Locus 2325

Sequence ID 3L_DroMel_CAF1
Location 6,527,854 – 6,527,981
Length 127
Max. P 0.997082
window3587 window3588 window3589

overview

Window 7

Location 6,527,854 – 6,527,950
Length 96
Sequences 3
Columns 100
Reading direction forward
Mean pairwise identity 84.12
Mean single sequence MFE -25.63
Consensus MFE -20.44
Energy contribution -21.33
Covariance contribution 0.89
Combinations/Pair 1.05
Mean z-score -2.15
Structure conservation index 0.80
SVM decision value 0.78
SVM RNA-class probability 0.848229
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6527854 96 + 23771897
AUUUCGGCUUUUUUGCAUUGUGUGUUGCCAUUUGUUUUGCUAUCGUCCUGUUUCCUGGGGCGUGGCACACAUACACAAAAAUAUA----UGUGGUUGUGU
.....(((......((((...)))).))).........((((.((((((.......))))))))))(((((..((((........----))))..))))) ( -26.40)
>DroSec_CAF1 19144 96 + 1
AUUUCGGCUUUUUUGCAUUGUGUGUUGCCAUUUGUUUUGCUAUCGUCCUGUUUCCUGGGGCGUGGCACACACACAAAUAUAUAUG----UGUGUGUGUGU
.....(((......((((...)))).))).........((((.((((((.......))))))))))(((((((((........))----))))))).... ( -30.10)
>DroEre_CAF1 19239 88 + 1
AUUUCGGCUUUUUUGCAUUGU--GUUGCCAUUUGUUUUGCUAUAGUCCUGUUUCCUGGGGCGUGGCACACACACAAA----UAUACGUGUCUGU------
......((......))...((--((.(((((.(((......)))(((((.......))))))))))))))((((...----.....))))....------ ( -20.40)
>consensus
AUUUCGGCUUUUUUGCAUUGUGUGUUGCCAUUUGUUUUGCUAUCGUCCUGUUUCCUGGGGCGUGGCACACACACAAA_A_AUAUA____UGUGU_UGUGU
......((......)).((((((((((((((..(.....)....(((((.......))))))))))).))))))))........................ (-20.44 = -21.33 +   0.89)

alignment

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secondary structure

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dotplot

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Window 8

Location 6,527,854 – 6,527,950
Length 96
Sequences 3
Columns 100
Reading direction reverse
Mean pairwise identity 84.12
Mean single sequence MFE -20.07
Consensus MFE -12.73
Energy contribution -13.73
Covariance contribution 1.00
Combinations/Pair 1.00
Mean z-score -2.44
Structure conservation index 0.63
SVM decision value 0.41
SVM RNA-class probability 0.723594
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6527854 96 - 23771897
ACACAACCACA----UAUAUUUUUGUGUAUGUGUGCCACGCCCCAGGAAACAGGACGAUAGCAAAACAAAUGGCAACACACAAUGCAAAAAAGCCGAAAU
...........----....(((((((((.(((((((((((.((..(....).)).))...(.....)...)))).)))))..)))))))))......... ( -19.70)
>DroSec_CAF1 19144 96 - 1
ACACACACACA----CAUAUAUAUUUGUGUGUGUGCCACGCCCCAGGAAACAGGACGAUAGCAAAACAAAUGGCAACACACAAUGCAAAAAAGCCGAAAU
...((((((((----((........))))))))))...((.((..(....).)).))...(((.......((....)).....))).............. ( -24.00)
>DroEre_CAF1 19239 88 - 1
------ACAGACACGUAUA----UUUGUGUGUGUGCCACGCCCCAGGAAACAGGACUAUAGCAAAACAAAUGGCAAC--ACAAUGCAAAAAAGCCGAAAU
------.............----(((((((((((((((....((.(....).))......(.....)...)))).))--)).)))))))........... ( -16.50)
>consensus
ACACA_ACACA____UAUAU_U_UUUGUGUGUGUGCCACGCCCCAGGAAACAGGACGAUAGCAAAACAAAUGGCAACACACAAUGCAAAAAAGCCGAAAU
...........................(((((((((((....((.(....).))......(.....)...)))).)))))))..((......))...... (-12.73 = -13.73 +   1.00)

alignment

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secondary structure

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dotplot

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Window 9

Location 6,527,880 – 6,527,981
Length 101
Sequences 3
Columns 105
Reading direction reverse
Mean pairwise identity 81.03
Mean single sequence MFE -28.43
Consensus MFE -21.60
Energy contribution -22.16
Covariance contribution 0.56
Combinations/Pair 1.09
Mean z-score -3.31
Structure conservation index 0.76
SVM decision value 2.80
SVM RNA-class probability 0.997082
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 6527880 101 - 23771897
UUUCAGCUGUCAGUGUUCCACAUAUACAGGAACACAACCACA----UAUAUUUUUGUGUAUGUGUGCCACGCCCCAGGAAACAGGACGAUAGCAAAACAAAUGGC
.....((((((.(((((((.........)))))))...((((----(((((....))))))))).........((.(....).))..))))))............ ( -31.40)
>DroSec_CAF1 19170 101 - 1
UUCCAGCUACCAGUGUUUCACAUAUACACGAACACACACACA----CAUAUAUAUUUGUGUGUGUGCCACGCCCCAGGAAACAGGACGAUAGCAAAACAAAUGGC
.....((((...((((.........)))).....((((((((----((........))))))))))...((.((..(....).)).)).))))............ ( -27.10)
>DroEre_CAF1 19263 95 - 1
UUCCAGCUGUCACUGUUCCACAUAUACACAC------ACAGACACGUAUA----UUUGUGUGUGUGCCACGCCCCAGGAAACAGGACUAUAGCAAAACAAAUGGC
.....((((((.(((((((......((((((------(((((........----)))))))))))((...))....)).))))))))...)))............ ( -26.80)
>consensus
UUCCAGCUGUCAGUGUUCCACAUAUACACGAACACA_ACACA____UAUAU_U_UUUGUGUGUGUGCCACGCCCCAGGAAACAGGACGAUAGCAAAACAAAUGGC
.....((((((.((((..((((((((((............................))))))))))..)))).((.(....).))..))))))............ (-21.60 = -22.16 +   0.56)

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 10:29:34 2006