Locus 3658

Sequence ID 2L_DroMel_CAF1
Location 10,621,032 – 10,621,131
Length 99
Max. P 0.753844
window5771 window5772

overview

Window 1

Location 10,621,032 – 10,621,131
Length 99
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 82.95
Mean single sequence MFE -35.52
Consensus MFE -18.59
Energy contribution -19.02
Covariance contribution 0.42
Combinations/Pair 1.25
Mean z-score -2.98
Structure conservation index 0.52
SVM decision value 0.20
SVM RNA-class probability 0.630998
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10621032 99 + 22407834
AAACAAAAGGGGAAAGAGCCCUUCAUU-------CGAGGGUCGUUUAAGAGUUCCGACUGAAG-GGCUUCAAAAAUAGUUUUGGGAACUCCCCCGGGAGUUGGGUUU
...(((((..(....((((((((((.(-------((..(.((......)).)..))).)))))-)))))......)..)))))..((((((....))))))...... ( -35.20)
>DroSec_CAF1 1096 99 + 1
AAACAAAAGGGGAAAGAGCCCUUCAAU-------CGAGGGUCGGUUAAGAGUUCCGACUGAAG-GGCUUCAAAAAUAGUUUUGGGAACUCCCCCGGGAGUUGGGGUU
...(((((..(....((((((((((.(-------((..(.((......)).)..))).)))))-)))))......)..)))))..((((((....))))))...... ( -35.20)
>DroSim_CAF1 1113 99 + 1
AAACAAAAGGGGAAAGAGCCCUUCAAU-------CGAGGCUCGUUUAAGAGUUCCGACUGAAG-GGCUUCAAAAAUAGUUUUGGGAACUCCCCCGGGAGUUGGGGUU
...(((((..(....((((((((((.(-------((..((((......))))..))).)))))-)))))......)..)))))..((((((....))))))...... ( -39.40)
>DroEre_CAF1 1582 99 + 1
AAUAGAAAGGGGAAAGGGCCCUUCAAU-------CGAGGGUCGUUUAAAAGUUCCGGCUGAAG-GGCUUCAAAAAUAGUUCGGGAAACUCCCCAGGGAGAUGGGGUC
....(((........((((((((((..-------((.(((.(........))))))..)))))-))))).........)))((....))(((((......))))).. ( -31.63)
>DroYak_CAF1 1236 99 + 1
AAACAAAAGGGGAAAGAGCCCUUCAAU-------CGAGGGUCGUUUAGGAGUUCCGGCUGAAG-GGCUUCAAAAAUAGUUUGGGGAACUCCCUCGGGAGAUGGGCUC
...............((((((.((..(-------(((((..(.....)(((((((((((....-))))(((((.....))))))))))))))))))..)).)))))) ( -35.90)
>DroPer_CAF1 1056 104 + 1
AAACAAUGCCGGGAAGAGCUCUUCAGCUCUGCGACGAGGGCCGUUCAAGAGGGGCCACUGAAGGGGCUUCGAAAAUAGUUUGGGCAACUCCCA-GGAGGAAGGGA--
......((((.(((((((((....))))))....(((((.((.((((.(.(....).))))).)).))))).......))).))))..((((.-.......))))-- ( -35.80)
>consensus
AAACAAAAGGGGAAAGAGCCCUUCAAU_______CGAGGGUCGUUUAAGAGUUCCGACUGAAG_GGCUUCAAAAAUAGUUUGGGGAACUCCCCCGGGAGAUGGGGUU
........(((((((..((((((............))))))..)))..(((((((((((((((...)))))......)))...)))))))))))............. (-18.59 = -19.02 +   0.42)

alignment

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secondary structure

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dotplot

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Window 2

Location 10,621,032 – 10,621,131
Length 99
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 82.95
Mean single sequence MFE -31.05
Consensus MFE -14.78
Energy contribution -15.42
Covariance contribution 0.64
Combinations/Pair 1.20
Mean z-score -3.55
Structure conservation index 0.48
SVM decision value 0.48
SVM RNA-class probability 0.753844
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 10621032 99 - 22407834
AAACCCAACUCCCGGGGGAGUUCCCAAAACUAUUUUUGAAGCC-CUUCAGUCGGAACUCUUAAACGACCCUCG-------AAUGAAGGGCUCUUUCCCCUUUUGUUU
......(((....(((((((....(((((....))))).((((-(((((.((((...((......))...)))-------).)))))))))..)))))))...))). ( -30.90)
>DroSec_CAF1 1096 99 - 1
AACCCCAACUCCCGGGGGAGUUCCCAAAACUAUUUUUGAAGCC-CUUCAGUCGGAACUCUUAACCGACCCUCG-------AUUGAAGGGCUCUUUCCCCUUUUGUUU
......(((....(((((((....(((((....))))).((((-((((((((((...((......))...)))-------)))))))))))..)))))))...))). ( -34.60)
>DroSim_CAF1 1113 99 - 1
AACCCCAACUCCCGGGGGAGUUCCCAAAACUAUUUUUGAAGCC-CUUCAGUCGGAACUCUUAAACGAGCCUCG-------AUUGAAGGGCUCUUUCCCCUUUUGUUU
......(((....(((((((....(((((....))))).((((-((((((((((..(((......)))..)))-------)))))))))))..)))))))...))). ( -38.40)
>DroEre_CAF1 1582 99 - 1
GACCCCAUCUCCCUGGGGAGUUUCCCGAACUAUUUUUGAAGCC-CUUCAGCCGGAACUUUUAAACGACCCUCG-------AUUGAAGGGCCCUUUCCCCUUUCUAUU
..(((((......)))))(((((...))))).........(((-(((((..(((................)))-------..))))))))................. ( -24.89)
>DroYak_CAF1 1236 99 - 1
GAGCCCAUCUCCCGAGGGAGUUCCCCAAACUAUUUUUGAAGCC-CUUCAGCCGGAACUCCUAAACGACCCUCG-------AUUGAAGGGCUCUUUCCCCUUUUGUUU
((((((.((...((((((((((((.((((.....))))..((.-.....)).)))))).........))))))-------...)).))))))............... ( -31.20)
>DroPer_CAF1 1056 104 - 1
--UCCCUUCCUCC-UGGGAGUUGCCCAAACUAUUUUCGAAGCCCCUUCAGUGGCCCCUCUUGAACGGCCCUCGUCGCAGAGCUGAAGAGCUCUUCCCGGCAUUGUUU
--..........(-((((((((.....))).......((.((..((((((.((((..........))))(((......))))))))).)))).))))))........ ( -26.30)
>consensus
AACCCCAACUCCCGGGGGAGUUCCCAAAACUAUUUUUGAAGCC_CUUCAGUCGGAACUCUUAAACGACCCUCG_______AUUGAAGGGCUCUUUCCCCUUUUGUUU
.............(((((((((((...........((((((...))))))..)))))))......((((((((.........)).)))).))...))))........ (-14.78 = -15.42 +   0.64)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:57:59 2006