Locus 1371

Sequence ID 3L_DroMel_CAF1
Location 3,989,223 – 3,989,314
Length 91
Max. P 0.768304
window2132 window2133

overview

Window 2

Location 3,989,223 – 3,989,314
Length 91
Sequences 4
Columns 97
Reading direction forward
Mean pairwise identity 84.72
Mean single sequence MFE -31.32
Consensus MFE -26.09
Energy contribution -28.77
Covariance contribution 2.69
Combinations/Pair 1.06
Mean z-score -1.70
Structure conservation index 0.83
SVM decision value 0.52
SVM RNA-class probability 0.768304
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3989223 91 + 23771897
AAUUUUGGGUUUAAGCACGUCUAGAGGUCGGAGCCUGCGGGCGACUAUGGCCAUGGCCAUGGG------UAUGGGUAUGGCUAUGAGUAUACUCUAG
......((((.((..(.(((((..((((....))))..)))))...(((((((((.((((...------.)))).))))))))))..)).))))... ( -32.50)
>DroSec_CAF1 61604 97 + 1
AAUUUUGGGUUUAAGCACGUCUAGAGGUCGGAGCCUGCGGGCGACUAUGGCCAUGGCCAUGGGUUUGGGUGUGGGUAUGGCUAUGGGUAUACUCUAG
......((((....((.(((((..((((....))))..))))).(((((((((((.(((((........))))).)))))))))))))..))))... ( -35.60)
>DroSim_CAF1 65171 97 + 1
AAUUUUGGGUUUAAGCACGUCUAGAGGUCGGAGCCUGCGGGCGACUAUGGCCAUGGCCAUGGGUUUGGGUGUGGGUAUGGCUAUGGGUAUACUCUAG
......((((....((.(((((..((((....))))..))))).(((((((((((.(((((........))))).)))))))))))))..))))... ( -35.60)
>DroEre_CAF1 63119 79 + 1
AAUUUUGGGUUUAAGCACGUCUAGAGGUCGGAGCCUGCGGGCGAGCAUGGC------------------CAUGGGUAAGGCAAUGGGUAUACUCCGG
.....((((.....((.(((((..((((....))))..))))).))(((.(------------------(((..(.....).)))).)))..)))). ( -21.60)
>consensus
AAUUUUGGGUUUAAGCACGUCUAGAGGUCGGAGCCUGCGGGCGACUAUGGCCAUGGCCAUGGG______UAUGGGUAUGGCUAUGGGUAUACUCUAG
......((((....((.(((((..((((....))))..))))).(((((((((((.(((((........))))).)))))))))))))..))))... (-26.09 = -28.77 +   2.69)

alignment

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secondary structure

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dotplot

Postscript

Window 3

Location 3,989,223 – 3,989,314
Length 91
Sequences 4
Columns 97
Reading direction reverse
Mean pairwise identity 84.72
Mean single sequence MFE -20.30
Consensus MFE -13.09
Energy contribution -14.40
Covariance contribution 1.31
Combinations/Pair 1.07
Mean z-score -1.95
Structure conservation index 0.64
SVM decision value 0.35
SVM RNA-class probability 0.700800
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3989223 91 - 23771897
CUAGAGUAUACUCAUAGCCAUACCCAUA------CCCAUGGCCAUGGCCAUAGUCGCCCGCAGGCUCCGACCUCUAGACGUGCUUAAACCCAAAAUU
((((((..........(((((..((((.------...))))..)))))....((((((....)))...))))))))).................... ( -22.10)
>DroSec_CAF1 61604 97 - 1
CUAGAGUAUACCCAUAGCCAUACCCACACCCAAACCCAUGGCCAUGGCCAUAGUCGCCCGCAGGCUCCGACCUCUAGACGUGCUUAAACCCAAAAUU
(((((((((..((((.(((((................))))).))))..)))((((((....)))...))))))))).................... ( -21.49)
>DroSim_CAF1 65171 97 - 1
CUAGAGUAUACCCAUAGCCAUACCCACACCCAAACCCAUGGCCAUGGCCAUAGUCGCCCGCAGGCUCCGACCUCUAGACGUGCUUAAACCCAAAAUU
(((((((((..((((.(((((................))))).))))..)))((((((....)))...))))))))).................... ( -21.49)
>DroEre_CAF1 63119 79 - 1
CCGGAGUAUACCCAUUGCCUUACCCAUG------------------GCCAUGCUCGCCCGCAGGCUCCGACCUCUAGACGUGCUUAAACCCAAAAUU
.((((((.........(((........)------------------))..(((......))).))))))............................ ( -16.10)
>consensus
CUAGAGUAUACCCAUAGCCAUACCCACA______CCCAUGGCCAUGGCCAUAGUCGCCCGCAGGCUCCGACCUCUAGACGUGCUUAAACCCAAAAUU
((((((...............................(((((....)))))....(((....)))......)))))).................... (-13.09 = -14.40 +   1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:05:50 2006