Locus 975

Sequence ID 2R_DroMel_CAF1
Location 4,121,589 – 4,121,693
Length 104
Max. P 0.837014
window1735 window1736

overview

Window 5

Location 4,121,589 – 4,121,693
Length 104
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 81.32
Mean single sequence MFE -27.90
Consensus MFE -22.56
Energy contribution -22.20
Covariance contribution -0.36
Combinations/Pair 1.26
Mean z-score -1.59
Structure conservation index 0.81
SVM decision value 0.53
SVM RNA-class probability 0.769682
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4121589 104 + 20766785
UAUGGUGUUACGAUGAAAUGGAGUUCCUGCAGCCCAUACUGCAGGAGCAGAUCUUCAACAAGAUCAGCAAGGUAAAGGGUUGC----GAUAUAAGAUAGCCUCUGGAU
(((..((((.............((((((((((......)))))))))).((((((....))))))))))..))).((((((((----.......).))))).)).... ( -31.20)
>DroSec_CAF1 9468 103 + 1
UAUGGUGUUACGAUGAAAUGGAGUUCCUGCAGCCCAUUUUACAGGAGCAGAUCUUCAACAAGAUCAGCAAGGUAAAGGGUGGC----GAUUAAAGAUAGC-UAAGGCU
...(((.((((........((....))(((.((((..(((((....((.((((((....)))))).))...))))))))).))----)..........).-))).))) ( -22.90)
>DroSim_CAF1 1881 103 + 1
UAUGGUGUUACGACGAAAUGGAGUUCCUGCAGCCCAUUCUGCAGGAGCAGAUCUUCAACAAGAUCAGCAAGGUAAAGGGUCGC----GAUAUAAGAUAGC-UAAGGAU
....((((..((((........((((((((((......)))))))))).((((((....)))))).............)))).----.))))........-....... ( -32.30)
>DroEre_CAF1 3193 103 + 1
UAUGGUGUUACGAUGAAAUGGAGUUCCUGCAGCCUAUUUUGCAGGAGCAGAUCUUCAACAAGAUCAGCAAGGUAAUGGCUCGC----GAUGUACGACAGC-UCUGUAU
(((((.(((((...........((((((((((......)))))))))).((((((....))))))......)))))((((..(----(.....))..)))-)))))). ( -28.70)
>DroYak_CAF1 1492 104 + 1
UAUGGUGCUACGAUGAAAUGGAAUUCCUGCAACCAAUUUUGCAGGAGCAGAUCUUCAACAAGAUCAGCAAGGUAAUGCGUCGAA---AAUGUACGUUAAC-UUUGUAU
....((((..(((((.........((((((((......))))))))((.((((((....)))))).)).........)))))..---...))))......-....... ( -27.90)
>DroMoj_CAF1 26603 100 + 1
UGUGGUGCUACGAUGAGCUGGAGUUUCUACAGAAGAUUCUUCAGGAGCAGAUCUUCAAUAAGAUCAGCAAGGUGAGUAGUAGGAGUAGAUU--AAAUAG---A---AU
.....((((((......((((((..(((.....)))..))))))..((.((((((....)))))).)).......))))))..........--......---.---.. ( -24.40)
>consensus
UAUGGUGUUACGAUGAAAUGGAGUUCCUGCAGCCCAUUCUGCAGGAGCAGAUCUUCAACAAGAUCAGCAAGGUAAAGGGUCGC____GAUAUAAGAUAGC_UAUGGAU
(((..((((.............((((((((((......)))))))))).((((((....))))))))))..))).................................. (-22.56 = -22.20 +  -0.36) 

alignment

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secondary structure

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dotplot

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Window 6

Location 4,121,589 – 4,121,693
Length 104
Sequences 6
Columns 108
Reading direction reverse
Mean pairwise identity 81.32
Mean single sequence MFE -23.35
Consensus MFE -18.89
Energy contribution -19.08
Covariance contribution 0.20
Combinations/Pair 1.20
Mean z-score -1.80
Structure conservation index 0.81
SVM decision value 0.74
SVM RNA-class probability 0.837014
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 4121589 104 - 20766785
AUCCAGAGGCUAUCUUAUAUC----GCAACCCUUUACCUUGCUGAUCUUGUUGAAGAUCUGCUCCUGCAGUAUGGGCUGCAGGAACUCCAUUUCAUCGUAACACCAUA
.....(((.............----...............((.((((((....)))))).))(((((((((....))))))))).))).................... ( -26.30)
>DroSec_CAF1 9468 103 - 1
AGCCUUA-GCUAUCUUUAAUC----GCCACCCUUUACCUUGCUGAUCUUGUUGAAGAUCUGCUCCUGUAAAAUGGGCUGCAGGAACUCCAUUUCAUCGUAACACCAUA
(((....-)))..........----((..((((((((...((.((((((....)))))).))....)))))..)))..)).((....))................... ( -20.60)
>DroSim_CAF1 1881 103 - 1
AUCCUUA-GCUAUCUUAUAUC----GCGACCCUUUACCUUGCUGAUCUUGUUGAAGAUCUGCUCCUGCAGAAUGGGCUGCAGGAACUCCAUUUCGUCGUAACACCAUA
.......-.............----(((((..........((.((((((....)))))).))((((((((......))))))))..........)))))......... ( -28.50)
>DroEre_CAF1 3193 103 - 1
AUACAGA-GCUGUCGUACAUC----GCGAGCCAUUACCUUGCUGAUCUUGUUGAAGAUCUGCUCCUGCAAAAUAGGCUGCAGGAACUCCAUUUCAUCGUAACACCAUA
.....(.-((..((((.....----))))))).((((...((.((((((....)))))).))(((((((........))))))).............))))....... ( -23.60)
>DroYak_CAF1 1492 104 - 1
AUACAAA-GUUAACGUACAUU---UUCGACGCAUUACCUUGCUGAUCUUGUUGAAGAUCUGCUCCUGCAAAAUUGGUUGCAGGAAUUCCAUUUCAUCGUAGCACCAUA
.......-((((..(((.(((---(((((((((......))).......))))))))).)))((((((((......))))))))..............))))...... ( -24.91)
>DroMoj_CAF1 26603 100 - 1
AU---U---CUAUUU--AAUCUACUCCUACUACUCACCUUGCUGAUCUUAUUGAAGAUCUGCUCCUGAAGAAUCUUCUGUAGAAACUCCAGCUCAUCGUAGCACCACA
..---.---......--..(((((................((.((((((....)))))).))....((((...)))).))))).......(((......)))...... ( -16.20)
>consensus
AUCCAUA_GCUAUCUUAAAUC____GCGACCCUUUACCUUGCUGAUCUUGUUGAAGAUCUGCUCCUGCAAAAUGGGCUGCAGGAACUCCAUUUCAUCGUAACACCAUA
.................................((((...((.((((((....)))))).))((((((((......)))))))).............))))....... (-18.89 = -19.08 +   0.20) 

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript


Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:53:11 2006