Locus 774

Sequence ID 2R_DroMel_CAF1
Location 3,737,387 – 3,737,501
Length 114
Max. P 0.766066
window1350 window1351

overview

Window 0

Location 3,737,387 – 3,737,501
Length 114
Sequences 3
Columns 120
Reading direction forward
Mean pairwise identity 89.55
Mean single sequence MFE -26.58
Consensus MFE -21.05
Energy contribution -21.72
Covariance contribution 0.67
Combinations/Pair 1.00
Mean z-score -2.45
Structure conservation index 0.79
SVM decision value 0.52
SVM RNA-class probability 0.766066
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3737387 114 + 20766785
--UAUUGUUU---UUGAUAUUAUUUUAGUUUUGGGCUGACCUGAGCCCUCAUCCAAAGAGCUAUAACUCGGGCAGCCUUGCUCCCUUUGUUAUGUCCCUAACGAUGUCCUUAUACU-AUU
--(((((((.---..(((((.((...(((...((((((.((((((..(((.......)))......)))))))))))).)))......)).)))))...)))))))..........-... ( -28.50)
>DroSim_CAF1 156 114 + 1
--UAUUGUUU---UUGAUAUUAUUUUAAUUUUGGGCUGACCUGAGCCUUCAUCCAAAGAGCUAUAACUCGGGCAGCCUUGCUCCCUUUGUUAUGUCCCUAACGAUGUCCUUAUACU-CUU
--(((((((.---..(((((............((((((.((((((......((....)).......)))))))))))).............)))))...)))))))..........-... ( -26.73)
>DroYak_CAF1 158 120 + 1
GAUAUUUCUUUAAUUGAUAUUAUUUAAAUUUUGGGCUGACCUCAGCUCCCAUCCAAAGAGCUAUAACUCGGGCAGCCUUGCUACCUUUGUUAUGUCCCCAACGAUGUCCUUAUAUUUUUU
((((((.......((((......))))...(((((..(((...(((((.........)))))(((((..(((.(((...))).)))..))))))))))))).))))))............ ( -24.50)
>consensus
__UAUUGUUU___UUGAUAUUAUUUUAAUUUUGGGCUGACCUGAGCCCUCAUCCAAAGAGCUAUAACUCGGGCAGCCUUGCUCCCUUUGUUAUGUCCCUAACGAUGUCCUUAUACU_AUU
...............((((((...........((((((.((((((......((....)).......))))))))))))..........((((......))))))))))............ (-21.05 = -21.72 +   0.67)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 3,737,387 – 3,737,501
Length 114
Sequences 3
Columns 120
Reading direction reverse
Mean pairwise identity 89.55
Mean single sequence MFE -28.03
Consensus MFE -21.79
Energy contribution -22.57
Covariance contribution 0.78
Combinations/Pair 1.04
Mean z-score -2.35
Structure conservation index 0.78
SVM decision value 0.33
SVM RNA-class probability 0.693470
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 3737387 114 - 20766785
AAU-AGUAUAAGGACAUCGUUAGGGACAUAACAAAGGGAGCAAGGCUGCCCGAGUUAUAGCUCUUUGGAUGAGGGCUCAGGUCAGCCCAAAACUAAAAUAAUAUCAA---AAACAAUA--
..(-(((.......((((...((((..(((((...((((((...))).)))..)))))..))))...)))).(((((......)))))...))))............---........-- ( -30.30)
>DroSim_CAF1 156 114 - 1
AAG-AGUAUAAGGACAUCGUUAGGGACAUAACAAAGGGAGCAAGGCUGCCCGAGUUAUAGCUCUUUGGAUGAAGGCUCAGGUCAGCCCAAAAUUAAAAUAAUAUCAA---AAACAAUA--
..(-(.(((.....((((...((((..(((((...((((((...))).)))..)))))..))))...))))..((((......))))..........)))...))..---........-- ( -24.70)
>DroYak_CAF1 158 120 - 1
AAAAAAUAUAAGGACAUCGUUGGGGACAUAACAAAGGUAGCAAGGCUGCCCGAGUUAUAGCUCUUUGGAUGGGAGCUGAGGUCAGCCCAAAAUUUAAAUAAUAUCAAUUAAAGAAAUAUC
..............((((...((((..(((((...((((((...))))))...)))))..))))...))))((.((((....))))))................................ ( -29.10)
>consensus
AAA_AGUAUAAGGACAUCGUUAGGGACAUAACAAAGGGAGCAAGGCUGCCCGAGUUAUAGCUCUUUGGAUGAGGGCUCAGGUCAGCCCAAAAUUAAAAUAAUAUCAA___AAACAAUA__
..............((((...((((..(((((...((((((...))).)))..)))))..))))...)))).(((((......)))))................................ (-21.79 = -22.57 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:46:54 2006