Locus 9823

Sequence ID 3R_DroMel_CAF1
Location 26,130,815 – 26,130,925
Length 110
Max. P 0.997681
window15687 window15688

overview

Window 7

Location 26,130,815 – 26,130,925
Length 110
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 87.91
Mean single sequence MFE -25.92
Consensus MFE -18.48
Energy contribution -19.32
Covariance contribution 0.84
Combinations/Pair 1.12
Mean z-score -2.50
Structure conservation index 0.71
SVM decision value 0.97
SVM RNA-class probability 0.891753
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26130815 110 + 27905053
UUAAACGAUUCUCCAUAAUCGAUUAAGGGCAUUUUCGAGUGGUAAAUUAAACACUUUCGGCCUUUAAAUUAUCCAAUCACCCGAUUAUCGAUUAUGGCCACCGCAGGCUC
.............(((((((((((((((((......(((((..........)))))...)))))))).......((((....)))).)))))))))(((......))).. ( -29.10)
>DroSec_CAF1 121410 110 + 1
UUAAACGGUUCUCCAUAAUCGAUUGAUGGCAUUUUCGAGUGGUACAUUGAACACUUUUGGCCUUUAAAUUAACCAAUCACCCGAUUAUCGAUUAUGGCCACCGCAGGCUC
.....((((...((((((((((((((.(((......(((((..........)))))...))).)))).......((((....)))).))))))))))..))))....... ( -28.90)
>DroSim_CAF1 127301 110 + 1
UUAAACGGUUCUUCAUAAUCGAUUAAUGGCCUUUUCGAGUGGUACAUUGAACACUUUCGGCCGCUAAAUUAACCAAUCACCCGAUUAUCGAUUAUGGCCACCGCAGGCUC
.....((((...(((((((((((((.(((((.....(((((..........)))))..))))).))).......((((....)))).))))))))))..))))....... ( -28.60)
>DroEre_CAF1 130035 100 + 1
UUA-UCGGUUCACCAUAAUCGAU---------UUUCGAGUGCUACAUUGAACACUUUCGGUUUGUAAAUUAUCCAAUCACCCGAUUAUCGAUUAUGUCCACCACAUGCUC
...-..(((....((((((((((---------..(((.(((.......(((....)))((............))...))).)))..))))))))))...)))........ ( -22.50)
>DroYak_CAF1 128793 110 + 1
UUAAACGGUUCUCCAUAAUCGAUUAAUGGCAUUUUCGAGUGCUACAUUGAACACUUUCGGUUUGUAAAUUAUCCAAUCACCCGAUUAUCGAUUAUAGCCACCACAUGCUC
......((((....(((((((((((((((((((....)))))..))))))......((((.(((.........)))....))))...))))))))))))........... ( -20.50)
>consensus
UUAAACGGUUCUCCAUAAUCGAUUAAUGGCAUUUUCGAGUGGUACAUUGAACACUUUCGGCCUGUAAAUUAUCCAAUCACCCGAUUAUCGAUUAUGGCCACCGCAGGCUC
......(((...(((((((((((....(((......(((((..........)))))...)))............((((....)))))))))))))))..)))........ (-18.48 = -19.32 +   0.84)

alignment

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secondary structure

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dotplot

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Window 8

Location 26,130,815 – 26,130,925
Length 110
Sequences 5
Columns 110
Reading direction reverse
Mean pairwise identity 87.91
Mean single sequence MFE -31.48
Consensus MFE -26.84
Energy contribution -27.12
Covariance contribution 0.28
Combinations/Pair 1.12
Mean z-score -2.65
Structure conservation index 0.85
SVM decision value 2.91
SVM RNA-class probability 0.997681
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 26130815 110 - 27905053
GAGCCUGCGGUGGCCAUAAUCGAUAAUCGGGUGAUUGGAUAAUUUAAAGGCCGAAAGUGUUUAAUUUACCACUCGAAAAUGCCCUUAAUCGAUUAUGGAGAAUCGUUUAA
......(((((..(((((((((((....((((((.(((.(((.(((((.(.(....)).))))).)))))).))......))))...)))))))))))...))))).... ( -33.90)
>DroSec_CAF1 121410 110 - 1
GAGCCUGCGGUGGCCAUAAUCGAUAAUCGGGUGAUUGGUUAAUUUAAAGGCCAAAAGUGUUCAAUGUACCACUCGAAAAUGCCAUCAAUCGAUUAUGGAGAACCGUUUAA
......(((((..(((((((((((..(((((((.((((((........))))))..(((.......))))))))))...((....)))))))))))))...))))).... ( -34.60)
>DroSim_CAF1 127301 110 - 1
GAGCCUGCGGUGGCCAUAAUCGAUAAUCGGGUGAUUGGUUAAUUUAGCGGCCGAAAGUGUUCAAUGUACCACUCGAAAAGGCCAUUAAUCGAUUAUGAAGAACCGUUUAA
......(((((...((((((((((((((((....))))))).......((((...((((..........))))......)))).....)))))))))....))))).... ( -29.70)
>DroEre_CAF1 130035 100 - 1
GAGCAUGUGGUGGACAUAAUCGAUAAUCGGGUGAUUGGAUAAUUUACAAACCGAAAGUGUUCAAUGUAGCACUCGAAA---------AUCGAUUAUGGUGAACCGA-UAA
.......((((...((((((((((..(((((((((((((((.(((........))).))))))))....)))))))..---------))))))))))....)))).-... ( -31.20)
>DroYak_CAF1 128793 110 - 1
GAGCAUGUGGUGGCUAUAAUCGAUAAUCGGGUGAUUGGAUAAUUUACAAACCGAAAGUGUUCAAUGUAGCACUCGAAAAUGCCAUUAAUCGAUUAUGGAGAACCGUUUAA
........(((..(((((((((((..(((((((((((((((.(((........))).))))))))....)))))))...........)))))))))))...)))...... ( -28.02)
>consensus
GAGCCUGCGGUGGCCAUAAUCGAUAAUCGGGUGAUUGGAUAAUUUAAAGGCCGAAAGUGUUCAAUGUACCACUCGAAAAUGCCAUUAAUCGAUUAUGGAGAACCGUUUAA
......(((((..(((((((((((..(((((((((((((((.(((........))).))))))))....)))))))...........)))))))))))...))))).... (-26.84 = -27.12 +   0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:42:59 2006