Locus 872

Sequence ID 3R_DroMel_CAF1
Location 2,933,214 – 2,933,344
Length 130
Max. P 0.913600
window1385 window1386

overview

Window 5

Location 2,933,214 – 2,933,322
Length 108
Sequences 6
Columns 108
Reading direction forward
Mean pairwise identity 70.33
Mean single sequence MFE -42.00
Consensus MFE -25.08
Energy contribution -25.55
Covariance contribution 0.47
Combinations/Pair 1.52
Mean z-score -1.61
Structure conservation index 0.60
SVM decision value 1.09
SVM RNA-class probability 0.913600
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2933214 108 + 27905053
UCGGCGGACUCAGCCUCGGCGGUGGCCGCCAUGCUCACCAUGGCAGCGGUAAAGUCCACCAGAGCUGCGCCCGAAGUGGCUGCCACUGCUACGGCCGGAGCCACGUCC
..(((((.(((.(((..(((((((((.(((((..((.....(((.(((((.............)))))))).)).))))).)))))))))..)))..))).).)))). ( -48.62)
>DroVir_CAF1 14946 93 + 1
UCC---------------GCCGUAGCGGCCAUGCUCACCAUGGUGGCCGUAAAGUCCAGCGUGCUGCUAACUGUGGUCGCCGCAACGGCCACAGCGGGCGCCACGUCC
...---------------......((((((((..........))))))))........(((((.((((..(((((((((......)))))))))..)))).))))).. ( -40.70)
>DroPse_CAF1 12959 93 + 1
UCC---------------GCUGUGGCGGCCAUGGAGACCAUUGUGGCGGUAAAGUCCACGGUAGUGCCUACGGUAGUGGCGGCUACCGCCAUGGCUGGUGCCACAUCC
...---------------..((((((((((((((........(((((......).))))(((((((((.((....))))).)))))).))))))))...))))))... ( -44.20)
>DroGri_CAF1 20469 93 + 1
UCC---------------GCCGUGGCGGCCAUAUUCACCAUGGUCGCUGUAAAAUCCAAAGUGCUGCCAACUGUUGUGGCUGCCACGGCAACAGCGGGCGCCACAUCC
...---------------(((((((((((((((..((...((((((((...........))))..))))..)).)))))))))))))))....((....))....... ( -39.40)
>DroEre_CAF1 13449 105 + 1
UCGGCGGACUCAGCCUCAGCGGUGGCCGCCAUGCUCACCAUGGCAGCGGUAAAGUCCACCAGAGAGC---CCGAUGUGGCUGCCACUGCAACGGCCGGAGCCACGUCC
..(((((.(((.(((...((((((((.(((((((((....(((..((......))...)))..))))---.....))))).))))))))...)))..))).).)))). ( -44.40)
>DroMoj_CAF1 20006 93 + 1
UCC---------------GCCGUAGCGGCCAUAUUCACCAUGGUCGCCGUAAAGUCCAGCGUGCUGCUAACUGUUGUUGCUGCCACGGCCACGGCGGGCGCCACAUCC
(((---------------(((((...((((((.......))))))(((((......(((((.((.((.....)).)))))))..))))).)))))))).......... ( -34.70)
>consensus
UCC_______________GCCGUGGCGGCCAUGCUCACCAUGGUAGCGGUAAAGUCCACCGUACUGCCAACUGUUGUGGCUGCCACGGCCACGGCGGGCGCCACAUCC
.....................(((((.((((((.....)))))).....................(((..(((((((((......)))))))))..)))))))).... (-25.08 = -25.55 +   0.47)

alignment

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secondary structure

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dotplot

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Window 6

Location 2,933,248 – 2,933,344
Length 96
Sequences 6
Columns 99
Reading direction reverse
Mean pairwise identity 74.98
Mean single sequence MFE -37.28
Consensus MFE -20.20
Energy contribution -19.92
Covariance contribution -0.28
Combinations/Pair 1.26
Mean z-score -1.81
Structure conservation index 0.54
SVM decision value 0.70
SVM RNA-class probability 0.826657
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 2933248 96 - 27905053
ACACC---UCGCAAUCGCAGCCGAUGGACGUGGCUCCGGCCGUAGCAGUGGCAGCCACUUCGGGCGCAGCUCUGGUGGACUUUACCGCUGCCAUGGUGA
.....---.......((.(((((.......))))).))(((((.(((((((.(((((((..((((...)))).))))).))...))))))).))))).. ( -37.00)
>DroPse_CAF1 12978 99 - 1
ACACCACAUCCCAAUCACAGCCCAUGGAUGUGGCACCAGCCAUGGCGGUAGCCGCCACUACCGUAGGCACUACCGUGGACUUUACCGCCACAAUGGUCU
...((((((((..............)))))))).((((....(((((((((...((((....((((...)))).))))...)))))))))...)))).. ( -37.04)
>DroGri_CAF1 20488 87 - 1
ACGCC------------CAGCCAAUGGAUGUGGCGCCCGCUGUUGCCGUGGCAGCCACAACAGUUGGCAGCACUUUGGAUUUUACAGCGACCAUGGUGA
.....------------..((((((.(.((((((((((((....).)).))).)))))).).))))))..((((.(((............))).)))). ( -32.90)
>DroEre_CAF1 13483 93 - 1
ACACC---UCGCAGUCGCAGCCGAUGGACGUGGCUCCGGCCGUUGCAGUGGCAGCCACAUCGG---GCUCUCUGGUGGACUUUACCGCUGCCAUGGUGA
.((((---..(((((((.(((((.......))))).))))...))).((((((((...(((((---.....)))))((......)))))))))))))). ( -37.50)
>DroYak_CAF1 12835 96 - 1
ACACC---UCGCAGUCGCAGCCGAUGGACGUGGCUCCGGCCGUUGCAGUGGCAGCCACAUCUGGCGGCGCUCUGGUGGAUUUUACCGCUGCCAUGGUGA
.((((---..(((((.((.((((..(((.((((((...((((......)))))))))).)))..))))))...((((.....)))))))))...)))). ( -43.10)
>DroPer_CAF1 13020 99 - 1
ACACCACAUCCCAAUCACAGCCCAUGGAUGUGGCACCCGCCAUGGCGGUAGCCGCCACUACCGUAGGCACUACCGUGGACUUUACCGCCACAAUGGUCU
...((((((((..............)))))))).....(((((((((((((...((((....((((...)))).))))...)))))))))...)))).. ( -36.14)
>consensus
ACACC___UCGCAAUCGCAGCCGAUGGACGUGGCUCCGGCCGUUGCAGUGGCAGCCACAACCGUAGGCACUACGGUGGACUUUACCGCUACCAUGGUGA
...................(((.((((...((((....))))((((.((((...((((................))))...)))).))))))))))).. (-20.20 = -19.92 +  -0.28)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:54:15 2006