Locus 4033

Sequence ID 3R_DroMel_CAF1
Location 11,015,478 – 11,015,583
Length 105
Max. P 0.923505
window6457 window6458

overview

Window 7

Location 11,015,478 – 11,015,583
Length 105
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 75.73
Mean single sequence MFE -51.32
Consensus MFE -21.62
Energy contribution -22.57
Covariance contribution 0.95
Combinations/Pair 1.33
Mean z-score -2.43
Structure conservation index 0.42
SVM decision value 1.16
SVM RNA-class probability 0.923505
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11015478 105 + 27905053
GGCAAAGGCGGCCAACAUGCGUCUGGCCCUUUACGGCCACGAUGG---------AGGUGGUGAUUUGGCUGCCGGUGGGUGUCCACUGUUUCUGCCUCCGCCGCCGCAGCAGCA
.((...((((((........((((((((......))))).)))((---------(((..(.(((.(((.((((....)))).)))..))).)..)))))))))))...)).... ( -48.50)
>DroVir_CAF1 127856 108 + 1
GGCAAAGGCGGCCAAUAUGCGCCUCGGCAUUUUUGGCCACGAUGGUGGUG------GCGAUGAUCUGGGAGCUGCUGGCUGUCCAUUAUUUCUGCCACCACCACCGCCGCCUCA
(((...(((((((((.((((......))))..))))))..(.((((((((------(((..(((.(((((((.....))).))))..)))..))))))))))).)))))))... ( -53.20)
>DroPse_CAF1 93692 114 + 1
UGUAAAGGCGGCCAACAUGCGGUUGGCCAUCUUUGGACAUGAUGGUGGAGGAGGAGGUGGGGAUCUGGCCGCUGGUGGUUGUCCUUUGUUCCUGCCUCCGCCGCCACAGCCCCA
...((((..(((((((.....)))))))..))))((...((.((((((.((((((((.((((((..(((((....)))))))))))....))).))))).))))))))...)). ( -54.50)
>DroEre_CAF1 78529 105 + 1
GACAAAGGCGGCCAACAUGCGGUUGGCCCUCUAUGGCCAUGAUGG---------CGGUGGUGACUUGGCCGCCGGUGGGUGUCCACUGUUUCUGCCUCCGCCGCCGCAGCAGCA
..((.(((.(((((((.....))))))).))).))((..((...(---------((((((((....(((.(.((((((....))))))...).)))..)))))))))..)))). ( -47.70)
>DroAna_CAF1 106877 108 + 1
GGCCAAGGCGGCCCAUAUGCGUCUGGCGAUUUUCGGACAUGAUGGUGG------CGGUGGAGACUUGGCAGCCGGUGGGUGCCCACUCUUCUUGCCACCACCGCCUCCACAACA
((((.....)))).......((((((......)))))).((.(((.((------((((((.....((((((..(((((....)))))....)))))))))))))).)))))... ( -49.50)
>DroPer_CAF1 92002 114 + 1
UGUAAAGGCGGCCAACAUGCGGUUGGCCAUCUUUGGACAUGAUGGUGGAGGAGGAGGUGGGGAUCUGGCCGCUGGUGGUUGUCCUUUGUUCCUGCCUCCGCCGCCACAGCCCCA
...((((..(((((((.....)))))))..))))((...((.((((((.((((((((.((((((..(((((....)))))))))))....))).))))).))))))))...)). ( -54.50)
>consensus
GGCAAAGGCGGCCAACAUGCGGCUGGCCAUCUUUGGACAUGAUGGUGG______AGGUGGUGAUCUGGCCGCCGGUGGGUGUCCACUGUUCCUGCCUCCGCCGCCGCAGCACCA
(((...((((((((...........((((((.........)))))).........(((....)))))))))))(((((..((...........))..)))))...)))...... (-21.62 = -22.57 +   0.95)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 8

Location 11,015,478 – 11,015,583
Length 105
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 75.73
Mean single sequence MFE -45.68
Consensus MFE -20.53
Energy contribution -21.06
Covariance contribution 0.53
Combinations/Pair 1.22
Mean z-score -2.18
Structure conservation index 0.45
SVM decision value 0.78
SVM RNA-class probability 0.848290
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11015478 105 - 27905053
UGCUGCUGCGGCGGCGGAGGCAGAAACAGUGGACACCCACCGGCAGCCAAAUCACCACCU---------CCAUCGUGGCCGUAAAGGGCCAGACGCAUGUUGGCCGCCUUUGCC
.(((((....)))))...((((((....((((....)))).(((.(((((..........---------.((((((((((......))))..))).)))))))).))))))))) ( -40.70)
>DroVir_CAF1 127856 108 - 1
UGAGGCGGCGGUGGUGGUGGCAGAAAUAAUGGACAGCCAGCAGCUCCCAGAUCAUCGC------CACCACCAUCGUGGCCAAAAAUGCCGAGGCGCAUAUUGGCCGCCUUUGCC
.(((((.((((((((((((((.((.....(((..(((.....))).))).....))))------))))))))))))((((((..((((......)))).))))))))))).... ( -54.10)
>DroPse_CAF1 93692 114 - 1
UGGGGCUGUGGCGGCGGAGGCAGGAACAAAGGACAACCACCAGCGGCCAGAUCCCCACCUCCUCCUCCACCAUCAUGUCCAAAGAUGGCCAACCGCAUGUUGGCCGCCUUUACA
..(((((((((.((.(((((.(((......((....))......((........)).)))))))).)).))).)).))))((((.((((((((.....)))))))).))))... ( -45.20)
>DroEre_CAF1 78529 105 - 1
UGCUGCUGCGGCGGCGGAGGCAGAAACAGUGGACACCCACCGGCGGCCAAGUCACCACCG---------CCAUCAUGGCCAUAGAGGGCCAACCGCAUGUUGGCCGCCUUUGUC
.(((((....)))))((.(((...((((((((.........(((((...........)))---------))....(((((......))))).)))).)))).))).))...... ( -43.90)
>DroAna_CAF1 106877 108 - 1
UGUUGUGGAGGCGGUGGUGGCAAGAAGAGUGGGCACCCACCGGCUGCCAAGUCUCCACCG------CCACCAUCAUGUCCGAAAAUCGCCAGACGCAUAUGGGCCGCCUUGGCC
....((.((((((((((((((.....(.((((....)))))((((....))))......)------))))).((((((.((....((....)))).)))))))))))))).)). ( -45.00)
>DroPer_CAF1 92002 114 - 1
UGGGGCUGUGGCGGCGGAGGCAGGAACAAAGGACAACCACCAGCGGCCAGAUCCCCACCUCCUCCUCCACCAUCAUGUCCAAAGAUGGCCAACCGCAUGUUGGCCGCCUUUACA
..(((((((((.((.(((((.(((......((....))......((........)).)))))))).)).))).)).))))((((.((((((((.....)))))))).))))... ( -45.20)
>consensus
UGCGGCUGCGGCGGCGGAGGCAGAAACAAUGGACACCCACCAGCGGCCAAAUCACCACCU______CCACCAUCAUGGCCAAAAAUGGCCAACCGCAUGUUGGCCGCCUUUGCC
......(((((.(((((.(((........(((....)))......))).....................(((.((((..................)))).)))))))).))))) (-20.53 = -21.06 +   0.53)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:18 2006