Locus 2331

Sequence ID 3R_DroMel_CAF1
Location 6,649,187 – 6,649,318
Length 131
Max. P 0.653499
window3767 window3768

overview

Window 7

Location 6,649,187 – 6,649,286
Length 99
Sequences 6
Columns 104
Reading direction reverse
Mean pairwise identity 78.54
Mean single sequence MFE -22.14
Consensus MFE -15.34
Energy contribution -15.07
Covariance contribution -0.27
Combinations/Pair 1.33
Mean z-score -1.23
Structure conservation index 0.69
SVM decision value 0.25
SVM RNA-class probability 0.653499
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6649187 99 - 27905053
UCCACCGUUAUAGCUCUAACACCAUGGUUACCGGCCAUGGUCAAAACACACUACUGGACUUUCCAUUAAUUUA-----UACAACAGGAUGAAUGGUGGCAUGAA
.((((((((...(..((...((((((((.....)))))))).............(((.....)))........-----......))..).))))))))...... ( -25.70)
>DroVir_CAF1 50884 97 - 1
CUCGCCGUA--AAGUCUACAGCCAUGGUUACCAGCAGUGGUCAUAACAAGCAACUGGACUUUCCAUUAACUCG-----UAGAUAUUCAUGAAUUCUGACCUGGA
....((...--..((((((.(((((.((.....)).))))).............(((.....))).......)-----)))))..(((.(....))))...)). ( -16.20)
>DroPse_CAF1 40039 102 - 1
UCCACCUUU--AAGUAUAAUACCAUGGUUACGGACCCUGGUCAAAACACACUGCUGGACUUUCCAUUAAUUUAACAUACACCACAGGAUGAAUUGUGGUAUGAA
.........--.......((((((..(((...(((....)))....((..(((.(((.......................))))))..)))))..))))))... ( -20.40)
>DroEre_CAF1 34918 99 - 1
UCCACCGCUUUGGCUCUAACGCCAUGGUUACCGGCCAUGGUCAAAACACGCUACUGGACUUUCCAUUAAUUUA-----UACAACAGGAUGAAUGGUGGCAUGAA
.(((((....((((......((((((((.....))))))))........)))).(((.....)))...(((((-----(........)))))))))))...... ( -25.14)
>DroAna_CAF1 35369 98 - 1
UCCACCAUUAAAG-UCUAACACCAUGGUUACCGGCCAUGGUCAAAACACGCUACUGGACUUUCCAUUAAUUUA-----UACAACAGGAUGAACGGUGGCAUGAA
.............-......((((((((.....)))))))).....((.(((((((..(..(((.........-----.......))).)..))))))).)).. ( -24.99)
>DroPer_CAF1 47323 102 - 1
UCCACCUUU--AAGUAUAAUACCAUGGUUACGGACCCUGGUCAAAACACACUGCUGGACUUUCCAUUAAUUUAACAUACACCACAGGAUGAAUUGUGGUAUGAA
.........--.......((((((..(((...(((....)))....((..(((.(((.......................))))))..)))))..))))))... ( -20.40)
>consensus
UCCACCGUU__AAGUCUAACACCAUGGUUACCGGCCAUGGUCAAAACACACUACUGGACUUUCCAUUAAUUUA_____UACAACAGGAUGAAUGGUGGCAUGAA
.((((...............((((((((.....)))))))).............(((.....))).............................))))...... (-15.34 = -15.07 +  -0.27)

alignment

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secondary structure

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dotplot

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Window 8

Location 6,649,218 – 6,649,318
Length 100
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 80.25
Mean single sequence MFE -17.55
Consensus MFE -11.15
Energy contribution -10.98
Covariance contribution -0.17
Combinations/Pair 1.36
Mean z-score -1.41
Structure conservation index 0.64
SVM decision value -0.01
SVM RNA-class probability 0.527825
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 6649218 100 - 27905053
AUACAUAUUCCCGAAGUGACCUCUCUCUA--GUUUCCACCGUUAUAGCUCUAACACCAUGGUUACCGGCCAUGGUCAAAACACACUACUGGACUUUCCAUUA
........(((.(.((((...........--.........((((......))))((((((((.....)))))))).......)))).).))).......... ( -20.60)
>DroPse_CAF1 40075 98 - 1
AUAUAUAUUCAUAAAAUGACCUCUCUCUA--UAUUCCACCUUU--AAGUAUAAUACCAUGGUUACGGACCCUGGUCAAAACACACUGCUGGACUUUCCAUUA
................(((((....((..--((..(((.....--.............))).))..))....)))))...........(((.....)))... ( -11.37)
>DroGri_CAF1 49617 96 - 1
AUGCAAGUUCUUGUAAUGACCUCUCU--G--GCUCUCGCCGUA--AAGUCUAUAGCCAUGGUUACCAGUGGUGGUCAAAACAUACGACUGGACUUUCCAUUA
.(((((....))))).(((((....(--(--(((...((....--..))....))))).)))))(((((.(((((....)).))).)))))........... ( -23.00)
>DroEre_CAF1 34949 100 - 1
AUACAUAUUCCCGAAGUGACCUCUCUCUA--UUUUCCACCGCUUUGGCUCUAACGCCAUGGUUACCGGCCAUGGUCAAAACACGCUACUGGACUUUCCAUUA
..........((((((((...........--........)))))))).......((((((((.....)))))))).............(((.....)))... ( -21.81)
>DroAna_CAF1 35400 101 - 1
AUACUUAUUCCCGAAGUGACCUCUCUCUAUAUUUUCCACCAUUAAAG-UCUAACACCAUGGUUACCGGCCAUGGUCAAAACACGCUACUGGACUUUCCAUUA
.(((((.......))))).........................((((-((((..((((((((.....)))))))).............))))))))...... ( -17.16)
>DroPer_CAF1 47359 98 - 1
AUAUAUAUUCAUAAAAUGACCUCUCUCUA--UAUUCCACCUUU--AAGUAUAAUACCAUGGUUACGGACCCUGGUCAAAACACACUGCUGGACUUUCCAUUA
................(((((....((..--((..(((.....--.............))).))..))....)))))...........(((.....)))... ( -11.37)
>consensus
AUACAUAUUCCCGAAAUGACCUCUCUCUA__UUUUCCACCGUU__AAGUCUAACACCAUGGUUACCGGCCAUGGUCAAAACACACUACUGGACUUUCCAUUA
......................................................((((((((.....)))))))).............(((.....)))... (-11.15 = -10.98 +  -0.17)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:32:46 2006