Locus 4990

Sequence ID 3R_DroMel_CAF1
Location 13,147,697 – 13,147,803
Length 106
Max. P 0.969064
window8160 window8161

overview

Window 0

Location 13,147,697 – 13,147,790
Length 93
Sequences 6
Columns 93
Reading direction reverse
Mean pairwise identity 92.40
Mean single sequence MFE -28.60
Consensus MFE -24.19
Energy contribution -25.72
Covariance contribution 1.53
Combinations/Pair 1.04
Mean z-score -2.65
Structure conservation index 0.85
SVM decision value 1.64
SVM RNA-class probability 0.969064
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13147697 93 - 27905053
UCCAAACGGCCAAAAGGAGAAGUACAAACAAAAGUAUUACGAGCGUGAGGGCUAAACGUUGCCAAAUGCUCAGGCCUCUCCUCGCCGCAGACC
......((((....(((((((((((........)))))..((((((...(((........)))..)))))).....)))))).))))...... ( -31.00)
>DroSec_CAF1 176986 93 - 1
UCCAAACGGCCAAAAGGAGAAGUACAAACAAAAGUAUUACGAGCGUGAGGGCUAAACGUUGCCAAAUGCUCAGGCCUCUCCUCGCCGCAGACC
......((((....(((((((((((........)))))..((((((...(((........)))..)))))).....)))))).))))...... ( -31.00)
>DroSim_CAF1 162320 93 - 1
UCCAAACGGCCAAAAGGAGAAGUACAAACAAAAGUAUUACGAGCGUGAGGGCUAAACGUUGCCAAAUGCUCAGGCCUCUCCCCGCCGCAGACC
......((((.....((((((((((........)))))..((((((...(((........)))..)))))).....)))))..))))...... ( -29.20)
>DroEre_CAF1 168073 93 - 1
UCCAAACGGCCAAAAGGAGAAGUACAAACAAAAGUAUUACGAGCGUGAGGGCUAAACGUUGCCAAAUGCUCAGGCCUCUCCUCGCCGCAGACC
......((((....(((((((((((........)))))..((((((...(((........)))..)))))).....)))))).))))...... ( -31.00)
>DroYak_CAF1 175552 93 - 1
UCCAAACGGCCAAAAGGAGAAGUACAAACAAAAGUAUUACGAGCGUGAGGGCUAAACGUUGCCAAAUGCUAAGGCCUCUCCUCGCCGCAGUCU
......((((....(((((((((((........)))))...(((((...(((........)))..)))))......)))))).))))...... ( -27.20)
>DroAna_CAF1 166369 87 - 1
UCCGAGCGGCCAGAAGAAGAAGUACAAACAAAAGUAUUACGAGCGUGAGGGCUAAACGUUGCCAAAUGUUGAAGCCC----CCGCCAC--CUC
...(((.(..........(.(((((........))))).)(.(((.(.(((((.((((((....))))))..)))))----))))).)--))) ( -22.20)
>consensus
UCCAAACGGCCAAAAGGAGAAGUACAAACAAAAGUAUUACGAGCGUGAGGGCUAAACGUUGCCAAAUGCUCAGGCCUCUCCUCGCCGCAGACC
......((((....(((((((((((........)))))..((((((...(((........)))..)))))).....)))))).))))...... (-24.19 = -25.72 +   1.53)

alignment

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secondary structure

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dotplot

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Window 1

Location 13,147,711 – 13,147,803
Length 92
Sequences 6
Columns 97
Reading direction reverse
Mean pairwise identity 76.89
Mean single sequence MFE -24.18
Consensus MFE -12.98
Energy contribution -13.28
Covariance contribution 0.31
Combinations/Pair 1.18
Mean z-score -1.73
Structure conservation index 0.54
SVM decision value 0.19
SVM RNA-class probability 0.624624
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13147711 92 - 27905053
UCU-----GCUCGGUCCAUCCAAACGGCCAAAAGGAGAAGUACAAACAAAAGUAUUACGAGCGUGAGGGCUAAACGUUGCCAAAUGCUCAGGCCUCU
...-----....((.....))....((((.......(.(((((........))))).)((((((...(((........)))..)))))).))))... ( -27.20)
>DroPse_CAF1 166568 78 - 1
UCU--CUUUCUCUGUCCA-----------------AGGAGUACAAACAAAACUAUUACCAGCGUGAGGGCUAAGCGUUGCCAAAUGUUGAAACUCCC
...--.............-----------------.(((((...((((.............(....)(((........)))...))))...))))). ( -15.80)
>DroEre_CAF1 168087 92 - 1
UCU-----GCUCGGUCCAUCCAAACGGCCAAAAGGAGAAGUACAAACAAAAGUAUUACGAGCGUGAGGGCUAAACGUUGCCAAAUGCUCAGGCCUCU
...-----....((.....))....((((.......(.(((((........))))).)((((((...(((........)))..)))))).))))... ( -27.20)
>DroYak_CAF1 175566 97 - 1
UCCAAACGGCCCGGUCCAUCCAAACGGCCAAAAGGAGAAGUACAAACAAAAGUAUUACGAGCGUGAGGGCUAAACGUUGCCAAAUGCUAAGGCCUCU
.......((((.((.((........)))).......(.(((((........))))).).(((((...(((........)))..)))))..))))... ( -25.00)
>DroAna_CAF1 166379 93 - 1
UCU--GCUGCUCGGUCCGUCCGAGCGGCCAGAAGAAGAAGUACAAACAAAAGUAUUACGAGCGUGAGGGCUAAACGUUGCCAAAUGUUGAAGCCC--
(((--(((((((((.....)))))))).))))....(.(((((........))))).)........(((((.((((((....))))))..)))))-- ( -34.10)
>DroPer_CAF1 233024 78 - 1
UCU--CUUUCUCUGUCCA-----------------AGGAGUACAAACAAAACUAUUACCAGCGUGAGGGCUAAGCGUUGCCAAAUGUUGAAACUCCC
...--.............-----------------.(((((...((((.............(....)(((........)))...))))...))))). ( -15.80)
>consensus
UCU____UGCUCGGUCCAUCCAAACGGCCAAAAGGAGAAGUACAAACAAAAGUAUUACGAGCGUGAGGGCUAAACGUUGCCAAAUGCUGAAGCCCCU
............(((.......................(((((........)))))..((((((...(((........)))..))))))..)))... (-12.98 = -13.28 +   0.31)

alignment

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secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:43:45 2006