Locus 6378

Sequence ID X_DroMel_CAF1
Location 16,025,153 – 16,025,273
Length 120
Max. P 0.999458
window10411 window10412

overview

Window 1

Location 16,025,153 – 16,025,273
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 80.68
Mean single sequence MFE -36.08
Consensus MFE -24.66
Energy contribution -24.94
Covariance contribution 0.28
Combinations/Pair 1.15
Mean z-score -4.23
Structure conservation index 0.68
SVM decision value 3.59
SVM RNA-class probability 0.999423
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16025153 120 + 22224390
AUUUUGUCUUCUUAGUAUUACUUCUAGUCCAAAACAUGGACAAAUAAUAGCUCUGCCCGACCAUUGGAACAUUUGAUAAGGUACUUAUGAAAUGUACCAAUGAGCCAGCAGUGCUAUUAU
..........................(((((.....)))))..((((((((.((((..(..((((((.((((((.(((((...))))).)))))).))))))..)..)))).)))))))) ( -40.00)
>DroSec_CAF1 92829 116 + 1
AUUUCCUCUUCUUAGGAUUACUUCUAUUCCAAGACAUGGACAAGUAAUAGCUCUGCCCGACCAUUGGAACAUUUCAUAAGGUACUUAUGAAAUGUACCAAUGUGCCAGCAGUGCAA----
...((((......))))((((((....((((.....)))).))))))..((.((((..(..((((((.((((((((((((...)))))))))))).))))))..)..)))).))..---- ( -40.00)
>DroSim_CAF1 85861 115 + 1
AUUUCCUUUUUUUAGAAUUACUUCUAU-CCAAAACAUGGACCAGUAAUAGCUUUGCCCGACCAUUGGAACAUUUCAUAAGGUACUUAUGAAAUGUACAAAUGAGCCAGCAGUGCUG----
................((((((....(-(((.....))))..))))))(((.((((..(..((((.(.((((((((((((...)))))))))))).).))))..)..)))).))).---- ( -29.20)
>DroEre_CAF1 93425 115 + 1
CUUUCUUGGUCUCAGUACUACUCCAUCUCCAGAACAUGAACUAA-AGCAGCUCUGCCAGACCAUUGGACCCUUUGAUAAGGUACUUAUGAAAGGUACCAAUGGGCCCGCAGUGCUA----
.....(((((.(((((.((...........)).)).))))))))-...(((.((((....(((((((..(((((.(((((...))))).)))))..)))))))....)))).))).---- ( -35.40)
>DroYak_CAF1 76074 114 + 1
UUAACUUGUUCUCAAUAUUACUCCUAUUCCAAAACAAGGACUAA-GACAGCUCUGCCGGACCAUUGGAACCU-GGAUAAGGCACUUAUGAAAGGUACCAAUGAGCCCGCAGUGCUG----
....((((((...((((.......))))....))))))......-..((((.((((.((..((((((.((((-..(((((...)))))...)))).))))))..)).)))).))))---- ( -35.80)
>consensus
AUUUCCUCUUCUUAGUAUUACUUCUAUUCCAAAACAUGGACAAAUAAUAGCUCUGCCCGACCAUUGGAACAUUUGAUAAGGUACUUAUGAAAUGUACCAAUGAGCCAGCAGUGCUA____
...............................................((((.((((..(..((((((.((((((.(((((...))))).)))))).))))))..)..)))).)))).... (-24.66 = -24.94 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 16,025,153 – 16,025,273
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 80.68
Mean single sequence MFE -40.96
Consensus MFE -31.08
Energy contribution -31.32
Covariance contribution 0.24
Combinations/Pair 1.18
Mean z-score -4.45
Structure conservation index 0.76
SVM decision value 3.62
SVM RNA-class probability 0.999458
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16025153 120 - 22224390
AUAAUAGCACUGCUGGCUCAUUGGUACAUUUCAUAAGUACCUUAUCAAAUGUUCCAAUGGUCGGGCAGAGCUAUUAUUUGUCCAUGUUUUGGACUAGAAGUAAUACUAAGAAGACAAAAU
((((((((.(((((.(..((((((.((((((.(((((...))))).)))))).))))))..).))))).))))))))..(((((.....))))).......................... ( -41.90)
>DroSec_CAF1 92829 116 - 1
----UUGCACUGCUGGCACAUUGGUACAUUUCAUAAGUACCUUAUGAAAUGUUCCAAUGGUCGGGCAGAGCUAUUACUUGUCCAUGUCUUGGAAUAGAAGUAAUCCUAAGAAGAGGAAAU
----..((.((((((((.((((((.((((((((((((...)))))))))))).))))))))).))))).))..((((((.((((.....))))....))))))((((......))))... ( -45.90)
>DroSim_CAF1 85861 115 - 1
----CAGCACUGCUGGCUCAUUUGUACAUUUCAUAAGUACCUUAUGAAAUGUUCCAAUGGUCGGGCAAAGCUAUUACUGGUCCAUGUUUUGG-AUAGAAGUAAUUCUAAAAAAAGGAAAU
----.(((..((((.(..((((.(.((((((((((((...)))))))))))).).))))..).))))..))).(((((.(((((.....)))-))...)))))((((......))))... ( -36.80)
>DroEre_CAF1 93425 115 - 1
----UAGCACUGCGGGCCCAUUGGUACCUUUCAUAAGUACCUUAUCAAAGGGUCCAAUGGUCUGGCAGAGCUGCU-UUAGUUCAUGUUCUGGAGAUGGAGUAGUACUGAGACCAAGAAAG
----.....((((.((.(((((((..(((((.(((((...))))).)))))..))))))).)).)))).((((((-(((.((((.....))))..)))))))))................ ( -40.40)
>DroYak_CAF1 76074 114 - 1
----CAGCACUGCGGGCUCAUUGGUACCUUUCAUAAGUGCCUUAUCC-AGGUUCCAAUGGUCCGGCAGAGCUGUC-UUAGUCCUUGUUUUGGAAUAGGAGUAAUAUUGAGAACAAGUUAA
----((((.((((((((.((((((.((((...(((((...)))))..-)))).)))))))))).)))).))))((-(((.(((.......))).)))))..................... ( -39.80)
>consensus
____UAGCACUGCUGGCUCAUUGGUACAUUUCAUAAGUACCUUAUCAAAUGUUCCAAUGGUCGGGCAGAGCUAUUAUUAGUCCAUGUUUUGGAAUAGAAGUAAUACUAAGAACAAGAAAU
.....(((.((((((((.((((((.((((((.(((((...))))).)))))).)))))))))).)))).)))((((((..((((.....)))).....))))))................ (-31.08 = -31.32 +   0.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

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