Locus 5995

Sequence ID 3L_DroMel_CAF1
Location 16,017,731 – 16,017,821
Length 90
Max. P 0.928173
window9589 window9590

overview

Window 9

Location 16,017,731 – 16,017,821
Length 90
Sequences 5
Columns 95
Reading direction forward
Mean pairwise identity 83.85
Mean single sequence MFE -28.08
Consensus MFE -19.07
Energy contribution -20.31
Covariance contribution 1.24
Combinations/Pair 1.06
Mean z-score -2.08
Structure conservation index 0.68
SVM decision value 0.61
SVM RNA-class probability 0.799875
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16017731 90 + 23771897
AUUUAUGUCAAAUUGGUAACACACACACAUGCAGGCUCAGCCAUUCGCGCUCUCCGUAUGCAAGCCCUAACUGCAUGAGUGUGUGUGAGC-----
..................((((((((.((((((((((..((.....))((.........)).)))).....)))))).))))))))....----- ( -27.20)
>DroSec_CAF1 17568 90 + 1
AUUUAUGUCAAAUUGGUAACACACACACAUGCAGGCUCAGCCAUUCGCGCUCUCCGUAUGCAAGCCCUAACUGCAUGGGUGUGUGUGAGA-----
..................((((((((.((((((((((..((.....))((.........)).)))).....)))))).))))))))....----- ( -27.20)
>DroSim_CAF1 26209 90 + 1
AUUUAUGUCAAAUUGGUAACACACACACAUGCAGGCUCAACCAUUCGCGCUCUCCGUAUGCAAGCCCUAACUGCAUGGGUGUGUGUGAGA-----
..................((((((((.(((((((((..........))((.........)).........))))))).))))))))....----- ( -26.30)
>DroEre_CAF1 20803 95 + 1
AUUUAUGUCAAAUUGGUAACACACACACAUGCAGCCCCAGCCAUUCGCGCUCUUCGUAUGCAGGCCCUAACUGCAUGGGUGUGUGUGAGUGUGCC
...................(((((.((((((((.(((.((((....).)))......((((((.......))))))))))))))))).))))).. ( -30.90)
>DroAna_CAF1 18721 85 + 1
AUUUAUGUCAAAUUGGUAACACACACACCCAUACACACAGACAG--------AUCGUGUGCAGGCCCUAGCUGCAUGUGUGUGUGUGUGU--UGG
................((((((((((((.((((.((((.((...--------.))))))((((.......)))).)))).))))))))))--)). ( -28.80)
>consensus
AUUUAUGUCAAAUUGGUAACACACACACAUGCAGGCUCAGCCAUUCGCGCUCUCCGUAUGCAAGCCCUAACUGCAUGGGUGUGUGUGAGA_____
..................((((((((.(((((((............(((.....))).............))))))).))))))))......... (-19.07 = -20.31 +   1.24)

alignment

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secondary structure

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dotplot

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Window 0

Location 16,017,731 – 16,017,821
Length 90
Sequences 5
Columns 95
Reading direction reverse
Mean pairwise identity 83.85
Mean single sequence MFE -29.82
Consensus MFE -22.03
Energy contribution -22.11
Covariance contribution 0.08
Combinations/Pair 1.20
Mean z-score -2.26
Structure conservation index 0.74
SVM decision value 1.19
SVM RNA-class probability 0.928173
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16017731 90 - 23771897
-----GCUCACACACACUCAUGCAGUUAGGGCUUGCAUACGGAGAGCGCGAAUGGCUGAGCCUGCAUGUGUGUGUGUUACCAAUUUGACAUAAAU
-----....((((((((.((((((....(.(((..(.....)..))).)....(((...))))))))).)))))))).................. ( -29.30)
>DroSec_CAF1 17568 90 - 1
-----UCUCACACACACCCAUGCAGUUAGGGCUUGCAUACGGAGAGCGCGAAUGGCUGAGCCUGCAUGUGUGUGUGUUACCAAUUUGACAUAAAU
-----....((((((((.((((((....(.(((..(.....)..))).)....(((...))))))))).)))))))).................. ( -28.50)
>DroSim_CAF1 26209 90 - 1
-----UCUCACACACACCCAUGCAGUUAGGGCUUGCAUACGGAGAGCGCGAAUGGUUGAGCCUGCAUGUGUGUGUGUUACCAAUUUGACAUAAAU
-----....((((((((.((((((.....(((((.(((.((.......)).)))...))))))))))).)))))))).................. ( -27.50)
>DroEre_CAF1 20803 95 - 1
GGCACACUCACACACACCCAUGCAGUUAGGGCCUGCAUACGAAGAGCGCGAAUGGCUGGGGCUGCAUGUGUGUGUGUUACCAAUUUGACAUAAAU
.........((((((((.(((((((((..(((((((...........)))...))))..))))))))).)))))))).................. ( -34.10)
>DroAna_CAF1 18721 85 - 1
CCA--ACACACACACACACAUGCAGCUAGGGCCUGCACACGAU--------CUGUCUGUGUGUAUGGGUGUGUGUGUUACCAAUUUGACAUAAAU
..(--((((((((((...(((((.((....))..(((((.((.--------...)))))))))))).)))))))))))................. ( -29.70)
>consensus
_____ACUCACACACACCCAUGCAGUUAGGGCUUGCAUACGGAGAGCGCGAAUGGCUGAGCCUGCAUGUGUGUGUGUUACCAAUUUGACAUAAAU
.........((((((((.(((((((.(..((((....................))))..).))))))).)))))))).................. (-22.03 = -22.11 +   0.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:06:19 2006