Locus 5287

Sequence ID 2L_DroMel_CAF1
Location 14,901,497 – 14,901,612
Length 115
Max. P 0.981560
window8410 window8411

overview

Window 0

Location 14,901,497 – 14,901,612
Length 115
Sequences 4
Columns 120
Reading direction forward
Mean pairwise identity 92.06
Mean single sequence MFE -37.12
Consensus MFE -32.28
Energy contribution -31.65
Covariance contribution -0.63
Combinations/Pair 1.13
Mean z-score -2.63
Structure conservation index 0.87
SVM decision value 1.89
SVM RNA-class probability 0.981560
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14901497 115 + 22407834
-----GUCGGAAAGUUCGAUAAUGAACAAAGAAAGCAUCCGGCGGGGAGAUUGCGGAUUACUGGUCUCUUCUCUUGUCAAUAUGGCAUUAAUGCUACCGGUGAAUUUUAUUUGUUCAUAA
-----((((((...)))))).(((((((((((((....((((.((((((((..(((....)))))))))))...........(((((....)))))))))....)))).))))))))).. ( -33.30)
>DroSec_CAF1 59075 115 + 1
-----CUCGGAAAGUUCGAUAAUGAACAAAGAAAGCAUCCGGCGGGGAGAUUGCGGAUUACUGGUCUCUCCCCUUGUCAAUAUGGCAUUAAUGCUAUCGGUGAAUUUUAUUUGUUCAUAA
-----.(((((...)))))..(((((((((((((....(((..(((((((...(((....)))...)))))))........((((((....)))))))))....)))).))))))))).. ( -34.70)
>DroSim_CAF1 61957 115 + 1
-----GUCGGAAAGUUCGAUAAUGAACAAAGAAAGCAUCCGGCGGGGAGAUUGCGGAUUACUGGUCUCUCCCCUUGUCAAUAUGGCAUUAAUGCUACCGGUGAAUUUUAUUUGUUCAUAA
-----((((((...)))))).(((((((((((((....((((.(((((((...(((....)))...))))))).........(((((....)))))))))....)))).))))))))).. ( -38.30)
>DroYak_CAF1 58769 120 + 1
GUAGCGUCGGAAAGUUCGAUAAUGAACAAAGAAAGCAUCCGGCGGGAAGAUUGGGGAUUACUGCUCUUUCCGCUCGUCAAUAUGGCCUUAAUGCUGCCGGUGAGCUUUAUUUGUUCAUAA
.....((((((...)))))).(((((((((.(((((...(((((((((((..((......))..))))))))).))(((...((((.........)))).)))))))).))))))))).. ( -42.20)
>consensus
_____GUCGGAAAGUUCGAUAAUGAACAAAGAAAGCAUCCGGCGGGGAGAUUGCGGAUUACUGGUCUCUCCCCUUGUCAAUAUGGCAUUAAUGCUACCGGUGAAUUUUAUUUGUUCAUAA
.....((((((...)))))).(((((((((.((((...((((.((((((((((.(.....)))))))))))...........((((......))))))))....)))).))))))))).. (-32.28 = -31.65 +  -0.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 14,901,497 – 14,901,612
Length 115
Sequences 4
Columns 120
Reading direction reverse
Mean pairwise identity 92.06
Mean single sequence MFE -27.96
Consensus MFE -22.90
Energy contribution -23.84
Covariance contribution 0.94
Combinations/Pair 1.06
Mean z-score -1.69
Structure conservation index 0.82
SVM decision value 0.33
SVM RNA-class probability 0.692266
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 14901497 115 - 22407834
UUAUGAACAAAUAAAAUUCACCGGUAGCAUUAAUGCCAUAUUGACAAGAGAAGAGACCAGUAAUCCGCAAUCUCCCCGCCGGAUGCUUUCUUUGUUCAUUAUCGAACUUUCCGAC-----
..(((((((((.(((...(((((((.(((....)))................((((...((.....))..))))...))))).)).))).)))))))))..(((.......))).----- ( -21.00)
>DroSec_CAF1 59075 115 - 1
UUAUGAACAAAUAAAAUUCACCGAUAGCAUUAAUGCCAUAUUGACAAGGGGAGAGACCAGUAAUCCGCAAUCUCCCCGCCGGAUGCUUUCUUUGUUCAUUAUCGAACUUUCCGAG-----
..(((((((((.(((((((..((((((((....)))..)))))....(((((((...(........)...)))))))...))))..))).)))))))))..(((.......))).----- ( -27.40)
>DroSim_CAF1 61957 115 - 1
UUAUGAACAAAUAAAAUUCACCGGUAGCAUUAAUGCCAUAUUGACAAGGGGAGAGACCAGUAAUCCGCAAUCUCCCCGCCGGAUGCUUUCUUUGUUCAUUAUCGAACUUUCCGAC-----
..(((((((((.(((...(((((((.(((....)))...........(((((((...(........)...)))))))))))).)).))).)))))))))..(((.......))).----- ( -31.90)
>DroYak_CAF1 58769 120 - 1
UUAUGAACAAAUAAAGCUCACCGGCAGCAUUAAGGCCAUAUUGACGAGCGGAAAGAGCAGUAAUCCCCAAUCUUCCCGCCGGAUGCUUUCUUUGUUCAUUAUCGAACUUUCCGACGCUAC
..(((((((((.(((((((...(((.........))).......((.((((.((((..............)))).)))))))).))))).)))))))))..(((.......)))...... ( -31.54)
>consensus
UUAUGAACAAAUAAAAUUCACCGGUAGCAUUAAUGCCAUAUUGACAAGGGGAGAGACCAGUAAUCCGCAAUCUCCCCGCCGGAUGCUUUCUUUGUUCAUUAUCGAACUUUCCGAC_____
..(((((((((.(((...(((((((.((......))...........(((((((................)))))))))))).)).))).)))))))))..(((.......)))...... (-22.90 = -23.84 +   0.94)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:40:36 2006