Locus 2873

Sequence ID 2R_DroMel_CAF1
Location 9,934,111 – 9,934,208
Length 97
Max. P 0.996258
window4748 window4749

overview

Window 8

Location 9,934,111 – 9,934,208
Length 97
Sequences 5
Columns 110
Reading direction forward
Mean pairwise identity 84.58
Mean single sequence MFE -33.74
Consensus MFE -22.52
Energy contribution -22.16
Covariance contribution -0.36
Combinations/Pair 1.11
Mean z-score -4.25
Structure conservation index 0.67
SVM decision value 2.66
SVM RNA-class probability 0.996127
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9934111 97 + 20766785
-------AACGGCUCGUUCUGGACGCAGUAAUUGCGAUUGCAAUAGCAAUAU------CAACUGCAAUUGCAAUUGCAAUUGCAAUCGUGUGUUAUUUUCGUGCAACGAG
-------....((.((.....(((((((((((((((((((((((.(((....------....))).))))))))))))))))).....)))))).....)).))...... ( -36.90)
>DroSec_CAF1 69545 91 + 1
-------AACGGCUCGUUCUGGACGCAGUAAUUGCGAUUGCAAUAGCAAUAG------CAACUGCAAUUG------CAAUUGCAAUCGUGUGUUAUUUUCGUGCAACGAG
-------.....(((((..((.(((.((((((((((((((((((.(((((.(------(....)).))))------).)))))))))))).))))))..))).))))))) ( -36.00)
>DroSim_CAF1 55417 91 + 1
-------AACGGCUCGUUCUGGACGCAGUAAUUGCGAUUGCAAUAGCAAUAG------CAACUGCAAUUG------CAAUUGCAAUCGUGUGUUAUUUUCGUGCAACGAG
-------.....(((((..((.(((.((((((((((((((((((.(((((.(------(....)).))))------).)))))))))))).))))))..))).))))))) ( -36.00)
>DroEre_CAF1 57481 79 + 1
-------AACGGCUCGUUCUGGACGCAGUAAUUGCGAUUGCAAUAGCAAU------------------UG------CAAUUGCAGUUGUGUGUUAUUUUUGUGCAACGAG
-------....((.((.....((((((.((((((((((((((((....))------------------))------)))))))))))))))))).....)).))...... ( -30.40)
>DroYak_CAF1 52794 104 + 1
AACGAUAAACGGCUCGUUCUGGACGCAGUAAUUGCGAUUGCAAUAGCAAUAUCAACAGCAACAGCAACUG------CAAUUGCAAUUGAGUGUUAUUUUCGUGCAACGAG
...........((.((.....(((((..(((((((((((((((((....))).....((....))...))------)))))))))))).))))).....)).))...... ( -29.40)
>consensus
_______AACGGCUCGUUCUGGACGCAGUAAUUGCGAUUGCAAUAGCAAUAG______CAACUGCAAUUG______CAAUUGCAAUCGUGUGUUAUUUUCGUGCAACGAG
............(((((..((.(((.((((((((((((((((((..................................)))))))))))).))))))..))).))))))) (-22.52 = -22.16 +  -0.36)

alignment

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secondary structure

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dotplot

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Window 9

Location 9,934,111 – 9,934,208
Length 97
Sequences 5
Columns 110
Reading direction reverse
Mean pairwise identity 84.58
Mean single sequence MFE -27.22
Consensus MFE -20.82
Energy contribution -22.98
Covariance contribution 2.16
Combinations/Pair 1.07
Mean z-score -3.21
Structure conservation index 0.76
SVM decision value 2.67
SVM RNA-class probability 0.996258
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9934111 97 - 20766785
CUCGUUGCACGAAAAUAACACACGAUUGCAAUUGCAAUUGCAAUUGCAGUUG------AUAUUGCUAUUGCAAUCGCAAUUACUGCGUCCAGAACGAGCCGUU-------
((((((((..............(((((((((((((....)))))))))))))------..(((((....))))).)).....(((....))))))))).....------- ( -32.00)
>DroSec_CAF1 69545 91 - 1
CUCGUUGCACGAAAAUAACACACGAUUGCAAUUG------CAAUUGCAGUUG------CUAUUGCUAUUGCAAUCGCAAUUACUGCGUCCAGAACGAGCCGUU-------
((((((.................(((((((((.(------((((.((....)------).))))).)))))))))(((.....)))......)))))).....------- ( -29.70)
>DroSim_CAF1 55417 91 - 1
CUCGUUGCACGAAAAUAACACACGAUUGCAAUUG------CAAUUGCAGUUG------CUAUUGCUAUUGCAAUCGCAAUUACUGCGUCCAGAACGAGCCGUU-------
((((((.................(((((((((.(------((((.((....)------).))))).)))))))))(((.....)))......)))))).....------- ( -29.70)
>DroEre_CAF1 57481 79 - 1
CUCGUUGCACAAAAAUAACACACAACUGCAAUUG------CA------------------AUUGCUAUUGCAAUCGCAAUUACUGCGUCCAGAACGAGCCGUU-------
((((((.......................(((((------(.------------------(((((....))))).)))))).(((....))))))))).....------- ( -19.00)
>DroYak_CAF1 52794 104 - 1
CUCGUUGCACGAAAAUAACACUCAAUUGCAAUUG------CAGUUGCUGUUGCUGUUGAUAUUGCUAUUGCAAUCGCAAUUACUGCGUCCAGAACGAGCCGUUUAUCGUU
((((((................(((((((....)------))))))(((.(((.((((..(((((....)))))..))))....)))..)))))))))............ ( -25.70)
>consensus
CUCGUUGCACGAAAAUAACACACGAUUGCAAUUG______CAAUUGCAGUUG______AUAUUGCUAUUGCAAUCGCAAUUACUGCGUCCAGAACGAGCCGUU_______
((((((((..............(((((((((((((....)))))))))))))........(((((....))))).)).....(((....)))))))))............ (-20.82 = -22.98 +   2.16)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:41:40 2006