Locus 6294

Sequence ID 3R_DroMel_CAF1
Location 16,433,876 – 16,434,030
Length 154
Max. P 0.537198
window10269 window10270

overview

Window 9

Location 16,433,876 – 16,433,993
Length 117
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 81.42
Mean single sequence MFE -44.02
Consensus MFE -27.35
Energy contribution -27.38
Covariance contribution 0.03
Combinations/Pair 1.39
Mean z-score -1.59
Structure conservation index 0.62
SVM decision value -0.05
SVM RNA-class probability 0.507486
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16433876 117 + 27905053
AGCCUGCGGGGCCUACUGAACAACCAGGCGGCGCAGAGCCCGAAUGCCCACAUGGCAUUUAAUGGACCGCCCAGCUAUCCGGGUGGGCCGCAAGGAGCACCGGCUCCGGCCCACCAA
....((..(((((..(((......)))(((((......((.(((((((.....)))))))...)).((((((........)))))))))))..(((((....))))))))))..)). ( -55.20)
>DroVir_CAF1 28515 117 + 1
AGCCUGCGUGGUCUGUUGAAUAAUCAGGCGGCGCAGAGUCCUAACGCUCAUCUGGCUUUUAAUGGGCCACCCAGCUAUCCAGGCGGGCCGCAGGGCGCACCCUCGCCGGCACACCAG
.((((((((.(((((.........))))).)))))((((......))))....(((........((((..((.........))..))))(.((((....)))))))))))....... ( -44.60)
>DroGri_CAF1 36020 117 + 1
AGUUUGCGUGGUCUUUUGAAUAAUCAGGCGGCGCAGAGCCCAAAUGCUCAUAUGGCCUUCAAUGGGCCGCCCAGUUAUCCCGGUGGACCACAGGGUGCACCAUCACCGGCCCAUCAA
.....(((((((((.(((.(((((..((((((...((((......))))......((......))))))))..)))))..))).)))))))..((((......)))).))....... ( -42.40)
>DroWil_CAF1 32217 117 + 1
AGUCUGCGUGGCCUGCUGAACAAUCAGGCGGCGCAGAGUCCCAAUGCCCAUAUGGCCUUUAAUGGACCUCCCAGCUAUCCAGGUGGACCGCAGGGUGCACCAUCUCCUGCACAUCAG
..(((((((.(((((.(.....).))))).)))))))((((....(((...(((((......(((.....))))))))...))))))).((((((.........))))))....... ( -42.20)
>DroMoj_CAF1 27090 117 + 1
AGCCUGCGAGGAUUGCUAAACAACCAAGCAGCACAAAGUCCUAAUGCUCAUUUGGCAUUUAAUGGCCCGCCUAGCUAUCCAGGCGGACCGCAGGGCACACCUUCACCGGCCCACCAG
.(((.(.((((.(((((.........)))))......(((((((((((.....))))))....((.((((((........)))))).))..)))))....)))).).)))....... ( -37.00)
>DroAna_CAF1 24145 117 + 1
AGCCUGCGGGGAUUGUUAAACAAUCAGGCGGCACAGAGCCCCAAUGCCCACAUGGCAUUCAAUGGCCCGCCCAGCUAUCCCGGCGGACCGCAGGGAGCACCGUCACCGGCCCACCAA
.(((.((((((((((.....))))).((.(((.....)))))((((((.....))))))......)))))...((..((((.(((...))).)))))).........)))....... ( -42.70)
>consensus
AGCCUGCGUGGACUGCUGAACAAUCAGGCGGCGCAGAGCCCCAAUGCCCAUAUGGCAUUUAAUGGACCGCCCAGCUAUCCAGGCGGACCGCAGGGAGCACCAUCACCGGCCCACCAA
.(((((((..(((((.........)))))..))))..(((((...(((.....)))......(((.(((((..........))))).)))..))).)).........)))....... (-27.35 = -27.38 +   0.03)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 16,433,916 – 16,434,030
Length 114
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 78.95
Mean single sequence MFE -50.32
Consensus MFE -25.82
Energy contribution -26.02
Covariance contribution 0.20
Combinations/Pair 1.38
Mean z-score -1.91
Structure conservation index 0.51
SVM decision value 0.01
SVM RNA-class probability 0.537198
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 16433916 114 - 27905053
CGGGCAUGAAAUGCGGACGCAUCUGCGGGCCCAUCGGUUGGUGGGCCGGAGCCGGUGCUCCUUGCGGCCCACCCGGAUAGCUGGGCGGUCCAUUAAAUGCCAUGUGGGCAUUCG
.((((......((((((....)))))).(((((.(.((((((((((((((((....)))))....))))))))..))).).))))).))))....((((((.....)))))).. ( -53.40)
>DroVir_CAF1 28555 114 - 1
CGGGCAUAAAAUGCGCCCGCAUCGGGGGUAAUGAUUGCUGGUGUGCCGGCGAGGGUGCGCCCUGCGGCCCGCCUGGAUAGCUGGGUGGCCCAUUAAAAGCCAGAUGAGCGUUAG
(((((.........)))))(((((((.(((....(((((((....)))))))...))).)))...((.(((((..(....)..))))).))...........))))........ ( -48.30)
>DroGri_CAF1 36060 114 - 1
CUGGCAUAAAAUGCGGACGCAUCUGUGGCAUUUGCUGUUGAUGGGCCGGUGAUGGUGCACCCUGUGGUCCACCGGGAUAACUGGGCGGCCCAUUGAAGGCCAUAUGAGCAUUUG
........((((((.....((((.(..((....))..).))))((((..((((((.((.(((.((.((((....)))).)).)))..))))))))..))))......)))))). ( -45.20)
>DroWil_CAF1 32257 114 - 1
UGGACAGAAAAUGUGGUCGCAUCUGAGGUCCCAUUUGCUGAUGUGCAGGAGAUGGUGCACCCUGCGGUCCACCUGGAUAGCUGGGAGGUCCAUUAAAGGCCAUAUGGGCAUUGG
......(...(((((((((((...(..(..((((((.(((.....))).))))))..)..).)))((.((.((..(....)..)).)).))......))))))))...)..... ( -40.00)
>DroMoj_CAF1 27130 114 - 1
CGGGCAUGAAAUGUGGGCGCAUCGGUGGCAUCGAUUGCUGGUGGGCCGGUGAAGGUGUGCCCUGCGGUCCGCCUGGAUAGCUAGGCGGGCCAUUAAAUGCCAAAUGAGCAUUAG
..(((((..(((((((((((((((((...)))..(..((((....))))..).))))))))).))(((((((((((....))))))))))))))..)))))............. ( -55.00)
>DroAna_CAF1 24185 114 - 1
CGGGCAUGAAAUGCGGCCGCAUCUGGGGGCCCAUCUGUUGGUGGGCCGGUGACGGUGCUCCCUGCGGUCCGCCGGGAUAGCUGGGCGGGCCAUUGAAUGCCAUGUGGGCAUUGG
..(((.((.....)))))(((...(((((((((((....)))))((((....)))))))))))))((((((((.((....)).))))))))....((((((.....)))))).. ( -60.00)
>consensus
CGGGCAUAAAAUGCGGACGCAUCUGGGGCACCAUCUGCUGGUGGGCCGGUGACGGUGCACCCUGCGGUCCACCUGGAUAGCUGGGCGGCCCAUUAAAUGCCAUAUGAGCAUUAG
...(((.....)))....((.((...(((.......((.((((.((((....)))).))))..))((.((.(((((....))))).)).)).......)))....))))..... (-25.82 = -26.02 +   0.20)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:17:59 2006