Locus 1081

Sequence ID 2L_DroMel_CAF1
Location 2,980,597 – 2,980,759
Length 162
Max. P 0.842586
window1750 window1751 window1752

overview

Window 0

Location 2,980,597 – 2,980,700
Length 103
Sequences 6
Columns 111
Reading direction forward
Mean pairwise identity 79.29
Mean single sequence MFE -39.52
Consensus MFE -26.39
Energy contribution -26.75
Covariance contribution 0.36
Combinations/Pair 1.19
Mean z-score -1.76
Structure conservation index 0.67
SVM decision value 0.76
SVM RNA-class probability 0.842586
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2980597 103 + 22407834
AAUCCACUUGCAGGAACAAAGCCCGUUU--------CGAUCAUUACCUAUCGCGGGAUUGCCAUCGCUCCAUUUCCGGCGUGUAGCCGGAUGGCGCGGGCGGUGGAUCAUA
.(((((((.((.((.......((((...--------((((........))))))))....)).((((.(((..((((((.....))))))))).))))))))))))).... ( -41.50)
>DroPse_CAF1 422 108 + 1
AAAACUCUCAAA---UUGAAGUUUUUUUCCGCUAAGUGGGCGUUACCGUUCUCUGGCGUGCCAACGCUCCAGUUCCGGCGUAUAGCCCGACGGAGCAGGCAGUGCCUCGUA
((((((.((...---..)))))))).........((.(((((....))))).))((((((((...(((((.((.(.(((.....))).)))))))).)))).))))..... ( -34.00)
>DroSec_CAF1 420 103 + 1
AAUCCACUUGAAGGAACGAAGGCCACUU--------CGAUCAUUACCUUUCGCGGGAAUUCCACCGCUCCAUUUCCGGCGUGUAGCCGGAUGGCGCGGGCGGUGGAUCGUA
.((((((......((.(((((....)))--------)).)).........(((.((....)).((((.(((..((((((.....))))))))).))))))))))))).... ( -44.90)
>DroSim_CAF1 434 103 + 1
AAUCCACUUGAAGGAACGAAGGCCACUU--------GGAUCAUUACCUUUCGCGGGAAUUCCACCGCUCCAUUUCCGGCGGGUAGCCGGAUGGCGCGGGCGGUGGAUCGUA
.((((((..(((((((.((...((....--------)).)).)).)))))(((.((....)).((((.(((..((((((.....))))))))).))))))))))))).... ( -42.70)
>DroEre_CAF1 393 102 + 1
AAUUCU-AUGCAAGGACCAAGUCCACUU--------CGAUCAUUACCUUUCGCGGGAAUGCCACCGCUCCAUUUCCGGGGUGUAGCCGGAUGGCGCGGGCGGUGGAUCGUA
......-......((((...))))....--------(((((....(((.....)))...(((.((((.(((..(((((.......)))))))).))))..))).))))).. ( -34.90)
>DroYak_CAF1 400 102 + 1
AAUACU-UUGGAAGAACGAAGCCCACUG--------CGAUCAUUACCUUUCGCGGGAAUGCCACCGCUCCAUUUCCGGGGUGUAGCCGGAUGGCGCGGGCGGUGGAUCAUA
....((-(((......))))).((((((--------(...((((.(((.....)))))))...((((.(((..(((((.......)))))))).)))))))))))...... ( -39.10)
>consensus
AAUCCACUUGAAGGAACGAAGCCCACUU________CGAUCAUUACCUUUCGCGGGAAUGCCACCGCUCCAUUUCCGGCGUGUAGCCGGAUGGCGCGGGCGGUGGAUCGUA
.....................................((((....(((.....))).....((((((((....((((((.....))))))......))))))))))))... (-26.39 = -26.75 +   0.36) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 2,980,597 – 2,980,700
Length 103
Sequences 6
Columns 111
Reading direction reverse
Mean pairwise identity 79.29
Mean single sequence MFE -37.73
Consensus MFE -24.05
Energy contribution -24.30
Covariance contribution 0.25
Combinations/Pair 1.22
Mean z-score -1.71
Structure conservation index 0.64
SVM decision value 0.54
SVM RNA-class probability 0.773488
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2980597 103 - 22407834
UAUGAUCCACCGCCCGCGCCAUCCGGCUACACGCCGGAAAUGGAGCGAUGGCAAUCCCGCGAUAGGUAAUGAUCG--------AAACGGGCUUUGUUCCUGCAAGUGGAUU
...(((((((.((((((.(((((((((.....))))))..))).)))..)))...((((((((........))))--------...))))..((((....))))))))))) ( -40.50)
>DroPse_CAF1 422 108 - 1
UACGAGGCACUGCCUGCUCCGUCGGGCUAUACGCCGGAACUGGAGCGUUGGCACGCCAGAGAACGGUAACGCCCACUUAGCGGAAAAAAACUUCAA---UUUGAGAGUUUU
.....(((..((((((((((.((.(((.....))).))...))))))..)))).)))..(((((((.....))..(((((..(((......)))..---.))))).))))) ( -34.00)
>DroSec_CAF1 420 103 - 1
UACGAUCCACCGCCCGCGCCAUCCGGCUACACGCCGGAAAUGGAGCGGUGGAAUUCCCGCGAAAGGUAAUGAUCG--------AAGUGGCCUUCGUUCCUUCAAGUGGAUU
.....(((((((((((.....((((((.....))))))..))).))))))))....((((..((((.......((--------(((....)))))..))))...))))... ( -42.10)
>DroSim_CAF1 434 103 - 1
UACGAUCCACCGCCCGCGCCAUCCGGCUACCCGCCGGAAAUGGAGCGGUGGAAUUCCCGCGAAAGGUAAUGAUCC--------AAGUGGCCUUCGUUCCUUCAAGUGGAUU
.....(((((((((((.....((((((.....))))))..))).))))))))....((((..((((.(((((.((--------....))...)))))))))...))))... ( -43.90)
>DroEre_CAF1 393 102 - 1
UACGAUCCACCGCCCGCGCCAUCCGGCUACACCCCGGAAAUGGAGCGGUGGCAUUCCCGCGAAAGGUAAUGAUCG--------AAGUGGACUUGGUCCUUGCAU-AGAAUU
..((((((((((((((.....(((((.......)))))..))).)))))))((((.((......)).))))))))--------....((((...))))......-...... ( -33.20)
>DroYak_CAF1 400 102 - 1
UAUGAUCCACCGCCCGCGCCAUCCGGCUACACCCCGGAAAUGGAGCGGUGGCAUUCCCGCGAAAGGUAAUGAUCG--------CAGUGGGCUUCGUUCUUCCAA-AGUAUU
.(((((((((.((((((.((((((((.......)))))..))).)))).((((((.((......)).)))).)))--------).)))))..))))........-...... ( -32.70)
>consensus
UACGAUCCACCGCCCGCGCCAUCCGGCUACACGCCGGAAAUGGAGCGGUGGCAUUCCCGCGAAAGGUAAUGAUCG________AAGUGGACUUCGUUCCUUCAAGAGGAUU
...((((.(((...(((.(((((((((.....))))))..))).)))((((.....))))....)))...))))..................................... (-24.05 = -24.30 +   0.25) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 2,980,660 – 2,980,759
Length 99
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 83.01
Mean single sequence MFE -37.88
Consensus MFE -30.04
Energy contribution -30.82
Covariance contribution 0.78
Combinations/Pair 1.14
Mean z-score -1.65
Structure conservation index 0.79
SVM decision value 0.28
SVM RNA-class probability 0.665056
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 2980660 99 - 22407834
GCAAUUCCCGGCGCCAGGGCCCCACCUCCCCAUCUACACCC---------CGUACUGGCCGGGGCGGCUAUGAUCCACCGCCCGCGCCAUCCGGCUACACGCCGGAAA
.........(((((...((((....................---------......)))).((((((..........))))))))))).((((((.....)))))).. ( -39.17)
>DroSec_CAF1 483 99 - 1
GCAAUUCCCGGCGCCAGGGCCCCACCUCCCCAUCCACACCC---------CGUAAAGGCCGGGGCGGCUACGAUCCACCGCCCGCGCCAUCCGGCUACACGCCGGAAA
.........(((((...((((....................---------......)))).((((((..........))))))))))).((((((.....)))))).. ( -39.37)
>DroSim_CAF1 497 99 - 1
GCAAUUCACGGCGCCAGGGCCCCACCUCCCCAUCCACACCC---------CGUAAAGGCUGGGGCGGCUACGAUCCACCGCCCGCGCCAUCCGGCUACCCGCCGGAAA
.........(((((..((((....((.(((((.((......---------......)).))))).))....(......)))))))))).((((((.....)))))).. ( -40.70)
>DroEre_CAF1 455 99 - 1
GCAAUUCCCGUCGCCAAGGCCCCACCUCCCCAUCUACGCCU---------CGUGGCGGCCGGGGCGGCUACGAUCCACCGCCCGCGCCAUCCGGCUACACCCCGGAAA
((.....(.(((((((((((.................))))---------..))))))).)((((((..........))))))))....(((((.......))))).. ( -36.53)
>DroYak_CAF1 462 99 - 1
GCAAUUCCCGGCGCCAGGGCCCCACAUCCCCAUCUACGCCU---------CGCGGAGGCCGGGGCGGCUAUGAUCCACCGCCCGCGCCAUCCGGCUACACCCCGGAAA
.........(((((...((((((.(................---------.).)).)))).((((((..........))))))))))).(((((.......))))).. ( -39.13)
>DroAna_CAF1 3296 108 - 1
GUAACGCCCGACGGCAAGGCCUCAACUCGCCCUCGACGCCCAACAGUGGUCGAAGUGGUCGUGCCGGUUACGAGCCACCGCCAGCCCCCUCCGGCUACACGCCAGAGU
(((((((.((((.((..(((........))).(((((((......)).))))).)).)))).))..)))))(.((....)))......(((.(((.....))).))). ( -32.40)
>consensus
GCAAUUCCCGGCGCCAGGGCCCCACCUCCCCAUCUACACCC_________CGUAGAGGCCGGGGCGGCUACGAUCCACCGCCCGCGCCAUCCGGCUACACGCCGGAAA
.........(((((...((((...................................)))).((((((..........))))))))))).((((((.....)))))).. (-30.04 = -30.82 +   0.78) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:03 2006