Locus 1114

Sequence ID X_DroMel_CAF1
Location 3,270,080 – 3,270,171
Length 91
Max. P 0.702581
window1796 window1797

overview

Window 6

Location 3,270,080 – 3,270,171
Length 91
Sequences 4
Columns 101
Reading direction forward
Mean pairwise identity 90.47
Mean single sequence MFE -20.72
Consensus MFE -14.41
Energy contribution -15.47
Covariance contribution 1.06
Combinations/Pair 1.05
Mean z-score -2.53
Structure conservation index 0.70
SVM decision value 0.36
SVM RNA-class probability 0.702581
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3270080 91 + 22224390
--UAAUUAUAAGGGCUCGCUUGUCGCCCAUAAAUAAAUACAUAAAUAAUUAAGUGAAAAGAAAACCGAAACAUAGCUUGAGGCCCG-AAGUCGA-------
--.........(((((((((((...........................)))))))..............((.....))..)))).-.......------- ( -11.93)
>DroSim_CAF1 21161 97 + 1
--UAAUUAUAAGGGCUCGCUUGUCGCCCAUA-AUAAAUACAUAAAUAAUUAAGUGAAAAGAAAACAGAAACAUAGCUUGAGGCCCA-AAGUCGAGCCCAAA
--.........((((((((((...(((....-................((((((....................)))))))))...-))).)))))))... ( -21.70)
>DroEre_CAF1 48260 100 + 1
UGUAAUUAUAAGGGCUCGCUUGUCGCCUAUA-AUAAAUACAUAAAUAAUUAGGUGAAAAGAAAACAGAAACAUAGCUUGAGGCGCAAAAGUCGAGCCCAAA
...........((((((((((.(((((((..-.................)))))))..................((.....))....))).)))))))... ( -26.21)
>DroYak_CAF1 47336 99 + 1
UGUAAUUAUAAGGGCUCGCUUGUCGGCUAUA-AUAAAUACAUAAAUAAUUAAGUGAAAAAAAAACAGAAACAUAGCUUGAGGCCCA-AAGUCGAGCCCAAA
...........((((((((((...((((...-................((((((....................))))))))))..-))).)))))))... ( -23.05)
>consensus
__UAAUUAUAAGGGCUCGCUUGUCGCCCAUA_AUAAAUACAUAAAUAAUUAAGUGAAAAGAAAACAGAAACAUAGCUUGAGGCCCA_AAGUCGAGCCCAAA
...........((((((((((...(((......((......)).....((((((....................)))))))))....))).)))))))... (-14.41 = -15.47 +   1.06)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 7

Location 3,270,080 – 3,270,171
Length 91
Sequences 4
Columns 101
Reading direction reverse
Mean pairwise identity 90.47
Mean single sequence MFE -19.73
Consensus MFE -14.45
Energy contribution -15.45
Covariance contribution 1.00
Combinations/Pair 1.04
Mean z-score -1.58
Structure conservation index 0.73
SVM decision value -0.06
SVM RNA-class probability 0.500000
Prediction OTHER

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 3270080 91 - 22224390
-------UCGACUU-CGGGCCUCAAGCUAUGUUUCGGUUUUCUUUUCACUUAAUUAUUUAUGUAUUUAUUUAUGGGCGACAAGCGAGCCCUUAUAAUUA--
-------.......-.((((.((..(((.((((((.((.........((.(((....))).))........)).)).))))))))))))).........-- ( -12.73)
>DroSim_CAF1 21161 97 - 1
UUUGGGCUCGACUU-UGGGCCUCAAGCUAUGUUUCUGUUUUCUUUUCACUUAAUUAUUUAUGUAUUUAU-UAUGGGCGACAAGCGAGCCCUUAUAAUUA--
...(((((((.(((-.(.((((.((((.........)))).......((.(((....))).))......-...))))..))))))))))).........-- ( -21.00)
>DroEre_CAF1 48260 100 - 1
UUUGGGCUCGACUUUUGCGCCUCAAGCUAUGUUUCUGUUUUCUUUUCACCUAAUUAUUUAUGUAUUUAU-UAUAGGCGACAAGCGAGCCCUUAUAAUUACA
...(((((((.(((...(((((.((((.........)))).......((.(((....))).))......-...)))))..))))))))))........... ( -24.00)
>DroYak_CAF1 47336 99 - 1
UUUGGGCUCGACUU-UGGGCCUCAAGCUAUGUUUCUGUUUUUUUUUCACUUAAUUAUUUAUGUAUUUAU-UAUAGCCGACAAGCGAGCCCUUAUAAUUACA
...(((((((.(((-(.(((...((((.........))))....................((((.....-))))))).).))))))))))........... ( -21.20)
>consensus
UUUGGGCUCGACUU_UGGGCCUCAAGCUAUGUUUCUGUUUUCUUUUCACUUAAUUAUUUAUGUAUUUAU_UAUAGGCGACAAGCGAGCCCUUAUAAUUA__
...(((((((.(((....((((.((((.........)))).......((.(((....))).))..........))))...))))))))))........... (-14.45 = -15.45 +   1.00)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:01:46 2006