Locus 6632

Sequence ID 2L_DroMel_CAF1
Location 18,627,789 – 18,627,947
Length 158
Max. P 0.980612
window10578 window10579 window10580

overview

Window 8

Location 18,627,789 – 18,627,907
Length 118
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 96.95
Mean single sequence MFE -27.50
Consensus MFE -25.88
Energy contribution -26.04
Covariance contribution 0.16
Combinations/Pair 1.03
Mean z-score -1.65
Structure conservation index 0.94
SVM decision value 1.87
SVM RNA-class probability 0.980612
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18627789 118 + 22407834
AUUGCGUAAUUUUAUGUGCGACUCAUUUUCAUUAUCGUUGCGAUUUCAAGUCACAUGAUCUUAAAUUCCAUUUACGGCUCUAAUAAUAAUUAGCCGGCAACGAGUUGGAAACUCGUUA
...(((((....)))))((((....((((((...((((((((((((.(((((....)).)))))))).......(((((............))))))))))))..)))))).)))).. ( -27.30)
>DroSec_CAF1 105283 118 + 1
AAUGCGUAAUUUUAUGUGCGACUCAUUUUCAUUAUCGUUGCGAUUUCAAGUCACAUGAUCUUAAAUUCCGUUUACGGCUCUAAUAAUAAUUAGCCGGCAACGAGUUGGAAACUCGUUA
...(((((....)))))((((....((((((...((((((((((((.(((((....)).)))))))).......(((((............))))))))))))..)))))).)))).. ( -27.30)
>DroSim_CAF1 106894 118 + 1
AUUGCGUAAUUUUAUGUGCGACUGAUUUUCAUUAUCGUUGCGAUUUCAAGUCACAUGAUCUUAAAUUCCGUUUACGGCUCUAAUAAUAAUUAGCCGGCAACGAGUUGGAAACUCGUUA
...((.(((..(((((((((((.(((.......))))))))(((.....)))))))))..)))...........(((((............)))))))(((((((.....))))))). ( -28.60)
>DroEre_CAF1 104273 118 + 1
AUUUCGUAAUUUUAUGUGCGACUCAUUUUCAUUAUCGUUGCGAUUUCAAGUCACAUGAUCUUAAGUUCCGUUUACGGCUCUAAUAAAAAUUAGCCGGCAACGAGUUGGAAACUCGUUA
...(((((........)))))....((((((...((((((((((((.(((((....)).)))))))).......(((((............))))))))))))..))))))....... ( -26.70)
>DroYak_CAF1 105681 118 + 1
AUUGCGUAAUUUUAUGUGCGACUCAUUUUCAUUAUCGUUGCGAUUUCCAGUCACAUGAUCUUAAGUUCCGUUUACGGCUCUAAUAAAAAUUAGCCGGCAACGAGAUGGAAACUCGUUA
...(((((....)))))((((....((((((((.((((((((((.....)))......................(((((............)))))))))))))))))))).)))).. ( -27.60)
>consensus
AUUGCGUAAUUUUAUGUGCGACUCAUUUUCAUUAUCGUUGCGAUUUCAAGUCACAUGAUCUUAAAUUCCGUUUACGGCUCUAAUAAUAAUUAGCCGGCAACGAGUUGGAAACUCGUUA
...(((((....)))))((((....((((((...((((((((((((.(((((....)).)))))))).......(((((............))))))))))))..)))))).)))).. (-25.88 = -26.04 +   0.16)

alignment

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secondary structure

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dotplot

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Window 9

Location 18,627,789 – 18,627,907
Length 118
Sequences 5
Columns 118
Reading direction reverse
Mean pairwise identity 96.95
Mean single sequence MFE -26.14
Consensus MFE -23.24
Energy contribution -23.28
Covariance contribution 0.04
Combinations/Pair 1.03
Mean z-score -1.59
Structure conservation index 0.89
SVM decision value 1.06
SVM RNA-class probability 0.909068
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18627789 118 - 22407834
UAACGAGUUUCCAACUCGUUGCCGGCUAAUUAUUAUUAGAGCCGUAAAUGGAAUUUAAGAUCAUGUGACUUGAAAUCGCAACGAUAAUGAAAAUGAGUCGCACAUAAAAUUACGCAAU
.(((((((.....)))))))((.((((............))))((((.((((.((((((.((....)))))))).)).)).((((.((....))..)))).........))))))... ( -25.10)
>DroSec_CAF1 105283 118 - 1
UAACGAGUUUCCAACUCGUUGCCGGCUAAUUAUUAUUAGAGCCGUAAACGGAAUUUAAGAUCAUGUGACUUGAAAUCGCAACGAUAAUGAAAAUGAGUCGCACAUAAAAUUACGCAUU
((((((((.....))))))))...(((((((....(((((.(((....)))..))))).....((((((((...((((...)))).((....)))))))))).....))))).))... ( -25.30)
>DroSim_CAF1 106894 118 - 1
UAACGAGUUUCCAACUCGUUGCCGGCUAAUUAUUAUUAGAGCCGUAAACGGAAUUUAAGAUCAUGUGACUUGAAAUCGCAACGAUAAUGAAAAUCAGUCGCACAUAAAAUUACGCAAU
....((.((((....((((((((((((............)))))......((.((((((.((....)))))))).)))))))))....)))).))....((............))... ( -25.60)
>DroEre_CAF1 104273 118 - 1
UAACGAGUUUCCAACUCGUUGCCGGCUAAUUUUUAUUAGAGCCGUAAACGGAACUUAAGAUCAUGUGACUUGAAAUCGCAACGAUAAUGAAAAUGAGUCGCACAUAAAAUUACGAAAU
((((((((.....)))))))).(((((.((((((((((..((((....)))............(((((.......))))).)..)))))))))).))))).................. ( -27.80)
>DroYak_CAF1 105681 118 - 1
UAACGAGUUUCCAUCUCGUUGCCGGCUAAUUUUUAUUAGAGCCGUAAACGGAACUUAAGAUCAUGUGACUGGAAAUCGCAACGAUAAUGAAAAUGAGUCGCACAUAAAAUUACGCAAU
(((((((.......))))))).(((((.((((((((((..((((....)))............(((((.(....)))))).)..)))))))))).))))).................. ( -26.90)
>consensus
UAACGAGUUUCCAACUCGUUGCCGGCUAAUUAUUAUUAGAGCCGUAAACGGAAUUUAAGAUCAUGUGACUUGAAAUCGCAACGAUAAUGAAAAUGAGUCGCACAUAAAAUUACGCAAU
((((((((.....)))))))).(((((.(((.((((((..((((....)))............(((((.......))))).)..)))))).))).))))).................. (-23.24 = -23.28 +   0.04)

alignment

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secondary structure

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dotplot

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Window 0

Location 18,627,829 – 18,627,947
Length 118
Sequences 5
Columns 118
Reading direction forward
Mean pairwise identity 94.92
Mean single sequence MFE -27.30
Consensus MFE -22.84
Energy contribution -23.48
Covariance contribution 0.64
Combinations/Pair 1.03
Mean z-score -1.33
Structure conservation index 0.84
SVM decision value 0.00
SVM RNA-class probability 0.534746
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 18627829 118 + 22407834
CGAUUUCAAGUCACAUGAUCUUAAAUUCCAUUUACGGCUCUAAUAAUAAUUAGCCGGCAACGAGUUGGAAACUCGUUAAAAAUCCUCAAAUGAGUGUGGCUCCAUCCCGCUCUCGCCC
.(((((.(((((....)).))))))))........((((............))))((((((((((.....)))))))..............(((.((((.......)))).)))))). ( -26.80)
>DroSec_CAF1 105323 118 + 1
CGAUUUCAAGUCACAUGAUCUUAAAUUCCGUUUACGGCUCUAAUAAUAAUUAGCCGGCAACGAGUUGGAAACUCGUUAAAAAUCCUCAAAUGAGUGUGGCUGCAUCUCGCUCCCGCCC
(((.....((((((((((........))(((((.(((((............)))))..(((((((.....)))))))..........))))).)))))))).....)))......... ( -26.50)
>DroSim_CAF1 106934 118 + 1
CGAUUUCAAGUCACAUGAUCUUAAAUUCCGUUUACGGCUCUAAUAAUAAUUAGCCGGCAACGAGUUGGAAACUCGUUAAAAAUCCUCAAAUGAGUGUGGCUGCAUCUCGCUCCCGCCC
(((.....((((((((((........))(((((.(((((............)))))..(((((((.....)))))))..........))))).)))))))).....)))......... ( -26.50)
>DroEre_CAF1 104313 118 + 1
CGAUUUCAAGUCACAUGAUCUUAAGUUCCGUUUACGGCUCUAAUAAAAAUUAGCCGGCAACGAGUUGGAAACUCGUUAAAAAUCCUCAAAUGAGCGUGGCUUCAUCUCGCUCUUUCCC
(((..(.(((((((..((........)).((((((((((............)))))..(((((((.....))))))).............)))))))))))).)..)))......... ( -26.30)
>DroYak_CAF1 105721 118 + 1
CGAUUUCCAGUCACAUGAUCUUAAGUUCCGUUUACGGCUCUAAUAAAAAUUAGCCGGCAACGAGAUGGAAACUCGUUAAAAAUCCUCAAAUGAGUGUCGCUCCAUCUCGCUCUUGCCC
.(((.....)))...........((..(((....)))..))..............((((((((((((((.(((((((...........))))))).....)))))))))...))))). ( -30.40)
>consensus
CGAUUUCAAGUCACAUGAUCUUAAAUUCCGUUUACGGCUCUAAUAAUAAUUAGCCGGCAACGAGUUGGAAACUCGUUAAAAAUCCUCAAAUGAGUGUGGCUCCAUCUCGCUCUCGCCC
(((.....((((((((((........))(((((.(((((............)))))..(((((((.....)))))))..........))))).)))))))).....)))......... (-22.84 = -23.48 +   0.64)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:01 2006