Locus 5823

Sequence ID 2R_DroMel_CAF1
Location 18,456,067 – 18,456,206
Length 139
Max. P 0.872675
window9326 window9327

overview

Window 6

Location 18,456,067 – 18,456,166
Length 99
Sequences 6
Columns 109
Reading direction forward
Mean pairwise identity 83.76
Mean single sequence MFE -31.14
Consensus MFE -20.28
Energy contribution -22.92
Covariance contribution 2.64
Combinations/Pair 1.11
Mean z-score -2.56
Structure conservation index 0.65
SVM decision value 0.20
SVM RNA-class probability 0.629190
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18456067 99 + 20766785
UAACCGAAACCCAAUGCCAUUGCGGCCAUUCAAGUCGACAUCCUAUCAGGGCGGCUGCUCCUUCGGGGG-----CACCUGCCGCCC-----CACCCUUCCCUUUCGCCA
....(((((...........((((((.......)))).))........(((((((((((((....))))-----))...)))))))-----..........)))))... ( -34.30)
>DroSec_CAF1 18458 99 + 1
UAACCGAAACCCAAUGCCAUUGCGGCCAUUCAAGUCGACAUCCUAUCAGGGCGGCUGCUCCUUCGGGGG-----CACCUGCCGCCC-----CACACUUCCCUUUCAACU
....(((........(((.....)))........)))...........(((((((((((((....))))-----))...)))))))-----.................. ( -34.19)
>DroSim_CAF1 18342 99 + 1
UAACCGAAACCCAAUGCCAUUGCGGCCAUUCAAGUCGACAUCCUAUCAGGGCGGCUGCUCCUUCGGGGG-----CACCUGCCGCCC-----CACCCUUCCCUUUCAACU
....(((........(((.....)))........)))...........(((((((((((((....))))-----))...)))))))-----.................. ( -34.19)
>DroEre_CAF1 18030 81 + 1
UAACCGAAACCCAAUGCCAUUGCGGCCAUUCAAGUCGACAUCCUAUCAGGGCGGCUGCUCCUUGGGGGG-----CACCUGCCGCUC-----------------------
....(((........(((.....)))........)))...........(((((((((((((....))))-----))...)))))))----------------------- ( -27.39)
>DroYak_CAF1 18539 98 + 1
UAACCGAAACCCAAUGCCAUUCCGGCCAUUCAAGUCGACAUCCUAUCAGGGCGGCUGCUCCUUCGGGGCCGCUCCACCUGCUGCUC-----CACCUUCCCCAC------
....(((........(((.....)))........))).........(((((.(((.((.((....)))).))).).))))......-----............------ ( -23.09)
>DroAna_CAF1 16694 98 + 1
UAACCGAAACCCAAUGCCAUUGCGGCCAUUCAAGUCGACAUCCUAUCAGGGCGGCAGCUCCUUCGGG-G-----CACCUGCCGCCGUGGCACACCCUCCUC--CUA---
..............((((((((((((.......)))).)).........((((((((.(((....))-)-----...))))))))))))))..........--...--- ( -33.70)
>consensus
UAACCGAAACCCAAUGCCAUUGCGGCCAUUCAAGUCGACAUCCUAUCAGGGCGGCUGCUCCUUCGGGGG_____CACCUGCCGCCC_____CACCCUUCCCUUUCA___
....(((........(((.....)))........)))...........(((((((.(((((....))))........).)))))))....................... (-20.28 = -22.92 +   2.64)

alignment

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secondary structure

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dotplot

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Window 7

Location 18,456,104 – 18,456,206
Length 102
Sequences 5
Columns 112
Reading direction forward
Mean pairwise identity 70.36
Mean single sequence MFE -29.66
Consensus MFE -13.42
Energy contribution -16.02
Covariance contribution 2.60
Combinations/Pair 1.17
Mean z-score -1.90
Structure conservation index 0.45
SVM decision value 0.88
SVM RNA-class probability 0.872675
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 18456104 102 + 20766785
ACAUCCUAUCAGGGCGGCUGCUCCUUCGGGGG-----CACCUGCCGCCC-----CACCCUUCCCUUUCGCCAGCACCUGCUGCUUGGAUUUCUGGCCUGGCUUCUUCUAUUG
...........(((((((((((((....))))-----))...)))))))-----........((....(((((..((........))....)))))..))............ ( -37.30)
>DroSec_CAF1 18495 102 + 1
ACAUCCUAUCAGGGCGGCUGCUCCUUCGGGGG-----CACCUGCCGCCC-----CACACUUCCCUUUCAACUUCUCCUGCUGCUUGGAUUUCUGGCCUGGCUUCUUCUAUUG
...........(((((((((((((....))))-----))...)))))))-----...........................(((.((........)).)))........... ( -32.60)
>DroEre_CAF1 18067 80 + 1
ACAUCCUAUCAGGGCGGCUGCUCCUUGGGGGG-----CACCUGCCGCUC---------------------------CUGCUGCUUGAAUUUCUGGCCUGGCUUCUACUGUUC
..........((((((((((((((....))))-----))...))))).)---------------------------))((((((.(.....).)))..)))........... ( -27.10)
>DroYak_CAF1 18576 101 + 1
ACAUCCUAUCAGGGCGGCUGCUCCUUCGGGGCCGCUCCACCUGCUGCUC-----CACCUUCCCCAC------GCGUCUGUUGCUUAAAUUUCUGGCCUGGCUUCUUGUAUUG
(((.....(((((.(((..........(((((.((.......)).))))-----)...........------(((.....)))........))).))))).....))).... ( -25.00)
>DroAna_CAF1 16731 88 + 1
ACAUCCUAUCAGGGCGGCAGCUCCUUCGGG-G-----CACCUGCCGCCGUGGCACACCCUCCUC--CUA---GCUCC-----------CUUCU--CCCUGCUCCUUCUGCUG
........(((.((((((((.(((....))-)-----...)))))))).)))............--.((---((...-----------.....--.............)))) ( -26.30)
>consensus
ACAUCCUAUCAGGGCGGCUGCUCCUUCGGGGG_____CACCUGCCGCCC_____CACCCUCCCC________GCUCCUGCUGCUUGAAUUUCUGGCCUGGCUUCUUCUAUUG
...........(((((((.(((((....))))........).)))))))............................................................... (-13.42 = -16.02 +   2.60)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:55:19 2006