGGACAUUGAAAAUGCCCGAUUCCAGUCUCGUGCCAAGUAGGACACACAAGUUAAGACCAGAGACCCUUCUCUGACCGUAUGUUAAU
..........((((((((((((((...(((((.((((.((((........)))))))))))..(((((.....)).))).))..))))))))(((((....)))))......)))))).. ( -33.60)
>DroSim_CAF1 20639 120 - 1
AGAAGGCACAUGACAUGGUCUUGAACAUGGACAUGGACAUUGAAAAUGCCCGAUUCCAGUCUCGUGCCAAGUAGGACACACAAGUUAAGACCAGAGACCCUUCUCUGACCGUAUGUUAAU
..........((((((((((((((...(((((.((((.((((........)))))))))))..(((((.....)).))).))..))))))))(((((....)))))......)))))).. ( -33.60)
>DroEre_CAF1 22394 120 - 1
AGAAGGCACAUGACAUGGUCUUGAACAUGGACAUGGACAUUGAAAAUGCCCGAUUCCAGUCUCGUGCCAAGUAGGACACACAAGUUAAGACUAGAGACCCUUCUCUGACCGUAUGUUAAU
..........((((((((((((((...(((((.((((.((((........)))))))))))..(((((.....)).))).))..)))))))((((((....))))))....))))))).. ( -31.80)
>DroYak_CAF1 22352 120 - 1
AGAAGGCACAUGACAUGGUCUUGAACAUGGACAUGGACAUUGAAAAUGCCCGAUUCCAGUCUCGUGCCAAGUAGGACACACAAGUUAAGACUAGAGACCCUUCUCUGACCGUAUGUUAAU
..........((((((((((((((...(((((.((((.((((........)))))))))))..(((((.....)).))).))..)))))))((((((....))))))....))))))).. ( -31.80)
>consensus
AGAAGGCACAUGACAUGGUCUUGAACAUGGACAUGGACAUUGAAAAUGCCCGAUUCCAGUCUCGUGCCAAGUAGGACACACAAGUUAAGACCAGAGACCCUUCUCUGACCGUAUGUUAAU
..........((((((((((((((...(((((.((((.((((........)))))))))))..(((((.....)).))).))..)))))))((((((....))))))....))))))).. (-33.06 = -32.82 +  -0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:17:49 2006