Locus 6550

Sequence ID X_DroMel_CAF1
Location 16,396,599 – 16,396,694
Length 95
Max. P 0.973065
window10696 window10697

overview

Window 6

Location 16,396,599 – 16,396,694
Length 95
Sequences 4
Columns 97
Reading direction forward
Mean pairwise identity 97.22
Mean single sequence MFE -15.40
Consensus MFE -14.72
Energy contribution -14.72
Covariance contribution -0.00
Combinations/Pair 1.00
Mean z-score -1.51
Structure conservation index 0.96
SVM decision value -0.01
SVM RNA-class probability 0.528531
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16396599 95 + 22224390
UUGGUUUUUGGUUUCUUCUCAUAUAUGUGUAUAUUAAUUAAAUUUACUUUGGUUUUUGCAUUUGCUUUU--UUUAUGUUAGAAGAGCGCGCUAAUUU
.......((((((((((((.(((((.(((((....(((((((.....)))))))..)))))........--..))))).)))))))...)))))... ( -14.90)
>DroSec_CAF1 17611 94 + 1
UUGGUUUUUGGUUUCUUCUCAUAUAUGUGUAUAUUAAUUAAAUUUACUUUGGUUUUUGCAUUUGCUUU---UUUAUGUUAGAAGAGCGCGCUAAUUU
.......((((((((((((.(((((.(((((....(((((((.....)))))))..))))).......---..))))).)))))))...)))))... ( -15.00)
>DroSim_CAF1 16001 94 + 1
UUGGUUUUUGGUUUCUUCUCAUAUAUGUGUAUAUUAAUUAAAUUUACUUUGGUUUUUGCAUUUGCUUU---UUUAUGUUAGAAGAGCGCGCUAAUUU
.......((((((((((((.(((((.(((((....(((((((.....)))))))..))))).......---..))))).)))))))...)))))... ( -15.00)
>DroYak_CAF1 14080 96 + 1
UUGGUUUUUGGUUUCUUCUCAUAUAUGUGUAUAUUAAUUAAAUGUACUUUGGUU-UUGCAUUUGCUUUUUUUUUAUGUUAGAAGAGCGCGCUAAUUU
.......((((((((((((.(((((...(((((((.....))))))).......-..((....))........))))).)))))))...)))))... ( -16.70)
>consensus
UUGGUUUUUGGUUUCUUCUCAUAUAUGUGUAUAUUAAUUAAAUUUACUUUGGUUUUUGCAUUUGCUUU___UUUAUGUUAGAAGAGCGCGCUAAUUU
.......((((((((((((.(((((.(((((....(((((((.....)))))))..)))))............))))).)))))))...)))))... (-14.72 = -14.72 +  -0.00)

alignment

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secondary structure

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dotplot

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Window 7

Location 16,396,599 – 16,396,694
Length 95
Sequences 4
Columns 97
Reading direction reverse
Mean pairwise identity 97.22
Mean single sequence MFE -9.90
Consensus MFE -9.90
Energy contribution -9.90
Covariance contribution 0.00
Combinations/Pair 1.00
Mean z-score -2.43
Structure conservation index 1.00
SVM decision value 1.70
SVM RNA-class probability 0.973065
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 16396599 95 - 22224390
AAAUUAGCGCGCUCUUCUAACAUAAA--AAAAGCAAAUGCAAAAACCAAAGUAAAUUUAAUUAAUAUACACAUAUAUGAGAAGAAACCAAAAACCAA
............((((((..((((..--....((....))..........(((.(((.....))).))).....))))))))))............. (  -9.90)
>DroSec_CAF1 17611 94 - 1
AAAUUAGCGCGCUCUUCUAACAUAAA---AAAGCAAAUGCAAAAACCAAAGUAAAUUUAAUUAAUAUACACAUAUAUGAGAAGAAACCAAAAACCAA
............((((((..((((..---...((....))..........(((.(((.....))).))).....))))))))))............. (  -9.90)
>DroSim_CAF1 16001 94 - 1
AAAUUAGCGCGCUCUUCUAACAUAAA---AAAGCAAAUGCAAAAACCAAAGUAAAUUUAAUUAAUAUACACAUAUAUGAGAAGAAACCAAAAACCAA
............((((((..((((..---...((....))..........(((.(((.....))).))).....))))))))))............. (  -9.90)
>DroYak_CAF1 14080 96 - 1
AAAUUAGCGCGCUCUUCUAACAUAAAAAAAAAGCAAAUGCAA-AACCAAAGUACAUUUAAUUAAUAUACACAUAUAUGAGAAGAAACCAAAAACCAA
............((((((..((((........((....))..-.......(((.(((.....))).))).....))))))))))............. (  -9.90)
>consensus
AAAUUAGCGCGCUCUUCUAACAUAAA___AAAGCAAAUGCAAAAACCAAAGUAAAUUUAAUUAAUAUACACAUAUAUGAGAAGAAACCAAAAACCAA
............((((((..((((........((....))..........(((.(((.....))).))).....))))))))))............. ( -9.90 =  -9.90 +   0.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:16:38 2006