Locus 359

Sequence ID 2R_DroMel_CAF1
Location 2,336,149 – 2,336,254
Length 105
Max. P 0.661605
window708 window709

overview

Window 8

Location 2,336,149 – 2,336,254
Length 105
Sequences 6
Columns 115
Reading direction forward
Mean pairwise identity 77.42
Mean single sequence MFE -34.30
Consensus MFE -16.43
Energy contribution -17.21
Covariance contribution 0.78
Combinations/Pair 1.05
Mean z-score -1.99
Structure conservation index 0.48
SVM decision value 0.20
SVM RNA-class probability 0.628674
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2336149 105 + 20766785
CUUAGGGC--UGUGGUGGUACCCCACUCAUC--------CAUUCGAUGCGCUGCAACCUCUUGCAGCCCCAUAAUUGCCAUAGCAACGCCAACUUUUGCGAUUCUUGAGCACGGC
((((((((--(((((..((........((((--------.....)))).(((((((....)))))))......))..)))))))..(((........)))...))))))...... ( -34.20)
>DroPse_CAF1 108227 99 + 1
CUUGGGGCGAUGUCUUGGCUUUCCACUCAGC--------CACUCGACGCGCUGCAACCUCUUGCAGCUUCAUAAUUGCCAUGGAAAUGCCAAGAUUUG--------GAGCCUGUU
....((((...((((((((((((((....((--------........))(((((((....))))))).............)))))).))))))))...--------..))))... ( -37.10)
>DroSec_CAF1 108617 105 + 1
CUUGGGGC--UGUCGUGGUACCCCACUCAUC--------CAUUCGAUGCGCUGCAACCUCUUGCAGCCCCAUAAUUGCCAUAGCAACGCCAACUUCUGCGAUUCUUGAGCACGGG
.((((.(.--(((..(((((.......((((--------.....)))).(((((((....)))))))........)))))..))).).))))((..(((.........)))..)) ( -30.50)
>DroEre_CAF1 100393 113 + 1
UUUAGGGC--GGUGGAGGUGCCCCACUCACCCGCUUGCCCACUUGAUGCGCUGCAACCUCUUGCAGCUCCAUAAUUGCCAUAGCAACGCCAACUUCUGCGAUUCUAGAGCUUGGG
....((((--(((((.((((...))))...)))).))))).....(((.(((((((....)))))))..)))..((((....))))..((((.(((((......))))).)))). ( -35.70)
>DroYak_CAF1 97014 105 + 1
UUUGGGGC--UGUCGUGGUACCCACCUCAUC--------CAUUCGAAGUGCUGCAACCUCUUGCAGCUCCAUAAUUGCCAUAGCAACGACAACUUCUGCGAUUCUGGAGCUUGGG
....(((.--((..((((...))))..))))--------)...(.(((((((((((....)))))))((((.((((((...((.........))...)))))).)))))))).). ( -31.20)
>DroPer_CAF1 110521 99 + 1
CUUGAGGCGAUGUCUUGGCUUUCCACUCAGC--------CACUCGACGCGCUGCAACCUCUUGCAGCUUCAUAAUUGCCAUGGAAAUGCCAAGAUUUG--------GAGCCUGUU
....((((...((((((((((((((....((--------........))(((((((....))))))).............)))))).))))))))...--------..))))... ( -37.10)
>consensus
CUUGGGGC__UGUCGUGGUACCCCACUCAUC________CACUCGAUGCGCUGCAACCUCUUGCAGCUCCAUAAUUGCCAUAGCAACGCCAACUUCUGCGAUUCU_GAGCAUGGG
.....(((...((.(((((.......((................))...(((((((....))))))).........))))).))...)))......................... (-16.43 = -17.21 +   0.78)

alignment

Postscript

secondary structure

Postscript

dotplot

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Window 9

Location 2,336,149 – 2,336,254
Length 105
Sequences 6
Columns 115
Reading direction reverse
Mean pairwise identity 77.42
Mean single sequence MFE -37.13
Consensus MFE -19.39
Energy contribution -20.42
Covariance contribution 1.03
Combinations/Pair 1.22
Mean z-score -1.86
Structure conservation index 0.52
SVM decision value 0.27
SVM RNA-class probability 0.661605
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 2336149 105 - 20766785
GCCGUGCUCAAGAAUCGCAAAAGUUGGCGUUGCUAUGGCAAUUAUGGGGCUGCAAGAGGUUGCAGCGCAUCGAAUG--------GAUGAGUGGGGUACCACCACA--GCCCUAAG
(((((((........(((........)))..)).)))))......((((((((((....))))))).((((.....--------)))).(((((....).)))).--.))).... ( -34.20)
>DroPse_CAF1 108227 99 - 1
AACAGGCUC--------CAAAUCUUGGCAUUUCCAUGGCAAUUAUGAAGCUGCAAGAGGUUGCAGCGCGUCGAGUG--------GCUGAGUGGAAAGCCAAGACAUCGCCCCAAG
....(((..--------....(((((((.((((((((((.(((.(((.(((((((....)))))))...)))))).--------)))..))))))))))))))....)))..... ( -38.30)
>DroSec_CAF1 108617 105 - 1
CCCGUGCUCAAGAAUCGCAGAAGUUGGCGUUGCUAUGGCAAUUAUGGGGCUGCAAGAGGUUGCAGCGCAUCGAAUG--------GAUGAGUGGGGUACCACGACA--GCCCCAAG
....((((..((...(((........)))...))..))))....((((((((...(.(((.((.((.((((.....--------)))).))...))))).)..))--)))))).. ( -35.30)
>DroEre_CAF1 100393 113 - 1
CCCAAGCUCUAGAAUCGCAGAAGUUGGCGUUGCUAUGGCAAUUAUGGAGCUGCAAGAGGUUGCAGCGCAUCAAGUGGGCAAGCGGGUGAGUGGGGCACCUCCACC--GCCCUAAA
((((.(((.(((...(((........)))...))).)))....(((..(((((((....))))))).)))....)))).....(((((.((((((...)))))))--)))).... ( -43.30)
>DroYak_CAF1 97014 105 - 1
CCCAAGCUCCAGAAUCGCAGAAGUUGUCGUUGCUAUGGCAAUUAUGGAGCUGCAAGAGGUUGCAGCACUUCGAAUG--------GAUGAGGUGGGUACCACGACA--GCCCCAAA
((((..(((((...(((.((.(((((((((....))))))))).....(((((((....))))))).)).))).))--------)).)...))))..........--........ ( -32.40)
>DroPer_CAF1 110521 99 - 1
AACAGGCUC--------CAAAUCUUGGCAUUUCCAUGGCAAUUAUGAAGCUGCAAGAGGUUGCAGCGCGUCGAGUG--------GCUGAGUGGAAAGCCAAGACAUCGCCUCAAG
...((((..--------....(((((((.((((((((((.(((.(((.(((((((....)))))))...)))))).--------)))..))))))))))))))....)))).... ( -39.30)
>consensus
CCCAAGCUC_AGAAUCGCAAAAGUUGGCGUUGCUAUGGCAAUUAUGGAGCUGCAAGAGGUUGCAGCGCAUCGAAUG________GAUGAGUGGGGUACCACGACA__GCCCCAAG
.....((((............(((((.(((....))).))))).(((.(((((((....)))))))...)))...............))))(((((...........)))))... (-19.39 = -20.42 +   1.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:36:21 2006