Locus 2695

Sequence ID 2R_DroMel_CAF1
Location 9,507,850 – 9,507,970
Length 120
Max. P 0.938495
window4440 window4441

overview

Window 0

Location 9,507,850 – 9,507,970
Length 120
Sequences 5
Columns 120
Reading direction forward
Mean pairwise identity 85.43
Mean single sequence MFE -24.18
Consensus MFE -16.66
Energy contribution -17.22
Covariance contribution 0.56
Combinations/Pair 1.04
Mean z-score -2.69
Structure conservation index 0.69
SVM decision value 1.29
SVM RNA-class probability 0.938495
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9507850 120 + 20766785
UAAUAAAAUUGUGCCGUUCUUGUUGUUGUUGCAGUUGGAUUAAAAUUCAAAGCAUUGGAUAAAUGCUAAGUUGAAAUAACAACAGUAAUAACAAAUGGAAAAUAGCAAAUAGCAAAUCAA
........((((....((((..((((((((((..((((((....))))))((((((.....))))))..((((......)))).))))))))))..))))....))))............ ( -28.10)
>DroSec_CAF1 4881 102 + 1
UAAUAAAGUUGUGCCGUUCUUGUUGUUGUUGCAGUUGGAUUAAAAGUCAAAGCAUUGGAUAAAUGCUAAGUUGAAAUAACAACACAAAUAA------------------GGGCAAAUCAA
.......(...((((.((..((((((((((.(((...(((.....)))..((((((.....))))))...))).)))))))))).....))------------------.))))...).. ( -24.00)
>DroSim_CAF1 4880 102 + 1
UAAUAAAAUUGUGCCGUUCUUGUUGUUGUUGCAGUUGGAUUAAAAGUCAAAGCAUUGGAUAAAUGCUAAGUUGAAAUAACAACACAAAUAA------------------GGGCAAAUCAA
...........((((.((..((((((((((.(((...(((.....)))..((((((.....))))))...))).)))))))))).....))------------------.))))...... ( -23.50)
>DroEre_CAF1 4906 101 + 1
UAAUAAAAUUGUGCCGUUCUUGUUGUUGUUGCAGUUGGAUUAAAAUUCAAAGCAUUU-AUCAGUGCUAAAUUGAAUGAACAACAAAAGUAA------------------GGGCAAAUCAU
...........((((.(((((.((((((((.((.((((((....))))))(((((..-....)))))........))))))))))))).))------------------.))))...... ( -24.70)
>DroYak_CAF1 4845 101 + 1
UAAUAAAAUUGUGUCGUUCUUGUUGUUGUUGCAGUUGGAUUAAAAUUCAAAGCAUUU-AUCAGUGCUAAAUUGAAAUAACAACACAAGUAA------------------GGGUAAAUCAU
...........(..(.(((((((.(((((((...((((((....))))))(((((..-....))))).........)))))))))))).))------------------.)..)...... ( -20.60)
>consensus
UAAUAAAAUUGUGCCGUUCUUGUUGUUGUUGCAGUUGGAUUAAAAUUCAAAGCAUUGGAUAAAUGCUAAGUUGAAAUAACAACACAAAUAA__________________GGGCAAAUCAA
....................((((((((((.(((((((((....))))))((((((.....))))))...))).)))))))))).................................... (-16.66 = -17.22 +   0.56)

alignment

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secondary structure

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dotplot

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Window 1

Location 9,507,850 – 9,507,970
Length 120
Sequences 5
Columns 120
Reading direction reverse
Mean pairwise identity 85.43
Mean single sequence MFE -16.48
Consensus MFE -12.08
Energy contribution -12.92
Covariance contribution 0.84
Combinations/Pair 1.05
Mean z-score -1.58
Structure conservation index 0.73
SVM decision value 0.01
SVM RNA-class probability 0.538373
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 9507850 120 - 20766785
UUGAUUUGCUAUUUGCUAUUUUCCAUUUGUUAUUACUGUUGUUAUUUCAACUUAGCAUUUAUCCAAUGCUUUGAAUUUUAAUCCAACUGCAACAACAACAAGAACGGCACAAUUUUAUUA
.............(((..((((....(((((.((.(.(((((((.(((((...((((((.....)))))))))))...)))..)))).).)).)))))..))))..)))........... ( -16.40)
>DroSec_CAF1 4881 102 - 1
UUGAUUUGCCC------------------UUAUUUGUGUUGUUAUUUCAACUUAGCAUUUAUCCAAUGCUUUGACUUUUAAUCCAACUGCAACAACAACAAGAACGGCACAACUUUAUUA
......((((.------------------((.(((((((((((...((((...((((((.....)))))))))).........(....).)))))).))))))).))))........... ( -17.00)
>DroSim_CAF1 4880 102 - 1
UUGAUUUGCCC------------------UUAUUUGUGUUGUUAUUUCAACUUAGCAUUUAUCCAAUGCUUUGACUUUUAAUCCAACUGCAACAACAACAAGAACGGCACAAUUUUAUUA
......((((.------------------((.(((((((((((...((((...((((((.....)))))))))).........(....).)))))).))))))).))))........... ( -17.00)
>DroEre_CAF1 4906 101 - 1
AUGAUUUGCCC------------------UUACUUUUGUUGUUCAUUCAAUUUAGCACUGAU-AAAUGCUUUGAAUUUUAAUCCAACUGCAACAACAACAAGAACGGCACAAUUUUAUUA
......((((.------------------((.((((((((((((((((((...((((.....-...)))))))))............)).)))))))).))))).))))........... ( -17.60)
>DroYak_CAF1 4845 101 - 1
AUGAUUUACCC------------------UUACUUGUGUUGUUAUUUCAAUUUAGCACUGAU-AAAUGCUUUGAAUUUUAAUCCAACUGCAACAACAACAAGAACGACACAAUUUUAUUA
...........------------------....((((((((((..(((((...((((.....-...)))))))))...........((............))))))))))))........ ( -14.40)
>consensus
UUGAUUUGCCC__________________UUAUUUGUGUUGUUAUUUCAACUUAGCAUUUAUCCAAUGCUUUGAAUUUUAAUCCAACUGCAACAACAACAAGAACGGCACAAUUUUAUUA
.................................((((((((((...((((...((((((.....))))))))))............((............))))))))))))........ (-12.08 = -12.92 +   0.84)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:36:40 2006