Locus 6091

Sequence ID X_DroMel_CAF1
Location 15,620,557 – 15,620,712
Length 155
Max. P 0.991523
window9894 window9895 window9896

overview

Window 4

Location 15,620,557 – 15,620,675
Length 118
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 84.68
Mean single sequence MFE -43.58
Consensus MFE -30.10
Energy contribution -32.34
Covariance contribution 2.24
Combinations/Pair 1.15
Mean z-score -2.82
Structure conservation index 0.69
SVM decision value 1.59
SVM RNA-class probability 0.966319
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15620557 118 + 22224390
CUACUACAAGUGGGUAC--AACGAGGUCCGCUUUCAACGAACCAAGUUCUCCGGCGAGUUUGUGGACAGUAGUUGGUCCAACUCACUUAAGAACUCGGAUUGGUUGGAGUGGUCCCAGUU
((((.....))))....--(((..((.((((((.((((.((((.((((((..((.((((...(((((........))))))))).))..)))))).)).)).)))))))))).))..))) ( -43.60)
>DroSec_CAF1 450 118 + 1
CUACUACAAGUGGGUAC--AACGAGGUCGUCUUCCAACGAACCAAGUUCUCCGGCGAGUUUGCGGACAGUAGCUUGUCCAACUCACUUAAGAACUCGGGUUGGUUGGAGUGGCCCUAGUU
((((.....))))....--(((..(((((.((.(((((.((((.((((((..((.(((((...((((((....))))))))))).))..))))))..)))).))))))))))))...))) ( -45.10)
>DroSim_CAF1 450 118 + 1
CUACUACAAGUGGGUAC--AACGAGGUCCGCUUCCAACGAACCAAGUUCUCCGGCGAGUUUGCGGACAGUCGCUUGUCCAACUCACCUAAGAACUCGGAUUGGUUGGAGUGGCCCUAGUU
((((.....))))....--(((.(((.(((((.(((((.((((.((((((..((.(((((...((((((....))))))))))).))..)))))).)).)).)))))))))).))).))) ( -49.40)
>DroEre_CAF1 439 118 + 1
CUACUACAAGUGGGUAA--AAUGAGGCCCCCUUUCAACAAACCGAGUUCUCAUGCGAGUUUGUGGGCAGUGACUUCGCAAACUCACUUAAGAACUCUGAUUGGUUGGAGUGGCUCGAGUU
...((((.((.((((..--......)))).))((((((...(.(((((((...(.(((((((((((.......))))))))))).)...))))))).)....))))))))))........ ( -36.90)
>DroYak_CAF1 438 120 + 1
CUACUACAAGUGGGUAAAAAAUGAGGCCCACUCUCAUCGAACCGAGUUCUCAUGCGUGUUGGUGGGCAGAAGCUUCCCAAACUCACUUAAGAACUCUAAUUGGUUGAAGUGGGCCGAGAU
((((.....))))...........((((((((.(((((((...(((((((...(.(..((((..(((....)))..))))...).)...)))))))...)))).)))))))))))..... ( -42.90)
>consensus
CUACUACAAGUGGGUAC__AACGAGGUCCGCUUUCAACGAACCAAGUUCUCCGGCGAGUUUGUGGACAGUAGCUUGUCCAACUCACUUAAGAACUCGGAUUGGUUGGAGUGGCCCGAGUU
((((.....))))...........((.(((((.(((((.((((.((((((..((.(((((...((((((....))))))))))).))..)))))).)).)).)))))))))).))..... (-30.10 = -32.34 +   2.24)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 15,620,557 – 15,620,675
Length 118
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 84.68
Mean single sequence MFE -43.66
Consensus MFE -30.28
Energy contribution -31.32
Covariance contribution 1.04
Combinations/Pair 1.20
Mean z-score -3.40
Structure conservation index 0.69
SVM decision value 2.27
SVM RNA-class probability 0.991523
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15620557 118 - 22224390
AACUGGGACCACUCCAACCAAUCCGAGUUCUUAAGUGAGUUGGACCAACUACUGUCCACAAACUCGCCGGAGAACUUGGUUCGUUGAAAGCGGACCUCGUU--GUACCCACUUGUAGUAG
(((.(((.((.((.((((.((.((((((((((..(((((((((((........)))))...))))))..)))))))))))).))))..)).)).))).)))--................. ( -40.60)
>DroSec_CAF1 450 118 - 1
AACUAGGGCCACUCCAACCAACCCGAGUUCUUAAGUGAGUUGGACAAGCUACUGUCCGCAAACUCGCCGGAGAACUUGGUUCGUUGGAAGACGACCUCGUU--GUACCCACUUGUAGUAG
.....(((..((((((((.((((.((((((((..((((((((((((......)))))...)))))))..)))))))))))).)))))).((((....))))--)).)))........... ( -46.20)
>DroSim_CAF1 450 118 - 1
AACUAGGGCCACUCCAACCAAUCCGAGUUCUUAGGUGAGUUGGACAAGCGACUGUCCGCAAACUCGCCGGAGAACUUGGUUCGUUGGAAGCGGACCUCGUU--GUACCCACUUGUAGUAG
(((.(((.((.(((((((.((.((((((((((.(((((((((((((......)))))...)))))))).)))))))))))).))))).)).)).))).)))--................. ( -50.40)
>DroEre_CAF1 439 118 - 1
AACUCGAGCCACUCCAACCAAUCAGAGUUCUUAAGUGAGUUUGCGAAGUCACUGCCCACAAACUCGCAUGAGAACUCGGUUUGUUGAAAGGGGGCCUCAUU--UUACCCACUUGUAGUAG
.(((((((......((((.((((.(((((((((.(((((((((.(...........).))))))))).))))))))))))).))))...(((.........--...))).)))).))).. ( -39.70)
>DroYak_CAF1 438 120 - 1
AUCUCGGCCCACUUCAACCAAUUAGAGUUCUUAAGUGAGUUUGGGAAGCUUCUGCCCACCAACACGCAUGAGAACUCGGUUCGAUGAGAGUGGGCCUCAUUUUUUACCCACUUGUAGUAG
.....(((((((((((.(.((((.(((((((((.(((.(((.((...((....))...))))).))).))))))))))))).).))).))))))))........................ ( -41.40)
>consensus
AACUAGGGCCACUCCAACCAAUCCGAGUUCUUAAGUGAGUUGGACAAGCUACUGUCCACAAACUCGCCGGAGAACUUGGUUCGUUGAAAGCGGACCUCGUU__GUACCCACUUGUAGUAG
.....((.((.(((((((.((((.((((((((..((((((((((((......))))))...))))))..)))))))))))).)))))).).)).))........................ (-30.28 = -31.32 +   1.04)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 6

Location 15,620,595 – 15,620,712
Length 117
Sequences 5
Columns 117
Reading direction reverse
Mean pairwise identity 84.73
Mean single sequence MFE -32.30
Consensus MFE -21.46
Energy contribution -22.38
Covariance contribution 0.92
Combinations/Pair 1.18
Mean z-score -2.08
Structure conservation index 0.66
SVM decision value 0.44
SVM RNA-class probability 0.735477
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 15620595 117 - 22224390
GAGAAUGAAUACAUUAAUAUCAGACGGUCGAACUUGUAACUGGGACCACUCCAACCAAUCCGAGUUCUUAAGUGAGUUGGACCAACUACUGUCCACAAACUCGCCGGAGAACUUGGU
(((((((....))))..........((((...(........).)))).)))........((((((((((..(((((((((((........)))))...))))))..)))))))))). ( -35.60)
>DroSec_CAF1 488 113 - 1
GAGAA----UACAUUAAUAUCAGACGACCGAACUUGUAACUAGGGCCACUCCAACCAACCCGAGUUCUUAAGUGAGUUGGACAAGCUACUGUCCGCAAACUCGCCGGAGAACUUGGU
(((..----..........((....))..(..((((....))))..).)))........((((((((((..((((((((((((......)))))...)))))))..)))))))))). ( -32.00)
>DroSim_CAF1 488 113 - 1
GAGAA----UAAAUUAAUAUCAGACGACCCAACUUGUAACUAGGGCCACUCCAACCAAUCCGAGUUCUUAGGUGAGUUGGACAAGCGACUGUCCGCAAACUCGCCGGAGAACUUGGU
(((..----..........((....))(((............)))...)))........((((((((((.(((((((((((((......)))))...)))))))).)))))))))). ( -36.00)
>DroEre_CAF1 477 113 - 1
GAGAA----UACAUUAAUACCAGACGACCGUACUUGUAACUCGAGCCACUCCAACCAAUCAGAGUUCUUAAGUGAGUUUGCGAAGUCACUGCCCACAAACUCGCAUGAGAACUCGGU
.....----.................(((((.((((.....))))..))............(((((((((.(((((((((.(...........).))))))))).)))))))))))) ( -29.70)
>DroYak_CAF1 478 113 - 1
GAGAA----UGCAUUAAUACCAGACCACCGAACUUGUAUCUCGGCCCACUUCAACCAAUUAGAGUUCUUAAGUGAGUUUGGGAAGCUUCUGCCCACCAACACGCAUGAGAACUCGGU
.....----..............(((.((((.........)))).................(((((((((.(((.(((.((...((....))...))))).))).)))))))))))) ( -28.20)
>consensus
GAGAA____UACAUUAAUAUCAGACGACCGAACUUGUAACUAGGGCCACUCCAACCAAUCCGAGUUCUUAAGUGAGUUGGACAAGCUACUGUCCACAAACUCGCCGGAGAACUUGGU
...........................................................((((((((((..((((((((((((......))))))...))))))..)))))))))). (-21.46 = -22.38 +   0.92)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:03:57 2006