Locus 2684

Sequence ID X_DroMel_CAF1
Location 7,201,731 – 7,201,862
Length 131
Max. P 0.997553
window4396 window4397 window4398

overview

Window 6

Location 7,201,731 – 7,201,844
Length 113
Sequences 5
Columns 114
Reading direction reverse
Mean pairwise identity 95.94
Mean single sequence MFE -31.20
Consensus MFE -28.20
Energy contribution -28.24
Covariance contribution 0.04
Combinations/Pair 1.03
Mean z-score -2.12
Structure conservation index 0.90
SVM decision value 2.88
SVM RNA-class probability 0.997553
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7201731 113 - 22224390
AA-AGGCAGUAAGGUCGUGAAAAGAGGCAAGUAAGGUGGUAAUAAGAUGUUGGAGGCCAUUUGGUUGCCUGAAAUGAUGCGCGAGUUUUUCAAAUCUUUAUGUCCUUUGUUUGA
((-(((..((((((...((((((.((((((.((((.((((..(((....)))...)))))))).))))))........((....))))))))...))))))..)))))...... ( -31.20)
>DroSec_CAF1 9603 113 - 1
AA-AGGUAGUAAGGUCGUGAAAAGAGGCAAGUAAGGUGGUAAUAAGAUGGUGGAGGCCAUUUGGUUGCCUGACAUGAUGCGCGAGUUUUUCAAAUCUUUAUGUCCUUUGUUUGA
((-(((..((((((...(((((((.((((........((((((.(((((((....))))))).))))))........))).)...)))))))...))))))..)))))...... ( -32.49)
>DroSim_CAF1 9731 113 - 1
AA-AGGUAGUAAGGUCGUGAAAAGAGGCAAGUAAGGUGGUAAUAAGAUGUUGGAGGCCAUUUGGUUGCCUGAAAUGAUGCGCGAGUUUUUCAAAUCUUUAUGUCCUUUGUUUGA
((-(((..((((((...((((((.((((((.((((.((((..(((....)))...)))))))).))))))........((....))))))))...))))))..)))))...... ( -31.20)
>DroEre_CAF1 9412 113 - 1
AG-AGGUAGUAGGGUCGUGAAAAGAGGCAAGUAAGGUGGUAAUAAGAUGUUGGAGGCCAUUUGGUUGCCUGAAAUGAUGCGCGAGUUUUUCAAAUCUUUAUGUCCUUUGUUUGA
((-(((..((((((...((((((.((((((.((((.((((..(((....)))...)))))))).))))))........((....))))))))...))))))..)))))...... ( -30.90)
>DroYak_CAF1 11364 114 - 1
AGGCGGUGGCAAGGUCGUGAAAAGAGGCAAGUAAGGUGGUGAUAAGAUGUUGGAGGCCAUUUGGUUGCCUGAAAUGAUGCGCGAGUUUUUCACAUCUUUAUGUCCUUUGUUUGA
((((((.((((((((.(((((((.((((((.((((.((((..(((....)))...)))))))).))))))........((....)))))))))))))...))))..)))))).. ( -30.20)
>consensus
AA_AGGUAGUAAGGUCGUGAAAAGAGGCAAGUAAGGUGGUAAUAAGAUGUUGGAGGCCAUUUGGUUGCCUGAAAUGAUGCGCGAGUUUUUCAAAUCUUUAUGUCCUUUGUUUGA
..........((((.((((((...((((((.((((.((((..(((....)))...)))))))).))))))((..(((.((....))...)))..)))))))).))))....... (-28.20 = -28.24 +   0.04)

alignment

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secondary structure

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dotplot

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Window 7

Location 7,201,765 – 7,201,862
Length 97
Sequences 3
Columns 112
Reading direction forward
Mean pairwise identity 84.42
Mean single sequence MFE -16.39
Consensus MFE -13.13
Energy contribution -13.13
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -2.08
Structure conservation index 0.80
SVM decision value 0.66
SVM RNA-class probability 0.816028
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7201765 97 + 22224390
GCAUCAUUUCAGGCAACCAAAUGGCCUCCAACAUCUUAUUACCACCUUACUUGCCUCUUUUCACGACCUUACUGCCU-UUUCAUCAACCAGUGAUGCU--------------
(((((.....((((((.....(((.................)))......))))))..............((((...-..........))))))))).-------------- ( -14.65)
>DroSec_CAF1 9637 97 + 1
GCAUCAUGUCAGGCAACCAAAUGGCCUCCACCAUCUUAUUACCACCUUACUUGCCUCUUUUCACGACCUUACUACCU-UUUUAUCAACCAGUGAUGCU--------------
(((((((...((((((.....(((.................)))......))))))........((...........-.....)).....))))))).-------------- ( -13.72)
>DroYak_CAF1 11398 112 + 1
GCAUCAUUUCAGGCAACCAAAUGGCCUCCAACAUCUUAUCACCACCUUACUUGCCUCUUUUCACGACCUUGCCACCGCCUUUAUCAACCAGUGAUGCCUGAAUGGUGAUAAC
.(((((((.((((((.......(((...........................))).....((((..........................)))))))))))))))))..... ( -20.80)
>consensus
GCAUCAUUUCAGGCAACCAAAUGGCCUCCAACAUCUUAUUACCACCUUACUUGCCUCUUUUCACGACCUUACUACCU_UUUUAUCAACCAGUGAUGCU______________
(((((((...((((((.....(((.................)))......))))))........((.................)).....)))))))............... (-13.13 = -13.13 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 8

Location 7,201,765 – 7,201,862
Length 97
Sequences 3
Columns 112
Reading direction reverse
Mean pairwise identity 84.42
Mean single sequence MFE -27.27
Consensus MFE -21.34
Energy contribution -21.23
Covariance contribution -0.11
Combinations/Pair 1.07
Mean z-score -2.23
Structure conservation index 0.78
SVM decision value 0.79
SVM RNA-class probability 0.850920
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 7201765 97 - 22224390
--------------AGCAUCACUGGUUGAUGAAA-AGGCAGUAAGGUCGUGAAAAGAGGCAAGUAAGGUGGUAAUAAGAUGUUGGAGGCCAUUUGGUUGCCUGAAAUGAUGC
--------------.(((((((((.((.......-)).))))..............((((((.((((.((((..(((....)))...)))))))).)))))).....))))) ( -26.10)
>DroSec_CAF1 9637 97 - 1
--------------AGCAUCACUGGUUGAUAAAA-AGGUAGUAAGGUCGUGAAAAGAGGCAAGUAAGGUGGUAAUAAGAUGGUGGAGGCCAUUUGGUUGCCUGACAUGAUGC
--------------.(((((((((.((.......-)).))))...(((((........)).........((((((.(((((((....))))))).)))))).)))..))))) ( -25.40)
>DroYak_CAF1 11398 112 - 1
GUUAUCACCAUUCAGGCAUCACUGGUUGAUAAAGGCGGUGGCAAGGUCGUGAAAAGAGGCAAGUAAGGUGGUGAUAAGAUGUUGGAGGCCAUUUGGUUGCCUGAAAUGAUGC
.(((((((((((...((.((((((.((.....)).))))))....(((.........)))..))..)))))))))))......((..(((....)))..))........... ( -30.30)
>consensus
______________AGCAUCACUGGUUGAUAAAA_AGGUAGUAAGGUCGUGAAAAGAGGCAAGUAAGGUGGUAAUAAGAUGUUGGAGGCCAUUUGGUUGCCUGAAAUGAUGC
...............(((((((((.((........)).)))...............((((((.((((.((((..((......))...)))))))).))))))....)))))) (-21.34 = -21.23 +  -0.11)

alignment

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secondary structure

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dotplot

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Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:40:55 2006