Locus 5126

Sequence ID 3R_DroMel_CAF1
Location 13,497,525 – 13,497,623
Length 98
Max. P 0.897285
window8365 window8366

overview

Window 5

Location 13,497,525 – 13,497,623
Length 98
Sequences 6
Columns 98
Reading direction forward
Mean pairwise identity 76.67
Mean single sequence MFE -27.02
Consensus MFE -16.40
Energy contribution -16.52
Covariance contribution 0.11
Combinations/Pair 1.25
Mean z-score -1.69
Structure conservation index 0.61
SVM decision value 0.70
SVM RNA-class probability 0.826713
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13497525 98 + 27905053
UAGAAAUGUUCAUUACUUCUACAUACAACGUUUUUAUCGAUUCUAGACCUCGCCGAGUGUCCGAGUUGACUAUGAUGGAUUCGGACAGUGACGAGGAG
((((((((((................))))))))))...........(((((.((..((((((((((.(......).)))))))))).)).))))).. ( -27.79)
>DroSec_CAF1 47433 98 + 1
UAGGGAUGGUUAUUAAUGCUACAUUCAACGUUUUUAUCAAUUCUAGACCUCGCCGAGUGUCCGAGUUGACUAUGAUGGAUUCGGACAGUGACGAGGAG
(((((.((((....((((..........))))...)))).)))))..(((((.((..((((((((((.(......).)))))))))).)).))))).. ( -28.30)
>DroSim_CAF1 46389 98 + 1
UAGAAAUGGUUAUUAAUUCUAUAUUCAACGUUUUUAUCGAUUCUAGACCUCGUCGAGUGUCCGAGUUGACUAUGAUGGAUUCGGACAGCGACGAGGAG
((((((((....................))))))))...........((((((((..((((((((((.(......).)))))))))).)))))))).. ( -33.45)
>DroEre_CAF1 44525 98 + 1
UAGAAAUGGUUAUUAAUUCUACAGUCAACGUUUUUAUUGAUUCUAGACCUCGGCGAGUCUCCGAGUUGACUAUGAUGGAUUCGGACAGUGACGAGGAG
.................((((.((((((........)))))).))))(((((.((....((((((((.(......).))))))))...)).))))).. ( -24.90)
>DroYak_CAF1 54072 87 + 1
UAAAAAUGGGAAUUAAUUA-----------AUUCUAUCGAUUCUAGACCUCGUCGAGUAUCCGAGUUGACUAUGAUGGAUUUGGACAGUGACGAGGAG
........(((((..((..-----------.....))..)))))...((((((((....((((((((.(......).))))))))...)))))))).. ( -25.20)
>DroMoj_CAF1 50113 91 + 1
---GAAGGCAAU----GUCUGUAUUUCAGAUCAUUUCCGCUUACAGUCCCAGACGCCGAGCCGAGUUGACAAUGAUGGACUCGGACAGUGAUGAUGAG
---...((((((----(((((.....)))).))))..........(((...))))))...(((((((.(......).))))))).((....))..... ( -22.50)
>consensus
UAGAAAUGGUUAUUAAUUCUACAUUCAACGUUUUUAUCGAUUCUAGACCUCGCCGAGUGUCCGAGUUGACUAUGAUGGAUUCGGACAGUGACGAGGAG
...............................................(((((.((....((((((((.(......).))))))))...)).))))).. (-16.40 = -16.52 +   0.11)

alignment

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secondary structure

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dotplot

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Window 6

Location 13,497,525 – 13,497,623
Length 98
Sequences 6
Columns 98
Reading direction reverse
Mean pairwise identity 76.67
Mean single sequence MFE -21.79
Consensus MFE -13.49
Energy contribution -14.57
Covariance contribution 1.08
Combinations/Pair 1.21
Mean z-score -1.80
Structure conservation index 0.62
SVM decision value 1.00
SVM RNA-class probability 0.897285
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13497525 98 - 27905053
CUCCUCGUCACUGUCCGAAUCCAUCAUAGUCAACUCGGACACUCGGCGAGGUCUAGAAUCGAUAAAAACGUUGUAUGUAGAAGUAAUGAACAUUUCUA
..(((((((..(((((((................)))))))...)))))))((((.(..((((......))))..).))))................. ( -23.79)
>DroSec_CAF1 47433 98 - 1
CUCCUCGUCACUGUCCGAAUCCAUCAUAGUCAACUCGGACACUCGGCGAGGUCUAGAAUUGAUAAAAACGUUGAAUGUAGCAUUAAUAACCAUCCCUA
..(((((((..(((((((................)))))))...))))))).(((.(.(..((......))..).).))).................. ( -21.99)
>DroSim_CAF1 46389 98 - 1
CUCCUCGUCGCUGUCCGAAUCCAUCAUAGUCAACUCGGACACUCGACGAGGUCUAGAAUCGAUAAAAACGUUGAAUAUAGAAUUAAUAACCAUUUCUA
..((((((((.(((((((................)))))))..))))))))((((...(((((......)))))...))))................. ( -28.59)
>DroEre_CAF1 44525 98 - 1
CUCCUCGUCACUGUCCGAAUCCAUCAUAGUCAACUCGGAGACUCGCCGAGGUCUAGAAUCAAUAAAAACGUUGACUGUAGAAUUAAUAACCAUUUCUA
..(((((.(..(.(((((................))))).)...).)))))((((.(.(((((......))))).).))))................. ( -18.59)
>DroYak_CAF1 54072 87 - 1
CUCCUCGUCACUGUCCAAAUCCAUCAUAGUCAACUCGGAUACUCGACGAGGUCUAGAAUCGAUAGAAU-----------UAAUUAAUUCCCAUUUUUA
..(((((((..(((((....................)))))...)))))))....((((..((.....-----------..))..))))......... ( -16.45)
>DroMoj_CAF1 50113 91 - 1
CUCAUCAUCACUGUCCGAGUCCAUCAUUGUCAACUCGGCUCGGCGUCUGGGACUGUAAGCGGAAAUGAUCUGAAAUACAGAC----AUUGCCUUC---
((((....(.(((.((((((.((....))...))))))..))).)..)))).........((.((((.((((.....)))))----))).))...--- ( -21.30)
>consensus
CUCCUCGUCACUGUCCGAAUCCAUCAUAGUCAACUCGGACACUCGACGAGGUCUAGAAUCGAUAAAAACGUUGAAUGUAGAAUUAAUAACCAUUUCUA
..(((((((..(((((((................)))))))...)))))))............................................... (-13.49 = -14.57 +   1.08)

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 11:46:58 2006