Locus 5472

Sequence ID X_DroMel_CAF1
Location 14,225,146 – 14,225,246
Length 100
Max. P 0.599065
window8877 window8878

overview

Window 7

Location 14,225,146 – 14,225,246
Length 100
Sequences 4
Columns 114
Reading direction forward
Mean pairwise identity 90.27
Mean single sequence MFE -22.93
Consensus MFE -17.99
Energy contribution -19.05
Covariance contribution 1.06
Combinations/Pair 1.06
Mean z-score -1.56
Structure conservation index 0.78
SVM decision value 0.13
SVM RNA-class probability 0.599065
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14225146 100 + 22224390
UACAUGAUGCAUUUUAUAUUUUGCAAAUGCAUUACGUAUACGCCGUGUAUUCGCGAUGCAAUCACGCCGAAAAUUCGUUUCCAUAUAUUACAC--AAG------------CGAU
(((.((((((((((((.....)).)))))))))).)))..(((.(((((...(((.((....)))))(((....)))...........)))))--..)------------)).. ( -21.70)
>DroSec_CAF1 133744 112 + 1
UGCAUGAUGCAUUUUAUAUUUUGCAAAUGCAUUACGUAUACGCCGUGUAUUCGCGAUGCAAUCACGCCGAAAAUUCGAUUCCAUAUAUUACAC--AAGCACACCUACACGCGAU
(((.((((((((((((.....)).)))))))))).)))..(((.(((((...(((.((....)))))(((....)))................--.........)))))))).. ( -23.00)
>DroEre_CAF1 121431 114 + 1
UGCAUGAUGCAUUUUAUAUUUUACAAAUGCAUUACGUAUACGCCGUGUAUCCGCGAUGCAAUCACGCCGAAAAUUCGUUUCCAUAUAUUACACACAGCCACACGUACACGCGAU
(((.((((((((((((.....)).)))))))))).)))..(((.((((((..(((.((....)))))(((....)))..........................))))))))).. ( -23.50)
>DroYak_CAF1 124229 112 + 1
UGCAUGAUGCAUUUUAUAUUUUACAAAUGCAUUACGUAUACGCCGUGUAUUCGCGAUGCAAUCACGCCGAAAAUUCGUUUCCAUAUAUUACAC--UAGCACACGUACACGCGAU
(((.((((((((((((.....)).)))))))))).)))..(((.((((((..(((.((....)))))(((....)))................--........))))))))).. ( -23.50)
>consensus
UGCAUGAUGCAUUUUAUAUUUUACAAAUGCAUUACGUAUACGCCGUGUAUUCGCGAUGCAAUCACGCCGAAAAUUCGUUUCCAUAUAUUACAC__AAGCACACGUACACGCGAU
(((.((((((((((((.....)).)))))))))).)))..(((.(((((...(((.((....)))))(((....)))...........................)))))))).. (-17.99 = -19.05 +   1.06)

alignment

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secondary structure

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dotplot

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Window 8

Location 14,225,146 – 14,225,246
Length 100
Sequences 4
Columns 114
Reading direction reverse
Mean pairwise identity 90.27
Mean single sequence MFE -35.00
Consensus MFE -22.74
Energy contribution -26.05
Covariance contribution 3.31
Combinations/Pair 1.03
Mean z-score -3.49
Structure conservation index 0.65
SVM decision value 0.07
SVM RNA-class probability 0.570510
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14225146 100 - 22224390
AUCG------------CUU--GUGUAAUAUAUGGAAACGAAUUUUCGGCGUGAUUGCAUCGCGAAUACACGGCGUAUACGUAAUGCAUUUGCAAAAUAUAAAAUGCAUCAUGUA
..((------------((.--(((((.....((....)).........((((((...))))))..)))))))))..(((((.((((((((..........)))))))).))))) ( -27.60)
>DroSec_CAF1 133744 112 - 1
AUCGCGUGUAGGUGUGCUU--GUGUAAUAUAUGGAAUCGAAUUUUCGGCGUGAUUGCAUCGCGAAUACACGGCGUAUACGUAAUGCAUUUGCAAAAUAUAAAAUGCAUCAUGCA
...(((((((.((((((((--(((((.....(((((......))))).((((((...))))))..))))))).)))))).))((((((((..........))))))))))))). ( -34.00)
>DroEre_CAF1 121431 114 - 1
AUCGCGUGUACGUGUGGCUGUGUGUAAUAUAUGGAAACGAAUUUUCGGCGUGAUUGCAUCGCGGAUACACGGCGUAUACGUAAUGCAUUUGUAAAAUAUAAAAUGCAUCAUGCA
...((((((((((((((((((((((......((....)).........((((((...)))))).))))))))).))))))))((((((((..........))))))))))))). ( -41.80)
>DroYak_CAF1 124229 112 - 1
AUCGCGUGUACGUGUGCUA--GUGUAAUAUAUGGAAACGAAUUUUCGGCGUGAUUGCAUCGCGAAUACACGGCGUAUACGUAAUGCAUUUGUAAAAUAUAAAAUGCAUCAUGCA
...((((((((((((((..--(((((.....((....)).........((((((...))))))..)))))...)))))))))((((((((..........))))))))))))). ( -36.60)
>consensus
AUCGCGUGUACGUGUGCUU__GUGUAAUAUAUGGAAACGAAUUUUCGGCGUGAUUGCAUCGCGAAUACACGGCGUAUACGUAAUGCAUUUGCAAAAUAUAAAAUGCAUCAUGCA
...((((((((((((((....(((((...........(((....))).((((((...))))))..)))))...)))))))))((((((((..........))))))))))))). (-22.74 = -26.05 +   3.31)

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 11:48:46 2006