Locus 4055

Sequence ID X_DroMel_CAF1
Location 10,750,232 – 10,750,326
Length 94
Max. P 0.984582
window6662 window6663

overview

Window 2

Location 10,750,232 – 10,750,326
Length 94
Sequences 4
Columns 100
Reading direction forward
Mean pairwise identity 92.06
Mean single sequence MFE -21.60
Consensus MFE -17.31
Energy contribution -17.50
Covariance contribution 0.19
Combinations/Pair 1.14
Mean z-score -1.60
Structure conservation index 0.80
SVM decision value 0.10
SVM RNA-class probability 0.584156
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10750232 94 + 22224390
ACCUUUGCUUCUGU------UUCUGCUUCUUCCGCUACCUUUCUUCGUCAUUCUGCUCGGUUUUUUUGCGCAUGCGCCACCGAGACAGCGAAACAGCACA
..........((((------(((.((.......)).................(((((((((......(((....))).)))))).))).))))))).... ( -22.00)
>DroSec_CAF1 26147 93 + 1
ACCUUUGCUUCUGU------UUCUGCUUCUUCCGCUACCUUUCUUCGUCAUUCUGCUCGGUUU-UUUGCGCAUGCGCCACCGAGACAGCGAAACAGCACA
..........((((------(((.((.......)).................(((((((((..-...(((....))).)))))).))).))))))).... ( -22.70)
>DroEre_CAF1 29299 99 + 1
ACCUUUGCUUCUGUUUUUGUUUCUGUUUCUUCCGCUACCUUUCUUCGUCAUUCUGCUCGGUUU-UUUGCGCAUGCGCCAACGAGACAGCGAAGUAGCACA
.................................(((((.....((((.....(((((((....-...(((....)))...)))).))))))))))))... ( -18.10)
>DroYak_CAF1 26945 92 + 1
ACCUUUGCUUCUGC-------UCUGCUUCUUCCGCUACCUUUCUUCGUUAUUCUGCUCGGUUU-UUUGCGCAUGCGCCGCCGAGACAGCGAAGCAGCACA
......((....))-------.(((((((.......((........))....(((((((((..-...(((....))).)))))).))).))))))).... ( -23.60)
>consensus
ACCUUUGCUUCUGU______UUCUGCUUCUUCCGCUACCUUUCUUCGUCAUUCUGCUCGGUUU_UUUGCGCAUGCGCCACCGAGACAGCGAAACAGCACA
....(((((((.............((.......)).................(((((((((......(((....))).)))))).))).))))))).... (-17.31 = -17.50 +   0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 3

Location 10,750,232 – 10,750,326
Length 94
Sequences 4
Columns 100
Reading direction reverse
Mean pairwise identity 92.06
Mean single sequence MFE -28.00
Consensus MFE -24.61
Energy contribution -24.68
Covariance contribution 0.06
Combinations/Pair 1.08
Mean z-score -2.62
Structure conservation index 0.88
SVM decision value 1.98
SVM RNA-class probability 0.984582
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10750232 94 - 22224390
UGUGCUGUUUCGCUGUCUCGGUGGCGCAUGCGCAAAAAAACCGAGCAGAAUGACGAAGAAAGGUAGCGGAAGAAGCAGAA------ACAGAAGCAAAGGU
(((.(((((((.(((.((((((.(((....)))......)))))))))..............((..(....)..)).)))------))))..)))..... ( -30.30)
>DroSec_CAF1 26147 93 - 1
UGUGCUGUUUCGCUGUCUCGGUGGCGCAUGCGCAAA-AAACCGAGCAGAAUGACGAAGAAAGGUAGCGGAAGAAGCAGAA------ACAGAAGCAAAGGU
(((.(((((((.(((.((((((.(((....)))...-..)))))))))..............((..(....)..)).)))------))))..)))..... ( -31.00)
>DroEre_CAF1 29299 99 - 1
UGUGCUACUUCGCUGUCUCGUUGGCGCAUGCGCAAA-AAACCGAGCAGAAUGACGAAGAAAGGUAGCGGAAGAAACAGAAACAAAAACAGAAGCAAAGGU
..((((.((((((((.((((((.(((....)))...-.)).))))))).....)))))....((..(....)..))...............))))..... ( -23.00)
>DroYak_CAF1 26945 92 - 1
UGUGCUGCUUCGCUGUCUCGGCGGCGCAUGCGCAAA-AAACCGAGCAGAAUAACGAAGAAAGGUAGCGGAAGAAGCAGA-------GCAGAAGCAAAGGU
(((.(((((((.(((.(((((..(((....)))...-...)))))))).....((...........))...))))))).-------)))........... ( -27.70)
>consensus
UGUGCUGCUUCGCUGUCUCGGUGGCGCAUGCGCAAA_AAACCGAGCAGAAUGACGAAGAAAGGUAGCGGAAGAAGCAGAA______ACAGAAGCAAAGGU
..((((.((((((((.((((((.(((....)))......))))))))).....)))))....((..(....)..))...............))))..... (-24.61 = -24.68 +   0.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:15:13 2006