Locus 4452

Sequence ID 3R_DroMel_CAF1
Location 11,781,848 – 11,781,961
Length 113
Max. P 0.888978
window7278 window7279

overview

Window 8

Location 11,781,848 – 11,781,961
Length 113
Sequences 6
Columns 114
Reading direction forward
Mean pairwise identity 74.70
Mean single sequence MFE -33.72
Consensus MFE -17.63
Energy contribution -16.30
Covariance contribution -1.33
Combinations/Pair 1.28
Mean z-score -1.87
Structure conservation index 0.52
SVM decision value 0.74
SVM RNA-class probability 0.837174
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11781848 113 + 27905053
AAGUCAAAGG-CAAAGGCAAAGGCUCAAGCCGGCAAAGAGCUGGGCCAGAAGAUCUCCGAAUCGGAAUUCGUUUCGGAUGACUUCCAGGCCUCGAGCGAAUCGGACUUGGCUGA
.((((((..(-(....))....((((....((((.....))))((((.((((.((((((((.((.....)).)))))).))))))..))))..)))).........)))))).. ( -39.70)
>DroPse_CAF1 137660 94 + 1
AAAGC--------------------AAGGCCGGCACGGGCAUGAAACAGAAAAUCUCUGAAUCGGAAUUCGUUUCCGACGACUUUCAGACCACAACCGAUUCAGAUUUGGCUGA
..(((--------------------...(((......)))......((((.....((((((((((...(((((...)))))(.....).......))))))))))))))))).. ( -24.60)
>DroEre_CAF1 115516 101 + 1
AAGUCAAAGG-------------CACAUGCCAGCAAAGAGCUGGGCCAGAAGGUCUCCGAAUCGGAAUUCGUUUCGGAUGACUUCCAGGCCUCGAGCGAAUCGGACUUGGCUGA
.((((((.((-------------(....)))........((((((((.(.(((((((((((.((.....)).)))))).))))).).)))))..))).........)))))).. ( -37.70)
>DroYak_CAF1 119150 101 + 1
AAGUCAAAGG-------------CUCAUGCCGGCAAAGAGCUGGGCCAGAAGAUCUCCGAAUCGGAAUUCGUUUCGGAUGACUUCCAGGCCUCGAGCGAAUCGGACUUGGCUGA
(((((....(-------------(((....((((.....))))((((.((((.((((((((.((.....)).)))))).))))))..))))..))))......)))))...... ( -37.10)
>DroAna_CAF1 118536 107 + 1
AAGCCCACGGGCAAUGGC-------GACGGUGGCAAAGAGAUGUCUCAGAAAAUCUCCGAAUCGGAAUUCGUUUCGGACGAUUUUCAGACCACCUGCGAAUCGGACUUGGCUGA
..(((....)))....((-------(..((((((...(((....))).(((((((((((((.((.....)).)))))).))))))).).))))))))...((((......)))) ( -38.60)
>DroPer_CAF1 134786 94 + 1
AAAGC--------------------AAGGCCGGCACGGGCAUGAAACAGAAAAUCUCUGAAUCGGAAUUCGUUUCCGACGACUUUCAGACCACAACCGAUUCAGAUUUGGCUGA
..(((--------------------...(((......)))......((((.....((((((((((...(((((...)))))(.....).......))))))))))))))))).. ( -24.60)
>consensus
AAGUCAAAGG_______________CAGGCCGGCAAAGAGAUGGGCCAGAAAAUCUCCGAAUCGGAAUUCGUUUCGGACGACUUCCAGACCACGAGCGAAUCGGACUUGGCUGA
..............................((((.(((..........(.....)(((((.((((((.(((((...))))).)))).(........))).)))))))).)))). (-17.63 = -16.30 +  -1.33)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 11,781,848 – 11,781,961
Length 113
Sequences 6
Columns 114
Reading direction reverse
Mean pairwise identity 74.70
Mean single sequence MFE -33.68
Consensus MFE -18.18
Energy contribution -18.32
Covariance contribution 0.14
Combinations/Pair 1.29
Mean z-score -1.91
Structure conservation index 0.54
SVM decision value 0.95
SVM RNA-class probability 0.888978
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 11781848 113 - 27905053
UCAGCCAAGUCCGAUUCGCUCGAGGCCUGGAAGUCAUCCGAAACGAAUUCCGAUUCGGAGAUCUUCUGGCCCAGCUCUUUGCCGGCUUGAGCCUUUGCCUUUG-CCUUUGACUU
...((.(((..(((...((((((((((.(((((((.((((((.((.....)).)))))))).))))))))((.((.....)).)))))))))..))).))).)-)......... ( -38.10)
>DroPse_CAF1 137660 94 - 1
UCAGCCAAAUCUGAAUCGGUUGUGGUCUGAAAGUCGUCGGAAACGAAUUCCGAUUCAGAGAUUUUCUGUUUCAUGCCCGUGCCGGCCUU--------------------GCUUU
...(((...((((((((((((((..(((((......))))).))))...))))))))))............(((....)))..)))...--------------------..... ( -26.90)
>DroEre_CAF1 115516 101 - 1
UCAGCCAAGUCCGAUUCGCUCGAGGCCUGGAAGUCAUCCGAAACGAAUUCCGAUUCGGAGACCUUCUGGCCCAGCUCUUUGCUGGCAUGUG-------------CCUUUGACUU
......(((((.((..(((....((((.(((((((.((((((.((.....)).)))))))).)))))))))((((.....))))....)))-------------..)).))))) ( -35.90)
>DroYak_CAF1 119150 101 - 1
UCAGCCAAGUCCGAUUCGCUCGAGGCCUGGAAGUCAUCCGAAACGAAUUCCGAUUCGGAGAUCUUCUGGCCCAGCUCUUUGCCGGCAUGAG-------------CCUUUGACUU
......(((((......(((.(.((((.(((((((.((((((.((.....)).)))))))).)))))))))))))........(((....)-------------))...))))) ( -35.30)
>DroAna_CAF1 118536 107 - 1
UCAGCCAAGUCCGAUUCGCAGGUGGUCUGAAAAUCGUCCGAAACGAAUUCCGAUUCGGAGAUUUUCUGAGACAUCUCUUUGCCACCGUC-------GCCAUUGCCCGUGGGCUU
..((((..(..((((..((.((((((..(((((((.((((((.((.....)).))))))))))))).(((....)))...))))))...-------)).))))..)...)))). ( -39.00)
>DroPer_CAF1 134786 94 - 1
UCAGCCAAAUCUGAAUCGGUUGUGGUCUGAAAGUCGUCGGAAACGAAUUCCGAUUCAGAGAUUUUCUGUUUCAUGCCCGUGCCGGCCUU--------------------GCUUU
...(((...((((((((((((((..(((((......))))).))))...))))))))))............(((....)))..)))...--------------------..... ( -26.90)
>consensus
UCAGCCAAGUCCGAUUCGCUCGAGGCCUGAAAGUCAUCCGAAACGAAUUCCGAUUCGGAGAUCUUCUGGCCCAGCUCUUUGCCGGCAUG_______________CCUUUGACUU
...(((.................((((.(((.(((.((((((.((.....)).))))))))).))).))))(((....)))..)))............................ (-18.18 = -18.32 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:29:39 2006