Locus 3720

Sequence ID 2L_DroMel_CAF1
Location 10,843,995 – 10,844,097
Length 102
Max. P 0.746114
window5857 window5858

overview

Window 7

Location 10,843,995 – 10,844,097
Length 102
Sequences 6
Columns 102
Reading direction forward
Mean pairwise identity 82.42
Mean single sequence MFE -36.02
Consensus MFE -25.41
Energy contribution -25.42
Covariance contribution 0.00
Combinations/Pair 1.26
Mean z-score -2.04
Structure conservation index 0.71
SVM decision value 0.46
SVM RNA-class probability 0.746114
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10843995 102 + 22407834
GCCAUUGAUGAGGCAAUCCUUCGCCAAGGCGCCCACAUGGAAGUAGGUGGGCAUUUCGCCCUCUGACGUUGGCGAGGGUAUUAUCUCCACUUCGACUUCCUU
....((((.(((..(((((((((((((.(((((.((......)).)))((((.....))))...).).)))))))))).)))..)))....))))....... ( -36.60)
>DroSec_CAF1 77423 102 + 1
GCCAUUGAUGAGACAAUCCUUCGCCAGGGCGCCCACAUGGAAGUAGGUGGGCAUUUCGCCCUCUGACGUUGGCGAGGGAAUAAUCUCCACUUCGACUUCCUU
....((((.((((...((((((((((((((((((((..........)))))).....))))........))))))))))....))))....))))....... ( -36.90)
>DroSim_CAF1 84525 102 + 1
GCCAUUGAUGAGACAAUCCUUCGCCAAGGCGCCCACAUGGAAGUAGGUGGGCAUUUCGCCCUCUGCCGUUGGCGAGGGUAUAAUCUCCACUUCGACUUCCUU
(((.(((.((((.......)))).))))))........((((((.((((((.(((..((((((.(((...)))))))))..))).))))))...)))))).. ( -39.50)
>DroEre_CAF1 78305 102 + 1
ACCAUUGAUAAGGCAUUCCUUCGCCAAGGAGCCCACAUGGAAGUAGGAGGGCAUUUCGCCCUCUGCCGGUGGCGCGGGUAUUAUCUCUAUAUCGAUUUCCUU
...........(((........)))(((((((((((.(((.....(((((((.....))))))).))))))).)).(((((.......)))))....))))) ( -36.20)
>DroYak_CAF1 80175 102 + 1
ACCAUUGAUAAGGCAAUCCUUUGCCAAGGCGCCCACAUGAAAGUAGGUGGGCAUUUCGCCCUCCGCCGGUGGCAUGGGUAUUAUCUCUACCUCGACAUCCUU
......(((((....((((..(((((.((((((.((......)).)))((((.....))))...)))..))))).)))).)))))................. ( -31.90)
>DroPer_CAF1 79667 102 + 1
GCCCCUGAUGAGACACUCCUUGGCCGCACCACCCACGUGGAAAUAUGUGGGCAUCUCGCCCUCGGGCACCGGCACCGGCAGUAUCUCUACGUCAUCCUUCAC
.....((((((((.(((((...((((.....((((((((....))))))))......(((....)))..))))...)).))).))))...))))........ ( -35.00)
>consensus
GCCAUUGAUGAGACAAUCCUUCGCCAAGGCGCCCACAUGGAAGUAGGUGGGCAUUUCGCCCUCUGCCGUUGGCGAGGGUAUUAUCUCCACUUCGACUUCCUU
....((((.((((.((((((.(((((......((....)).....((.((((.....)))).)).....))))).))).))).))))....))))....... (-25.41 = -25.42 +   0.00)

alignment

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secondary structure

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dotplot

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Window 8

Location 10,843,995 – 10,844,097
Length 102
Sequences 6
Columns 102
Reading direction reverse
Mean pairwise identity 82.42
Mean single sequence MFE -37.17
Consensus MFE -26.20
Energy contribution -26.15
Covariance contribution -0.05
Combinations/Pair 1.27
Mean z-score -1.77
Structure conservation index 0.70
SVM decision value 0.27
SVM RNA-class probability 0.660409
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10843995 102 - 22407834
AAGGAAGUCGAAGUGGAGAUAAUACCCUCGCCAACGUCAGAGGGCGAAAUGCCCACCUACUUCCAUGUGGGCGCCUUGGCGAAGGAUUGCCUCAUCAAUGGC
......((((.....(((.((((.((.(((((((.((....((((.....)))).(((((......))))).)).))))))).)))))).))).....)))) ( -35.40)
>DroSec_CAF1 77423 102 - 1
AAGGAAGUCGAAGUGGAGAUUAUUCCCUCGCCAACGUCAGAGGGCGAAAUGCCCACCUACUUCCAUGUGGGCGCCCUGGCGAAGGAUUGUCUCAUCAAUGGC
......((((.....(((((...(((.(((((..(....)(((((.....((((((..........)))))))))))))))).)))..))))).....)))) ( -38.20)
>DroSim_CAF1 84525 102 - 1
AAGGAAGUCGAAGUGGAGAUUAUACCCUCGCCAACGGCAGAGGGCGAAAUGCCCACCUACUUCCAUGUGGGCGCCUUGGCGAAGGAUUGUCUCAUCAAUGGC
......((((.....(((((.((.((.(((((((.(((...((((.....)))).(((((......))))).)))))))))).)))).))))).....)))) ( -42.40)
>DroEre_CAF1 78305 102 - 1
AAGGAAAUCGAUAUAGAGAUAAUACCCGCGCCACCGGCAGAGGGCGAAAUGCCCUCCUACUUCCAUGUGGGCUCCUUGGCGAAGGAAUGCCUUAUCAAUGGU
((((..(((........)))....((..(((((..(((.((((((.....))))))((((......)))))))...)))))..))....))))......... ( -32.60)
>DroYak_CAF1 80175 102 - 1
AAGGAUGUCGAGGUAGAGAUAAUACCCAUGCCACCGGCGGAGGGCGAAAUGCCCACCUACUUUCAUGUGGGCGCCUUGGCAAAGGAUUGCCUUAUCAAUGGU
((((..((((.((((.......))))).(((((..((((..((((.....)))).(((((......))))))))).)))))...)))..))))......... ( -37.20)
>DroPer_CAF1 79667 102 - 1
GUGAAGGAUGACGUAGAGAUACUGCCGGUGCCGGUGCCCGAGGGCGAGAUGCCCACAUAUUUCCACGUGGGUGGUGCGGCCAAGGAGUGUCUCAUCAGGGGC
...............((((((((.((...((((.((((....))))....((((((..........))))))....))))...))))))))))......... ( -37.20)
>consensus
AAGGAAGUCGAAGUAGAGAUAAUACCCUCGCCAACGGCAGAGGGCGAAAUGCCCACCUACUUCCAUGUGGGCGCCUUGGCGAAGGAUUGCCUCAUCAAUGGC
...............(((.((((.((..(((((..(((...((((.....)))).(((((......))))).))).)))))..)))))).)))......... (-26.20 = -26.15 +  -0.05)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:59:21 2006