Locus 7113

Sequence ID X_DroMel_CAF1
Location 17,859,269 – 17,859,389
Length 120
Max. P 0.963862
window11618 window11619

overview

Window 8

Location 17,859,269 – 17,859,389
Length 120
Sequences 6
Columns 120
Reading direction forward
Mean pairwise identity 77.00
Mean single sequence MFE -51.20
Consensus MFE -27.48
Energy contribution -26.40
Covariance contribution -1.08
Combinations/Pair 1.43
Mean z-score -2.43
Structure conservation index 0.54
SVM decision value 1.56
SVM RNA-class probability 0.963862
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17859269 120 + 22224390
AUAAUCACGGGCUUCUGCAAGGGUACCCAGGACUAUUGUCCGCCGGCACCGCAAGGACCAACCGGAGAAGUGGGACCAAAGGGACCACCGGGAAACCCGGGUCUACCUGGCAUCCCCGGU
.......((((....(((.(((((.((((((((....)))).((((..((....)).....)))).....)))))))....(((((.(.((....)).))))))..)).)))..)))).. ( -49.50)
>DroVir_CAF1 169278 120 + 1
AUAAUUACCGGCUUUUGCAAGGGCACACAGGACUAUUGCCCGCCAGCGCCGGCCGGGCCAAUGGGCCCGAUUGGACCCAAAGGACCAACCGGUAAUCCCGGCCUGCCGGGCAUACCCGGU
.......(((((.((.((..(((((...........))))))).)).))))).((((((....))))))..(((.((....)).)))(((((..(((((((....))))).))..))))) ( -53.00)
>DroGri_CAF1 145979 120 + 1
AUAAUCACUGGCUUUUGCAAGGGCACACAGGAAUACUGCCCGCCAGCACCGUCAGGACCAACGGGUGCCGUCGGCCCAAAAGGACCACCCGGUAAUCCUGGCUUACCGGGCAUACCCGGC
.......(((((........(((((...........))))))))))....(((((((....((((((..(((..........)))))))))....)))))))...(((((....))))). ( -45.20)
>DroWil_CAF1 150095 120 + 1
AUUAUCACGGGAUUCUGUAAGGGUACUCAAGACUAUUGUCCACCUGCGCCGCAGGGACCACAAGGUGAUAUCGGACCGAAGGGACCCACCGGUAACCCCGGAUUGCCUGGAAUUCCCGGA
.......(((((((((.....(((......(((....)))..(((((...))))).)))...(((..((...((.((....)).))..((((.....))))))..))))))).))))).. ( -42.20)
>DroMoj_CAF1 186460 120 + 1
AUUAUCACGGGCUUUUGCAAGGGCACACAGGAAUACUGCCCGCCAGCCCCAGCUGGCCCAAUGGGCCCAGUAGGACCCAAAGGACCCACCGGCAAUCCCGGCCUGCCGGGCAUACCCGGU
........((((((((....(((((...........)))))((((((....)))))).....(((.((....)).)))))))).)))(((((..(((((((....))))).))..))))) ( -51.00)
>DroAna_CAF1 130146 120 + 1
AUCAUCACGGGCUUCUGCAAGGGCACCCAGGACUACUGUCCGCCGGCGCCCCAGGGUCCGGUGGGCGAGGCGGGUCCCAAAGGACCCACCGGAAAUCCGGGUCUGCCGGGCAUACCCGGU
.......((((..((((...((((.((..((((....))))...)).))))))))((((((..(((.....((((((....)))))).((((....)))))))..))))))...)))).. ( -66.30)
>consensus
AUAAUCACGGGCUUCUGCAAGGGCACACAGGACUACUGCCCGCCAGCGCCGCAAGGACCAAUGGGCGAAGUCGGACCCAAAGGACCAACCGGUAAUCCCGGCCUGCCGGGCAUACCCGGU
........(((.((((((...(((...(((.....)))...))).)).......((.((.((.......)).)).))...))))))).((((....(((((....))))).....)))). (-27.48 = -26.40 +  -1.08)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 17,859,269 – 17,859,389
Length 120
Sequences 6
Columns 120
Reading direction reverse
Mean pairwise identity 77.00
Mean single sequence MFE -56.55
Consensus MFE -29.23
Energy contribution -29.78
Covariance contribution 0.56
Combinations/Pair 1.32
Mean z-score -2.35
Structure conservation index 0.52
SVM decision value 1.31
SVM RNA-class probability 0.941090
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 17859269 120 - 22224390
ACCGGGGAUGCCAGGUAGACCCGGGUUUCCCGGUGGUCCCUUUGGUCCCACUUCUCCGGUUGGUCCUUGCGGUGCCGGCGGACAAUAGUCCUGGGUACCCUUGCAGAAGCCCGUGAUUAU
((((((((.((((((..((((((((...))))..))))..))))))......)))))))).(((..((((((((((.(.((((....))))).))))))...))))..)))......... ( -49.90)
>DroVir_CAF1 169278 120 - 1
ACCGGGUAUGCCCGGCAGGCCGGGAUUACCGGUUGGUCCUUUGGGUCCAAUCGGGCCCAUUGGCCCGGCCGGCGCUGGCGGGCAAUAGUCCUGUGUGCCCUUGCAAAAGCCGGUAAUUAU
(((((...((((((.((((((((.....))((((((.((..(((((((....)))))))..)).))))))))).))).))))))......((...(((....)))..)))))))...... ( -65.10)
>DroGri_CAF1 145979 120 - 1
GCCGGGUAUGCCCGGUAAGCCAGGAUUACCGGGUGGUCCUUUUGGGCCGACGGCACCCGUUGGUCCUGACGGUGCUGGCGGGCAGUAUUCCUGUGUGCCCUUGCAAAAGCCAGUGAUUAU
((((((..((((((((((.......))))))))))..))....((((((((((...))))))))))...))))(((((((((((.(((....))))))))((....))))))))...... ( -56.20)
>DroWil_CAF1 150095 120 - 1
UCCGGGAAUUCCAGGCAAUCCGGGGUUACCGGUGGGUCCCUUCGGUCCGAUAUCACCUUGUGGUCCCUGCGGCGCAGGUGGACAAUAGUCUUGAGUACCCUUACAGAAUCCCGUGAUAAU
(((((((..((.((((....(((((..(((....)))..)))))(((((.....(((....))).(((((...))))))))))....)))).))(((....)))....))))).)).... ( -38.40)
>DroMoj_CAF1 186460 120 - 1
ACCGGGUAUGCCCGGCAGGCCGGGAUUGCCGGUGGGUCCUUUGGGUCCUACUGGGCCCAUUGGGCCAGCUGGGGCUGGCGGGCAGUAUUCCUGUGUGCCCUUGCAAAAGCCCGUGAUAAU
.((((((...((((((..(((((.....))))).(((((..(((((((....)))))))..))))).))))))((.((((.((((.....)))).))))...))....))))).)..... ( -67.00)
>DroAna_CAF1 130146 120 - 1
ACCGGGUAUGCCCGGCAGACCCGGAUUUCCGGUGGGUCCUUUGGGACCCGCCUCGCCCACCGGACCCUGGGGCGCCGGCGGACAGUAGUCCUGGGUGCCCUUGCAGAAGCCCGUGAUGAU
.((((((.(((...))).))))))......(((((((((....)))))))))(((..(((.((...((((((((((.(.((((....))))).)))))))...)))...)).))).))). ( -62.70)
>consensus
ACCGGGUAUGCCCGGCAGGCCGGGAUUACCGGUGGGUCCUUUGGGUCCCACCGCGCCCAUUGGUCCCGGCGGCGCUGGCGGACAAUAGUCCUGUGUGCCCUUGCAAAAGCCCGUGAUUAU
...(((((((((((((...(((((....))....((.((..((((..........))))..)).))...))).))))).((((....)))).))))))))((((........)))).... (-29.23 = -29.78 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:30:30 2006