Locus 6581

Sequence ID X_DroMel_CAF1
Location 16,433,743 – 16,433,849
Length 106
Max. P 0.999442
window10755 window10756

overview

Window 5

Location 16,433,743 – 16,433,849
Length 106
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 87.53
Mean single sequence MFE -27.60
Consensus MFE -24.09
Energy contribution -23.57
Covariance contribution -0.52
Combinations/Pair 1.20
Mean z-score -2.97
Structure conservation index 0.87
SVM decision value 3.61
SVM RNA-class probability 0.999442
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16433743 106 + 22224390
AAUAUUAUUUAAAAAUAUCGCGGCGUGUGUAA-AACCUCGGCGAAACGCGAACAAA-----A----AA----AACCACGACGGCGUGCGUAAGCGCACUCACACCUUUGCACACGCACAG
......................((((((((((-(.((((((((...)))(......-----.----..----...).))).)).(((((....))))).......))))))))))).... ( -28.50)
>DroSec_CAF1 5713 110 + 1
AAUAUUAUUUAAAAAUAUCGCCGCGUGUGUAA-AACCUCGGCGAAACGCGAACAAA-----AAAAAAA----AACCACGACGGCGUGCGUAAGCGCACUCACACCUUUACAUACGCACAG
......................((((((((((-(.((((((((...)))(......-----.......----...).))).)).(((((....))))).......))))))))))).... ( -26.59)
>DroSim_CAF1 6722 110 + 1
AAUAUUAUUUAAAAAUAUCGCCGCGUGUGUAA-AACCUCGGCGAAACGCGAACAAA-----AAAAAAA----AACCACGACGGCGUGCGUAAGCGCACUCACACCUUUACACACGCACAG
......................((((((((((-(.((((((((...)))(......-----.......----...).))).)).(((((....))))).......))))))))))).... ( -28.49)
>DroEre_CAF1 6057 116 + 1
AAUAUUAUUUAAAAAUAUCGCCGCGUGUGUAAAAAUCUCGACGAUACAAGAAAAAAGAAAUAAAAAAA----AAACACGACGGCGUGCGUAAGCGCACUCACACGUUCAUACACGCACAG
...................(((((((((......(((.....)))..........(....).......----..))))).))))((((((.((((........)))).....)))))).. ( -23.20)
>DroYak_CAF1 6199 119 + 1
AAUAUUAUUUAAAAAUAUCGCCGCGUGUGUAA-AAUCUCGGCGGUACGAAAAAAGAGAAAUAAAAAAAAGAAAACCACGACGGCGUGCGUAAGCGCACUCAUACGUUUACACACGCACAG
......................((((((((((-(...(((......))).....(((.................((.....)).((((....)))).))).....))))))))))).... ( -31.20)
>consensus
AAUAUUAUUUAAAAAUAUCGCCGCGUGUGUAA_AACCUCGGCGAAACGCGAACAAA_____AAAAAAA____AACCACGACGGCGUGCGUAAGCGCACUCACACCUUUACACACGCACAG
......................((((((((((...(((((.....................................))).)).(((((....)))))........)))))))))).... (-24.09 = -23.57 +  -0.52)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 16,433,743 – 16,433,849
Length 106
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 87.53
Mean single sequence MFE -30.68
Consensus MFE -25.20
Energy contribution -26.12
Covariance contribution 0.92
Combinations/Pair 1.09
Mean z-score -1.75
Structure conservation index 0.82
SVM decision value 0.75
SVM RNA-class probability 0.840267
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16433743 106 - 22224390
CUGUGCGUGUGCAAAGGUGUGAGUGCGCUUACGCACGCCGUCGUGGUU----UU----U-----UUUGUUCGCGUUUCGCCGAGGUU-UUACACACGCCGCGAUAUUUUUAAAUAAUAUU
..(((((((((.(((((((((((....))))))).((.((.(((((..----..----.-----.....)))))...)).))...))-)).)))))).)))((((((.......)))))) ( -29.70)
>DroSec_CAF1 5713 110 - 1
CUGUGCGUAUGUAAAGGUGUGAGUGCGCUUACGCACGCCGUCGUGGUU----UUUUUUU-----UUUGUUCGCGUUUCGCCGAGGUU-UUACACACGCGGCGAUAUUUUUAAAUAAUAUU
..(((((((......(((((....))))))))))))((((.((((((.----......(-----((((...(((...))))))))..-..)).))))))))((((((.......)))))) ( -29.60)
>DroSim_CAF1 6722 110 - 1
CUGUGCGUGUGUAAAGGUGUGAGUGCGCUUACGCACGCCGUCGUGGUU----UUUUUUU-----UUUGUUCGCGUUUCGCCGAGGUU-UUACACACGCGGCGAUAUUUUUAAAUAAUAUU
...((((((((((((((((((((....))))))).((.((.(((((..----.......-----.....)))))...)).))...))-)))))))))))..((((((.......)))))) ( -34.04)
>DroEre_CAF1 6057 116 - 1
CUGUGCGUGUAUGAACGUGUGAGUGCGCUUACGCACGCCGUCGUGUUU----UUUUUUUAUUUCUUUUUUCUUGUAUCGUCGAGAUUUUUACACACGCGGCGAUAUUUUUAAAUAAUAUU
..(((((((..((.((......)).))..)))))))((((.(((((..----.................(((((......))))).......)))))))))((((((.......)))))) ( -28.97)
>DroYak_CAF1 6199 119 - 1
CUGUGCGUGUGUAAACGUAUGAGUGCGCUUACGCACGCCGUCGUGGUUUUCUUUUUUUUAUUUCUCUUUUUUCGUACCGCCGAGAUU-UUACACACGCGGCGAUAUUUUUAAAUAAUAUU
...((((((((((((((.(((.(((((....)))))..)))))).........................(((((......)))))..-)))))))))))..((((((.......)))))) ( -31.10)
>consensus
CUGUGCGUGUGUAAAGGUGUGAGUGCGCUUACGCACGCCGUCGUGGUU____UUUUUUU_____UUUGUUCGCGUUUCGCCGAGGUU_UUACACACGCGGCGAUAUUUUUAAAUAAUAUU
..((((((((((((..(((((((....))))))).((.((.(((((.......................)))))...)).))......)))))))))).))((((((.......)))))) (-25.20 = -26.12 +   0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:17:32 2006