Locus 7375

Sequence ID 3R_DroMel_CAF1
Location 19,565,422 – 19,565,518
Length 96
Max. P 0.944491
window11925 window11926

overview

Window 5

Location 19,565,422 – 19,565,518
Length 96
Sequences 6
Columns 97
Reading direction forward
Mean pairwise identity 87.47
Mean single sequence MFE -26.57
Consensus MFE -23.62
Energy contribution -23.78
Covariance contribution 0.17
Combinations/Pair 1.00
Mean z-score -2.11
Structure conservation index 0.89
SVM decision value 1.34
SVM RNA-class probability 0.944491
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19565422 96 + 27905053
AUUCAAAUUUGCAACAAGCUGCCAGAAAU-CAGAGGCAGCCAACCAAAGUUGCCCACUUUACGAGCGCUUAUGUUGCAGAUGACAUGCGCCAACAAC
......((((((((((.((((((......-....))))))......((((.((.(.......).)))))).))))))))))................ ( -24.90)
>DroSec_CAF1 8166 96 + 1
AUUCAAAUUUGCAACAAGCUGCCAGAAAU-CAGAGGCAGCCAACCAAAGUUGCCCACUUUACGAGCGCUUAUGUUGCAGAUGACAGGCGCCAACAAC
......((((((((((.((((((......-....))))))......((((.((.(.......).)))))).))))))))))................ ( -24.90)
>DroSim_CAF1 9136 96 + 1
AUUCAGAUUUGCAACAAGCUGCCAGAAAU-CAGAGGCAGCCAACCAAAGUUGCCCACUUUACGAGCGCUUAUGUUGCAGAUGACAGGCGCCAACAAC
......((((((((((.((((((......-....))))))......((((.((.(.......).)))))).))))))))))................ ( -25.00)
>DroEre_CAF1 8128 88 + 1
AUUCAAAUUUGCAACAAGCUGCCAGAAAG-CAGAGGCAGCCAACCAAAGUUGCCCACUUUACGAGCGCUUAUGUUGCAGAUGACAAGCG--------
......(((((((((((((.((..(((((-..(.((((((........))))))).)))).)..)))))..))))))))))........-------- ( -27.00)
>DroYak_CAF1 8210 88 + 1
AUUCAAAUUUGCAACAAGCUGCCAGAAAG-CAGAGGCAGCCAACCCAAGUUGCCCACUUUACGAGCGCUUAUGUGGCAGAUGACAGGCA--------
.........(((......((((((.((((-(.(.((((((........))))))).(((...))).)))).).)))))).......)))-------- ( -25.22)
>DroAna_CAF1 6903 87 + 1
AUUCAAAUUUGCAACAAGCUGCCAGGAGUGGCGAGGCAGCCAACCA-GGUUGGUCGCUUUACUGCCGCUUAUGUUGCAGAUGACAGGC---------
......((((((((((.........((((((((((((.((((((..-.)))))).)))))...))))))).)))))))))).......--------- ( -32.40)
>consensus
AUUCAAAUUUGCAACAAGCUGCCAGAAAU_CAGAGGCAGCCAACCAAAGUUGCCCACUUUACGAGCGCUUAUGUUGCAGAUGACAGGCG________
......((((((((((.((((((...........))))))((((....))))...................))))))))))................ (-23.62 = -23.78 +   0.17)

alignment

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secondary structure

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dotplot

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Window 6

Location 19,565,422 – 19,565,518
Length 96
Sequences 6
Columns 97
Reading direction reverse
Mean pairwise identity 87.47
Mean single sequence MFE -28.22
Consensus MFE -25.35
Energy contribution -25.43
Covariance contribution 0.08
Combinations/Pair 1.09
Mean z-score -1.41
Structure conservation index 0.90
SVM decision value 0.25
SVM RNA-class probability 0.651500
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 19565422 96 - 27905053
GUUGUUGGCGCAUGUCAUCUGCAACAUAAGCGCUCGUAAAGUGGGCAACUUUGGUUGGCUGCCUCUG-AUUUCUGGCAGCUUGUUGCAAAUUUGAAU
..((..(((((((((........))))..)))))..))((((..(((((.......(((((((....-......))))))).)))))..)))).... ( -27.80)
>DroSec_CAF1 8166 96 - 1
GUUGUUGGCGCCUGUCAUCUGCAACAUAAGCGCUCGUAAAGUGGGCAACUUUGGUUGGCUGCCUCUG-AUUUCUGGCAGCUUGUUGCAAAUUUGAAU
.....((((....))))..(((((((.....(((((.....)))))..........(((((((....-......))))))))))))))......... ( -27.70)
>DroSim_CAF1 9136 96 - 1
GUUGUUGGCGCCUGUCAUCUGCAACAUAAGCGCUCGUAAAGUGGGCAACUUUGGUUGGCUGCCUCUG-AUUUCUGGCAGCUUGUUGCAAAUCUGAAU
.....((((....))))..(((((((.....(((((.....)))))..........(((((((....-......))))))))))))))......... ( -27.70)
>DroEre_CAF1 8128 88 - 1
--------CGCUUGUCAUCUGCAACAUAAGCGCUCGUAAAGUGGGCAACUUUGGUUGGCUGCCUCUG-CUUUCUGGCAGCUUGUUGCAAAUUUGAAU
--------......(((..(((((((..((((((.(.((((((((((.((......)).)))))..)-))))).))).))))))))))....))).. ( -27.30)
>DroYak_CAF1 8210 88 - 1
--------UGCCUGUCAUCUGCCACAUAAGCGCUCGUAAAGUGGGCAACUUGGGUUGGCUGCCUCUG-CUUUCUGGCAGCUUGUUGCAAAUUUGAAU
--------(((....((.((((((...(((((((((.....))))).....((((.....))))..)-)))..))))))..))..)))......... ( -25.10)
>DroAna_CAF1 6903 87 - 1
---------GCCUGUCAUCUGCAACAUAAGCGGCAGUAAAGCGACCAACC-UGGUUGGCUGCCUCGCCACUCCUGGCAGCUUGUUGCAAAUUUGAAU
---------.....(((..(((((((..(((((((((....(((((....-.)))))))))))..((((....)))).))))))))))....))).. ( -33.70)
>consensus
________CGCCUGUCAUCUGCAACAUAAGCGCUCGUAAAGUGGGCAACUUUGGUUGGCUGCCUCUG_AUUUCUGGCAGCUUGUUGCAAAUUUGAAU
..............(((..(((((((.....(((((.....)))))..........(((((((...........))))))))))))))....))).. (-25.35 = -25.43 +   0.08)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:44:25 2006