Locus 6337

Sequence ID 2L_DroMel_CAF1
Location 17,692,256 – 17,692,348
Length 92
Max. P 0.986394
window10130 window10131

overview

Window 0

Location 17,692,256 – 17,692,348
Length 92
Sequences 5
Columns 98
Reading direction forward
Mean pairwise identity 81.89
Mean single sequence MFE -27.52
Consensus MFE -18.48
Energy contribution -18.52
Covariance contribution 0.04
Combinations/Pair 1.18
Mean z-score -2.70
Structure conservation index 0.67
SVM decision value 1.86
SVM RNA-class probability 0.980478
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17692256 92 + 22407834
CCUUCUUCUGCCUUGUUGCAUGCCACAUGAAAAAUUUGCGUUGACAACAAUGCGACAACAUGUCGUGGCUGGUCCCCCA------GCCCAAAAAGGUA
........((((((.(((...((.(((((......((((((((....))))))))...))))).))((((((....)))------)))))).)))))) ( -29.30)
>DroGri_CAF1 92055 78 + 1
GUUGCCUUUGCCUUGUUGCAUGUGGCACGGA-AAUUUGCGUUGACAACAAUGCGAA---AUGUUCUC--UGUUACCGC--------------AAAGUA
.((((...(((......))).((((((.(((-(.(((((((((....)))))))))---...)))).--)))))).))--------------)).... ( -22.70)
>DroSec_CAF1 83069 92 + 1
CCUUCUUCUGCCUUGUUGCAUGCCACAUGUAAAAUUUGCGUUGACAACAAUGCGACAACAUGUCGUGGCUGGUCUCCCA------GCCAAAAAAGGUA
........((((((.(((((((...))))))).....((((((....))))))(((.....))).(((((((....)))------))))...)))))) ( -30.40)
>DroSim_CAF1 65636 92 + 1
CCUUCUUCUGCCUUGUUGCAUGCCACAUGAAAAAUUUGCGUUGACAACAAUGCGACAACAUGUCGUGGCUGGUCUCCCA------GCCAAAAAAGGUA
........((((((((((((((...))))......((((((((....))))))))))))......(((((((....)))------))))...)))))) ( -29.20)
>DroYak_CAF1 86849 98 + 1
CCUUCUUCUGCCUUGUUGCAUGCCACAUGAAAAAUUUGCGUUGACAACAAUGCGACAACAUGUCGUGGCUGGUCUCCCGUCUCCCACCCAAAAAGGUA
........((((((.(((...(((((...........((((((....))))))(((.....)))))))).((....))..........))).)))))) ( -26.00)
>consensus
CCUUCUUCUGCCUUGUUGCAUGCCACAUGAAAAAUUUGCGUUGACAACAAUGCGACAACAUGUCGUGGCUGGUCUCCCA______GCCAAAAAAGGUA
........((((((.......(((((...........((((((....))))))(((.....)))))))).((....))..............)))))) (-18.48 = -18.52 +   0.04)

alignment

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secondary structure

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dotplot

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Window 1

Location 17,692,256 – 17,692,348
Length 92
Sequences 5
Columns 98
Reading direction reverse
Mean pairwise identity 81.89
Mean single sequence MFE -32.00
Consensus MFE -18.36
Energy contribution -20.48
Covariance contribution 2.12
Combinations/Pair 1.07
Mean z-score -3.14
Structure conservation index 0.57
SVM decision value 2.04
SVM RNA-class probability 0.986394
Prediction RNA

Download alignment: ClustalW | MAF

>2L_DroMel_CAF1 17692256 92 - 22407834
UACCUUUUUGGGC------UGGGGGACCAGCCACGACAUGUUGUCGCAUUGUUGUCAACGCAAAUUUUUCAUGUGGCAUGCAACAAGGCAGAAGAAGG
..(((((((.(((------(((....))))))..(((.....)))((.(((((((...((((.........))))....))))))).))..))))))) ( -36.30)
>DroGri_CAF1 92055 78 - 1
UACUUU--------------GCGGUAACA--GAGAACAU---UUCGCAUUGUUGUCAACGCAAAUU-UCCGUGCCACAUGCAACAAGGCAAAGGCAAC
...(((--------------(((......--((.((((.---.......)))).))..))))))..-....((((...(((......)))..)))).. ( -18.00)
>DroSec_CAF1 83069 92 - 1
UACCUUUUUUGGC------UGGGAGACCAGCCACGACAUGUUGUCGCAUUGUUGUCAACGCAAAUUUUACAUGUGGCAUGCAACAAGGCAGAAGAAGG
..(((((((((((------(((....))))))..(((.....)))((.(((((((...((((.........))))....))))))).)).)))))))) ( -37.50)
>DroSim_CAF1 65636 92 - 1
UACCUUUUUUGGC------UGGGAGACCAGCCACGACAUGUUGUCGCAUUGUUGUCAACGCAAAUUUUUCAUGUGGCAUGCAACAAGGCAGAAGAAGG
..(((((((((((------(((....))))))..(((.....)))((.(((((((...((((.........))))....))))))).)).)))))))) ( -37.50)
>DroYak_CAF1 86849 98 - 1
UACCUUUUUGGGUGGGAGACGGGAGACCAGCCACGACAUGUUGUCGCAUUGUUGUCAACGCAAAUUUUUCAUGUGGCAUGCAACAAGGCAGAAGAAGG
..(((((((.....(....)((....)).(((.((((.....))))..(((((((...((((.........))))....))))))))))..))))))) ( -30.70)
>consensus
UACCUUUUUGGGC______UGGGAGACCAGCCACGACAUGUUGUCGCAUUGUUGUCAACGCAAAUUUUUCAUGUGGCAUGCAACAAGGCAGAAGAAGG
..(((((((...........((....)).(((.((((.....))))..(((((((...((((.........))))....))))))))))..))))))) (-18.36 = -20.48 +   2.12)

alignment

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secondary structure

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dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:08:40 2006