Locus 1365

Sequence ID 3R_DroMel_CAF1
Location 4,003,040 – 4,003,137
Length 97
Max. P 0.963413
window2249 window2250

overview

Window 9

Location 4,003,040 – 4,003,137
Length 97
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 88.99
Mean single sequence MFE -21.90
Consensus MFE -18.59
Energy contribution -18.84
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -2.29
Structure conservation index 0.85
SVM decision value 1.55
SVM RNA-class probability 0.963413
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4003040 97 + 27905053
UGCCACUCCACUCCCCAGACAAACUGUCUGUCAAGCGAUUUGAAUCCCCAAUC---------------CGCAAUCCCAGAAUCCCA--------CAAUCCCACAGACGCGGAGUGCAUGA
(((.(((((.(((..(((((.....)))))....(((..(((......)))..---------------)))...............--------..........)).).))))))))... ( -23.40)
>DroSec_CAF1 8632 104 + 1
UGCCACUCCACUCCCCACACAAACUGUCUGUCAAGCGAUUUGAAUCCCCAAUCCGAAAU--------CCGCAAUCCCAGAAUCCCA--------CAAUCCCACAGACGCGGAGUGCAUGA
(((.(((((.(..............((((((...(((((((..............))))--------.))).......(.....).--------.......))))))).))))))))... ( -16.17)
>DroSim_CAF1 9202 104 + 1
UGCCACUCCACUCCCCAGACAAACUGUCUGUCAAGCGAUUUGAAUCCCCAAUCCGCAAU--------CCGCAAUCCCAGAAUCCCA--------CAAUCCCACAGACGCGGAGUGCAUGA
(((.(((((.(((..(((((.....)))))....(((..(((......)))..)))...--------...................--------..........)).).))))))))... ( -23.40)
>DroYak_CAF1 8581 120 + 1
UGCCACUCCACUCCCCAGACAAACUGUCUGUCAAGCGAUUUGAAUCCCCAAUCCGCAAUCCCACCAUCCGCAAUCCCAGAAUCCCACAAUUCCACAAUCCCACAGACGCGGAGUGCAUGA
(((.(((((......(((((.....)))))....(((.((((............((.............)).......((((......))))..........)))))))))))))))... ( -24.62)
>consensus
UGCCACUCCACUCCCCAGACAAACUGUCUGUCAAGCGAUUUGAAUCCCCAAUCCGCAAU________CCGCAAUCCCAGAAUCCCA________CAAUCCCACAGACGCGGAGUGCAUGA
(((.(((((......(((((.....)))))....(((.((((............................................................)))))))))))))))... (-18.59 = -18.84 +   0.25)

alignment

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secondary structure

Postscript

dotplot

Postscript

Window 0

Location 4,003,040 – 4,003,137
Length 97
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 88.99
Mean single sequence MFE -36.67
Consensus MFE -29.86
Energy contribution -31.43
Covariance contribution 1.56
Combinations/Pair 1.00
Mean z-score -1.91
Structure conservation index 0.81
SVM decision value 0.80
SVM RNA-class probability 0.854645
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 4003040 97 - 27905053
UCAUGCACUCCGCGUCUGUGGGAUUG--------UGGGAUUCUGGGAUUGCG---------------GAUUGGGGAUUCAAAUCGCUUGACAGACAGUUUGUCUGGGGAGUGGAGUGGCA
.....((((((((..((..(.((((.--------..(((((((.((......---------------..)).))))))).)))).)....(((((.....)))))))..))))))))... ( -33.70)
>DroSec_CAF1 8632 104 - 1
UCAUGCACUCCGCGUCUGUGGGAUUG--------UGGGAUUCUGGGAUUGCGG--------AUUUCGGAUUGGGGAUUCAAAUCGCUUGACAGACAGUUUGUGUGGGGAGUGGAGUGGCA
.....((((((((((((((((((((.--------...))))))(.((((..((--------((..(......)..)))).)))).)...))))))..(((......)))))))))))... ( -32.90)
>DroSim_CAF1 9202 104 - 1
UCAUGCACUCCGCGUCUGUGGGAUUG--------UGGGAUUCUGGGAUUGCGG--------AUUGCGGAUUGGGGAUUCAAAUCGCUUGACAGACAGUUUGUCUGGGGAGUGGAGUGGCA
.....((((((((..((..(.((((.--------..(((((((.((.((((..--------...)))).)).))))))).)))).)....(((((.....)))))))..))))))))... ( -38.60)
>DroYak_CAF1 8581 120 - 1
UCAUGCACUCCGCGUCUGUGGGAUUGUGGAAUUGUGGGAUUCUGGGAUUGCGGAUGGUGGGAUUGCGGAUUGGGGAUUCAAAUCGCUUGACAGACAGUUUGUCUGGGGAGUGGAGUGGCA
.....((((((.(((((((..((((.(((((((....))))))).)))))))))))...(((((.(......).))))).....((((..(((((.....)))))..))))))))))... ( -41.50)
>consensus
UCAUGCACUCCGCGUCUGUGGGAUUG________UGGGAUUCUGGGAUUGCGG________AUUGCGGAUUGGGGAUUCAAAUCGCUUGACAGACAGUUUGUCUGGGGAGUGGAGUGGCA
.....((((((((..((..(.((((...........(((((((.((.((((((.........)))))).)).))))))).)))).)....(((((.....)))))))..))))))))... (-29.86 = -31.43 +   1.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:08:13 2006