Locus 511

Sequence ID X_DroMel_CAF1
Location 1,473,546 – 1,473,671
Length 125
Max. P 0.916762
window792 window793 window794

overview

Window 2

Location 1,473,546 – 1,473,640
Length 94
Sequences 4
Columns 110
Reading direction forward
Mean pairwise identity 81.37
Mean single sequence MFE -21.50
Consensus MFE -13.29
Energy contribution -13.86
Covariance contribution 0.56
Combinations/Pair 1.07
Mean z-score -1.87
Structure conservation index 0.62
SVM decision value 0.23
SVM RNA-class probability 0.644117
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1473546 94 + 22224390
A---------CAUUGCGCAAAAUGGUCUAUAAAAUUAAUGAGCUGGCCACGCACAU---ACACAUGUGCACAAU----CGUACACACGAACGCCUAUGUAAACGCAUCUC
(---------(((.(((.....(((((.................))))).((((((---....))))))....(----(((....)))).)))..))))........... ( -19.73)
>DroSec_CAF1 8935 94 + 1
A---------CAUUGCGCAAAAUGGUCUAUAAAAUUAAUGAGCUGGCCACGCACAU---ACACAUGUGCACAUU----CGUACACACGAACGCCUAUGUAAACGCAUCUC
(---------(((.(((.....(((((.................))))).((((((---....))))))...((----(((....))))))))..))))........... ( -20.33)
>DroEre_CAF1 10068 98 + 1
A---------CAUUGCGCAAAAUGGUCUAUAAAAUUAAUGAGCUGGCCACGCACAU---ACACAUGUGCACAUUUGUACGUACAGACGAACGCCUAUGUAAACGCAUCUC
.---------...((((.....(((((.................))))).((((((---....))))))((((.(((.(((....))).)))...))))...)))).... ( -20.93)
>DroAna_CAF1 13017 106 + 1
AGUGUGUGUGUGUUGCGCAAAAUGGUCUAUAAAAUUAAUGAGCUGGCCACGCACACUCAAUACAAGCGCAAAAA----AGCGCAAAAAAAAAAACAUGUAAAUGCAUCUC
((((((((((.(((((.((...................)).)).)))))))))))))........((((.....----.))))............((((....))))... ( -25.01)
>consensus
A_________CAUUGCGCAAAAUGGUCUAUAAAAUUAAUGAGCUGGCCACGCACAU___ACACAUGUGCACAAU____CGUACACACGAACGCCUAUGUAAACGCAUCUC
.............((((.....(((((.................))))).((((((.......)))))).................................)))).... (-13.29 = -13.86 +   0.56)

alignment

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secondary structure

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dotplot

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Window 3

Location 1,473,577 – 1,473,671
Length 94
Sequences 3
Columns 98
Reading direction forward
Mean pairwise identity 95.17
Mean single sequence MFE -27.23
Consensus MFE -25.37
Energy contribution -25.37
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.30
Structure conservation index 0.93
SVM decision value 1.11
SVM RNA-class probability 0.916762
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1473577 94 + 22224390
AGCUGGCCACGCACAUACACAUGUGCACAAU----CGUACACACGAACGCCUAUGUAAACGCAUCUCCAUAUCAAUAUGUGCGAUGCGAAUGGAAACG
.((.(((...((((((....))))))....(----(((....))))..)))...))...((((((.(((((....)))).).))))))...(....). ( -28.00)
>DroSec_CAF1 8966 94 + 1
AGCUGGCCACGCACAUACACAUGUGCACAUU----CGUACACACGAACGCCUAUGUAAACGCAUCUCCAUAUCAAUAUGUGCGAUGCGAAUGGGAACG
.((.(((...((((((....))))))...((----(((....))))).)))...))...((((((.(((((....)))).).)))))).......... ( -27.10)
>DroEre_CAF1 10099 98 + 1
AGCUGGCCACGCACAUACACAUGUGCACAUUUGUACGUACAGACGAACGCCUAUGUAAACGCAUCUCCAUAUCAAUAUGUGCGAUGCGAAUGGGAACG
.((.(((...((((((....))))))......((.(((....))).)))))...))...((((((.(((((....)))).).)))))).......... ( -26.60)
>consensus
AGCUGGCCACGCACAUACACAUGUGCACAUU____CGUACACACGAACGCCUAUGUAAACGCAUCUCCAUAUCAAUAUGUGCGAUGCGAAUGGGAACG
.((.(((...((((((....)))))).........(((....)))...)))...))...((((((.(((((....)))).).))))))...(....). (-25.37 = -25.37 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 4

Location 1,473,577 – 1,473,671
Length 94
Sequences 3
Columns 98
Reading direction reverse
Mean pairwise identity 95.17
Mean single sequence MFE -30.55
Consensus MFE -29.23
Energy contribution -29.57
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -1.67
Structure conservation index 0.96
SVM decision value 0.35
SVM RNA-class probability 0.698836
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 1473577 94 - 22224390
CGUUUCCAUUCGCAUCGCACAUAUUGAUAUGGAGAUGCGUUUACAUAGGCGUUCGUGUGUACG----AUUGUGCACAUGUGUAUGUGCGUGGCCAGCU
.(((.((((.((((((...((((....))))..))))))..((((((.((....((((((((.----...)))))))))).)))))).))))..))). ( -30.60)
>DroSec_CAF1 8966 94 - 1
CGUUCCCAUUCGCAUCGCACAUAUUGAUAUGGAGAUGCGUUUACAUAGGCGUUCGUGUGUACG----AAUGUGCACAUGUGUAUGUGCGUGGCCAGCU
.(((.((((.((((((...((((....))))..))))))..((((((.((....((((((((.----...)))))))))).)))))).))))..))). ( -30.30)
>DroEre_CAF1 10099 98 - 1
CGUUCCCAUUCGCAUCGCACAUAUUGAUAUGGAGAUGCGUUUACAUAGGCGUUCGUCUGUACGUACAAAUGUGCACAUGUGUAUGUGCGUGGCCAGCU
.(((......((((((...((((....))))..))))))........)))(((.(((((((((((((.(((....))).)))))))))).))).))). ( -30.74)
>consensus
CGUUCCCAUUCGCAUCGCACAUAUUGAUAUGGAGAUGCGUUUACAUAGGCGUUCGUGUGUACG____AAUGUGCACAUGUGUAUGUGCGUGGCCAGCU
.(((.((((.((((((...((((....))))..))))))..((((((.((....(((((((((......))))))))))).)))))).))))..))). (-29.23 = -29.57 +   0.33)

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 09:46:25 2006