Locus 6970

Sequence ID X_DroMel_CAF1
Location 17,459,737 – 17,459,857
Length 120
Max. P 0.945297
window11384 window11385

overview

Window 4

Location 17,459,737 – 17,459,857
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 73.76
Mean single sequence MFE -25.25
Consensus MFE -9.78
Energy contribution -9.82
Covariance contribution 0.04
Combinations/Pair 1.08
Mean z-score -1.90
Structure conservation index 0.39
SVM decision value 0.63
SVM RNA-class probability 0.804053
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17459737 120 + 22224390
GAUAGCUCUGUAAUUUCAGCCAUUUUCCAGUCAAAUCUGGCUACUCAACUGGAGCUUAAUUGAAAUAUUUCUUAAUUUACAAAUUUAGAUAAGUUUGGUUGCUAGGGACUGGUAUAUAAU
.......(((......))).......((((((...((((((.(((.((((....((.((((.((((........))))...)))).))...)))).))).))))))))))))........ ( -24.60)
>DroSec_CAF1 2037 120 + 1
GAUAGCUCUGUAAUUUCAGACAUUUUCCAGUCAAAACUGGCUACUCAACUGGAGCUUAAUUGAAAUAUUUCUUAAUUUACAAAUUUAGAUAAGUUUGGUUGAUAGGGACUGGUAUAUGUU
......((((......))))(((...((((((....(((.....(((((..((.((((.(((((...................))))).))))))..)))))))).))))))...))).. ( -25.21)
>DroSim_CAF1 2155 120 + 1
GAUAGCUCUGUAAUUUCAGACAUUUUCCAGUCAAAACUGGCUACUCAACUGGAGCUUAAUUGAAAUAUUUCUUAAUAUACAAAUUUAGAUAAGUUUGGUUGAUAGGGACUAUUAUAUGUU
(((((((((((...............(((((....))))).....((((..((.((((.((((((((((....))))).....))))).))))))..)))))))))).)))))....... ( -25.10)
>DroEre_CAF1 10065 94 + 1
GAUAGCUCUGUAAUUUCAGACAUUUUCCAGUCAAAUCUGGCUAUUCAACUGGAGCUUGGCUUAAGCAUUUCAAAACUGGA--------------------------AAAUGGUAUAGUUU
......((((......))))(((((((((((....((..(........)..))(((((...)))))........))))))--------------------------)))))......... ( -23.70)
>DroYak_CAF1 2208 92 + 1
GAUAGCUCUGUAACUUCAGACAUUUUCCAGUCAAAUCUGGCUAUUUAACUGGAGUUUAAUGCAAAUGUUUCUAAAUUUGC----------------------------AUGGGCUAGUUA
..((((((...((((((((.......((((......))))........))))))))..((((((((........))))))----------------------------)))))))).... ( -27.66)
>consensus
GAUAGCUCUGUAAUUUCAGACAUUUUCCAGUCAAAUCUGGCUACUCAACUGGAGCUUAAUUGAAAUAUUUCUUAAUUUACAAAUUUAGAUAAGUUUGGUUG_UAGGGACUGGUAUAUGUU
...((((((((........)).....((((......))))..........))))))................................................................ ( -9.78 =  -9.82 +   0.04)

alignment

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secondary structure

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dotplot

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Window 5

Location 17,459,737 – 17,459,857
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 73.76
Mean single sequence MFE -20.76
Consensus MFE -14.80
Energy contribution -15.20
Covariance contribution 0.40
Combinations/Pair 1.11
Mean z-score -1.63
Structure conservation index 0.71
SVM decision value 1.35
SVM RNA-class probability 0.945297
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17459737 120 - 22224390
AUUAUAUACCAGUCCCUAGCAACCAAACUUAUCUAAAUUUGUAAAUUAAGAAAUAUUUCAAUUAAGCUCCAGUUGAGUAGCCAGAUUUGACUGGAAAAUGGCUGAAAUUACAGAGCUAUC
................((((..(((......(((.((((....)))).)))................((((((..(((......)))..))))))...)))(((......))).)))).. ( -21.40)
>DroSec_CAF1 2037 120 - 1
AACAUAUACCAGUCCCUAUCAACCAAACUUAUCUAAAUUUGUAAAUUAAGAAAUAUUUCAAUUAAGCUCCAGUUGAGUAGCCAGUUUUGACUGGAAAAUGUCUGAAAUUACAGAGCUAUC
...............................(((.((((....)))).))).............(((((((((..((........))..)))))).....((((......)))))))... ( -18.10)
>DroSim_CAF1 2155 120 - 1
AACAUAUAAUAGUCCCUAUCAACCAAACUUAUCUAAAUUUGUAUAUUAAGAAAUAUUUCAAUUAAGCUCCAGUUGAGUAGCCAGUUUUGACUGGAAAAUGUCUGAAAUUACAGAGCUAUC
........((((..(................(((.(((......))).)))...((((((..((...((((((..((........))..))))))...))..))))))....)..)))). ( -18.00)
>DroEre_CAF1 10065 94 - 1
AAACUAUACCAUUU--------------------------UCCAGUUUUGAAAUGCUUAAGCCAAGCUCCAGUUGAAUAGCCAGAUUUGACUGGAAAAUGUCUGAAAUUACAGAGCUAUC
..............--------------------------...(((((((....((((.....))))((((((..(((......)))..))))))...............)))))))... ( -21.60)
>DroYak_CAF1 2208 92 - 1
UAACUAGCCCAU----------------------------GCAAAUUUAGAAACAUUUGCAUUAAACUCCAGUUAAAUAGCCAGAUUUGACUGGAAAAUGUCUGAAGUUACAGAGCUAUC
....((((..((----------------------------((((((........)))))))).....(((((((((((......))))))))))).....((((......)))))))).. ( -24.70)
>consensus
AAAAUAUACCAGUCCCUA_CAACCAAACUUAUCUAAAUUUGUAAAUUAAGAAAUAUUUCAAUUAAGCUCCAGUUGAGUAGCCAGAUUUGACUGGAAAAUGUCUGAAAUUACAGAGCUAUC
................................................................((((((((((((((......))))))))))).....((((......)))))))... (-14.80 = -15.20 +   0.40)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:26:59 2006