Locus 10223

Sequence ID 3R_DroMel_CAF1
Location 27,405,210 – 27,405,370
Length 160
Max. P 0.685453
window16286 window16287

overview

Window 6

Location 27,405,210 – 27,405,330
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 88.33
Mean single sequence MFE -48.45
Consensus MFE -42.41
Energy contribution -41.97
Covariance contribution -0.44
Combinations/Pair 1.29
Mean z-score -1.39
Structure conservation index 0.88
SVM decision value 0.01
SVM RNA-class probability 0.537168
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27405210 120 + 27905053
CACUUGAGGUUUUUCGCCGCUUCUUCGGAUUGCUCGGCGCCGAGAUGAUGUCCGUGGGAGGCGGCGGCUUAAAAUCGGGCGGACAGAGUCCGCCCGCUGGACCCGGCAAUCGAUAUGGCG
..............((((((((((((((((..((((....)))).....))))).)))))))))))(((....(((((((((((...))))))))((((....))))....)))..))). ( -60.00)
>DroVir_CAF1 8290 120 + 1
CAUUUGAUGUUUUCCGUCGUUUUUUCGGAUUACUCGGCGCCGAGAUGAUAUCCGUCGGUGGCGGCGGCUUAAAAUCAGGCGGACAGAGACCGCCCGCUGGACCCGGCAAACGAUAUGGCG
........((..((((.........))))..)).((.(((((.((((.....))))..))))).))(((....(((.(((((.......))))).((((....))))....)))..))). ( -41.30)
>DroGri_CAF1 8036 120 + 1
CAUUCGAUGUUUUUCGUCGCUUCUUUGGAUUACUCGGCGCCGAGAUGAUAUCCGUCGGAGGCGGUGGCUUAAAAUCAGGCGGACAUAGACCACCCGCUGGACCCGGCAUACGAUAUGGCG
((((((((((((..(..(((((((.(((((..((((....)))).....)))))..)))))))..)((((......)))))))))).........((((....))))...))).)))... ( -37.70)
>DroWil_CAF1 7220 120 + 1
CAUUUGAGGUUUUUCGCCUCUUUUUCGGAUUACUCGGCGCCGAGAUGAUAUCCGAUGGAGGCGGCGGCUUGAAGUCAGGCGGACAUAGUCCGCCUGCUGGACCCGGCAAUCGAUACGGCG
...((.(((((..((((((((...((((((..((((....)))).....)))))).)))))))).))))).))(((((((((((...))))))))((((....)))).........))). ( -53.50)
>DroMoj_CAF1 7965 120 + 1
CAUUCGAUGUUUUCCGCCGUUUCUUCGGAUUACUCGGCGCCGAGAUAAUAUCCGUCGGGGGCGGAGGUUUAAAAUCGGGCGGACAGAGGCCGCCCGCUGGACCCGGCAAACGAUAUGGCG
((((((((.....((.((((..((.(((((..((((....)))).....)))))..))..)))).))......)))((((((.......))))))((((....))))....)).)))... ( -48.20)
>DroAna_CAF1 7212 120 + 1
CAUUAGAAGUUUUCCGCCGCUUUUUCGGAUUACUCGGCGCCGAGAUGAUAUCCGACGGCGGCGGCGGUUUGAAGUCGGGCGGACACAGUCCACCCGCUGGACCCGGCAAACGAUAUGGCG
..(((((......((((((((...((((((..((((....)))).....)))))).))))))))...))))).((((((.((((...)))).)))((((....)))).........))). ( -50.00)
>consensus
CAUUUGAUGUUUUCCGCCGCUUCUUCGGAUUACUCGGCGCCGAGAUGAUAUCCGUCGGAGGCGGCGGCUUAAAAUCAGGCGGACAGAGUCCGCCCGCUGGACCCGGCAAACGAUAUGGCG
..............(((((((((..(((((..((((....)))).....)))))...)))))))))(((....(((((((((.......))))))((((....))))....)))..))). (-42.41 = -41.97 +  -0.44)

alignment

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secondary structure

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dotplot

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Window 7

Location 27,405,250 – 27,405,370
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 89.22
Mean single sequence MFE -37.22
Consensus MFE -33.19
Energy contribution -32.17
Covariance contribution -1.02
Combinations/Pair 1.24
Mean z-score -1.43
Structure conservation index 0.89
SVM decision value 0.32
SVM RNA-class probability 0.685453
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 27405250 120 - 27905053
AAGAAGAACACCUCGAAUAUGACCCACAAUCUUGGUAUGGCGCCAUAUCGAUUGCCGGGUCCAGCGGGCGGACUCUGUCCGCCCGAUUUUAAGCCGCCGCCUCCCACGGACAUCAUCUCG
.(((.((....((..((...(((((.(((((..((((((....)))))))))))..)))))...(((((((((...)))))))))..))..))..((((.......))).).)).))).. ( -41.10)
>DroGri_CAF1 8076 120 - 1
AAGAAAAACACUUCGAAUAUGACCCACAAUAUCGGUAUGGCGCCAUAUCGUAUGCCGGGUCCAGCGGGUGGUCUAUGUCCGCCUGAUUUUAAGCCACCGCCUCCGACGGAUAUCAUCUCG
.(((......(((.((((..(((((...(((.(((((((....))))))))))...)))))...(((((((.......))))))))))).)))...(((.......)))......))).. ( -33.60)
>DroWil_CAF1 7260 120 - 1
AAAAAAAACACCUCCAAUAUGACCCACAAUCUCGGUAUGGCGCCGUAUCGAUUGCCGGGUCCAGCAGGCGGACUAUGUCCGCCUGACUUCAAGCCGCCGCCUCCAUCGGAUAUCAUCUCG
............(((.....(((((.(((..((((((((....)))))))))))..))))).(((((((((((...))))))))).))...................))).......... ( -39.00)
>DroMoj_CAF1 8005 120 - 1
AAGAAAAACACUUCGAAUAUGACCCACAAUAUCGGUAUGGCGCCAUAUCGUUUGCCGGGUCCAGCGGGCGGCCUCUGUCCGCCCGAUUUUAAACCUCCGCCCCCGACGGAUAUUAUCUCG
..(((......)))......(((((.(((...(((((((....))))))).)))..)))))...((((((((....).)))))))..........((((.......)))).......... ( -36.40)
>DroAna_CAF1 7252 120 - 1
AAGAAAAAUACCUCGAAUAUGACCCAUAAUCUCGGUAUGGCGCCAUAUCGUUUGCCGGGUCCAGCGGGUGGACUGUGUCCGCCCGACUUCAAACCGCCGCCGCCGUCGGAUAUCAUCUCG
.(((..........(((...(((((.......(((((((....)))))))......)))))...(((((((((...)))))))))..)))...(((.((....)).)))......))).. ( -38.62)
>DroPer_CAF1 7381 120 - 1
AAGAAAAAUACCUCUAAUAUGACCCAUAAUCUCGGUAUGGCGCCAUAUCGUUUGCCGGGUCCAGCAGGCGGCCUCUGUCCGCCUGACUUCAAACCGCCGCCUCCGUCGGAUAUCAUCUCG
..(((...............(((((.......(((((((....)))))))......)))))...((((((((....).)))))))..)))...(((.((....)).)))........... ( -34.62)
>consensus
AAGAAAAACACCUCGAAUAUGACCCACAAUCUCGGUAUGGCGCCAUAUCGUUUGCCGGGUCCAGCGGGCGGACUCUGUCCGCCCGACUUCAAACCGCCGCCUCCGACGGAUAUCAUCUCG
....................(((((.(((...(((((((....))))))).)))..)))))...(((((((.......)))))))...........(((.......)))........... (-33.19 = -32.17 +  -1.02)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 13:51:54 2006