Locus 8351

Sequence ID X_DroMel_CAF1
Location 20,725,419 – 20,725,556
Length 137
Max. P 0.779570
window13713 window13714

overview

Window 3

Location 20,725,419 – 20,725,520
Length 101
Sequences 3
Columns 101
Reading direction forward
Mean pairwise identity 96.37
Mean single sequence MFE -31.57
Consensus MFE -28.87
Energy contribution -29.20
Covariance contribution 0.33
Combinations/Pair 1.00
Mean z-score -2.05
Structure conservation index 0.91
SVM decision value 0.55
SVM RNA-class probability 0.779570
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20725419 101 + 22224390
GUAAAAUAUGGAAGCGCAUUAAAAGGGUUAUGCCAUUGGCAUCCCACGGGGCGUAUGCGCAACGCCUUUAGGACCGACACUCGGCGACCGUAACAACUAAA
......(((((..((((((.....(((..(((((...))))))))(((...)))))))))..((((...((........)).)))).)))))......... ( -29.50)
>DroSec_CAF1 33215 101 + 1
GUAAAAUAUGGAAGCGCAUUAAAAGGGUUAUGCCAUUGGCAUCCCACGGGGCGUAUGCGCAACGCCCUUAGAAACGGCACUCGGCGACCGUAACAACUAAA
......(((((...(((.......(((..(((((...)))))))).(((((((....)))...(((.........))).))))))).)))))......... ( -31.00)
>DroYak_CAF1 33386 101 + 1
GUAAAAUAUGGAAGCGCAUUAAAAGGGUUAUGCCAUUGGCAUCCCACGGGGCGUAUGCGCAACGCCUUUAGCAAAGGCACUCGGCGACCGUAACAACUAAA
......(((((...(((.......(((..(((((...)))))))).(((((((....)))...(((((.....))))).))))))).)))))......... ( -34.20)
>consensus
GUAAAAUAUGGAAGCGCAUUAAAAGGGUUAUGCCAUUGGCAUCCCACGGGGCGUAUGCGCAACGCCUUUAGAAACGGCACUCGGCGACCGUAACAACUAAA
......(((((...(((.......(((..(((((...)))))))).(((((((....)))...(((.........))).))))))).)))))......... (-28.87 = -29.20 +   0.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 4

Location 20,725,459 – 20,725,556
Length 97
Sequences 3
Columns 101
Reading direction reverse
Mean pairwise identity 89.30
Mean single sequence MFE -40.33
Consensus MFE -33.54
Energy contribution -33.10
Covariance contribution -0.44
Combinations/Pair 1.07
Mean z-score -1.83
Structure conservation index 0.83
SVM decision value 0.04
SVM RNA-class probability 0.551640
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 20725459 97 - 22224390
UUCUACGGGGGGC----GUGGCAGGGAGAGCUGAUGGAUUUUUAGUUGUUACGGUCGCCGAGUGUCGGUCCUAAAGGCGUUGCGCAUACGCCCCGUGGGAU
((((((((((.((----(..((.(..(.((((((.......)))))).)..)((..((((.....)))))).......))..))).....)))))))))). ( -39.30)
>DroSec_CAF1 33255 97 - 1
UUCUACGGGGGGC----GUGGCAGGGAACGCUGAUGGAUUUUUAGUUGUUACGGUCGCCGAGUGCCGUUUCUAAGGGCGUUGCGCAUACGCCCCGUGGGAU
((((((((((.(.----.((((((.(..((((((.......))))).(..((((.(((...)))))))..)...)..).)))).))..).)))))))))). ( -39.20)
>DroYak_CAF1 33426 101 - 1
UUCCACGGGGGGCACGUGGGGCACUGAGUGCUGAUGGAUUUUUAGUUGUUACGGUCGCCGAGUGCCUUUGCUAAAGGCGUUGCGCAUACGCCCCGUGGGAU
((((((((((((((...((((((((..((((((...(((........))).))).)))..))))))))))))....(((...))).....)))))))))). ( -42.50)
>consensus
UUCUACGGGGGGC____GUGGCAGGGAGAGCUGAUGGAUUUUUAGUUGUUACGGUCGCCGAGUGCCGUUCCUAAAGGCGUUGCGCAUACGCCCCGUGGGAU
((((((((((.(.......(((...((..(((((.......)))))..))...)))(((((.((((.........))))))).))...).)))))))))). (-33.54 = -33.10 +  -0.44)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:01:49 2006