Locus 6109

Sequence ID 2R_DroMel_CAF1
Location 19,226,148 – 19,226,255
Length 107
Max. P 0.948752
window9781 window9782

overview

Window 1

Location 19,226,148 – 19,226,255
Length 107
Sequences 5
Columns 113
Reading direction forward
Mean pairwise identity 77.13
Mean single sequence MFE -26.79
Consensus MFE -15.74
Energy contribution -15.18
Covariance contribution -0.56
Combinations/Pair 1.30
Mean z-score -2.16
Structure conservation index 0.59
SVM decision value 1.38
SVM RNA-class probability 0.948752
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19226148 107 + 20766785
UUUUGAUGGCUGGCCAUUUGGGGCGUCCAUUAGACAGAGUGACACCGGGCACACUCGCACCUCACAACUCACACCUCAC----ACCUCACACUUCCCACU--UGGCCAUCUCA
...(((.((.((((((..(((((.(((.....))).((((......((((......)).)).....)))).........----..........)))))..--))))))))))) ( -30.40)
>DroSim_CAF1 15793 93 + 1
UUUUGAUGGCUGGCCAUUUGGGGCGUCCAUUAGACAGCGUCACACCGGGCACACUCGUA--------------CCUCAC----ACCUCACACUUCCCACU--UGGCCAUCUCG
....((.((.((((((..(((((((((.....))).)).......((((....))))..--------------......----...........))))..--)))))))))). ( -25.90)
>DroEre_CAF1 16006 86 + 1
UUUUGAUGGCUGGCCAUUUGGGGCGUCCAUUGGACAUCUUGACAUCGGGCACACUCGCA--------------CCUCGC----A-------CUGCCCACU--UGGCCACCUCA
...(((.((.((((((....((((((((...))))...........((((......)).--------------))....----.-------..))))...--))))))))))) ( -31.90)
>DroYak_CAF1 16680 93 + 1
UUUUGAUGGCUGGCCAUUUGGGGCGUCCAUUAGACAGCGUGACACCUGGCACACUCGCA--------------CCUCAC----ACUUCUCACUUCCCACU--UGGCCAUCUCA
...(((.((.((((((..(((((((((.....))).))((((......((......)).--------------..))))----...........))))..--))))))))))) ( -28.30)
>DroAna_CAF1 15763 98 + 1
UUUU-AUUGCUGGCCAUUUGGGCCAUCCAUUAGACAGCUUGACACCAGGCACACUUGCA--------------CCUAUCUUCAGUCCCACACUCGCCACUAUCGACUAUCCAA
....-..((((((((.....)))))...........(((((....)))))......)))--------------.........((((.................))))...... ( -17.43)
>consensus
UUUUGAUGGCUGGCCAUUUGGGGCGUCCAUUAGACAGCGUGACACCGGGCACACUCGCA______________CCUCAC____ACCUCACACUUCCCACU__UGGCCAUCUCA
......(((.((((((...((((.(((.....)))..........((((....)))).....................................))).)...))))))..))) (-15.74 = -15.18 +  -0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 2

Location 19,226,148 – 19,226,255
Length 107
Sequences 5
Columns 113
Reading direction reverse
Mean pairwise identity 77.13
Mean single sequence MFE -33.26
Consensus MFE -18.60
Energy contribution -19.56
Covariance contribution 0.96
Combinations/Pair 1.18
Mean z-score -1.84
Structure conservation index 0.56
SVM decision value 0.40
SVM RNA-class probability 0.720265
Prediction RNA

Download alignment: ClustalW | MAF

>2R_DroMel_CAF1 19226148 107 - 20766785
UGAGAUGGCCA--AGUGGGAAGUGUGAGGU----GUGAGGUGUGAGUUGUGAGGUGCGAGUGUGCCCGGUGUCACUCUGUCUAAUGGACGCCCCAAAUGGCCAGCCAUCAAAA
(((..((((((--..((((.((.((((.(.----..(.((..(.(.((((.....)))).))..)))..).)))).))(((.....)))..))))..))))))....)))... ( -34.50)
>DroSim_CAF1 15793 93 - 1
CGAGAUGGCCA--AGUGGGAAGUGUGAGGU----GUGAGG--------------UACGAGUGUGCCCGGUGUGACGCUGUCUAAUGGACGCCCCAAAUGGCCAGCCAUCAAAA
.((..((((((--..((((.(((((.(.(.----..(.((--------------(((....))))))..).).)))))(((.....)))..))))..))))))....)).... ( -33.40)
>DroEre_CAF1 16006 86 - 1
UGAGGUGGCCA--AGUGGGCAG-------U----GCGAGG--------------UGCGAGUGUGCCCGAUGUCAAGAUGUCCAAUGGACGCCCCAAAUGGCCAGCCAUCAAAA
(((((((((((--..(((((..-------.----.((.((--------------..(....)..))))..........((((...))))).))))..)))))).)).)))... ( -34.00)
>DroYak_CAF1 16680 93 - 1
UGAGAUGGCCA--AGUGGGAAGUGAGAAGU----GUGAGG--------------UGCGAGUGUGCCAGGUGUCACGCUGUCUAAUGGACGCCCCAAAUGGCCAGCCAUCAAAA
(((..((((((--..((((........(((----((((((--------------..(....)..)).....)))))))(((.....)))..))))..))))))....)))... ( -35.70)
>DroAna_CAF1 15763 98 - 1
UUGGAUAGUCGAUAGUGGCGAGUGUGGGACUGAAGAUAGG--------------UGCAAGUGUGCCUGGUGUCAAGCUGUCUAAUGGAUGGCCCAAAUGGCCAGCAAU-AAAA
((((((((((.(((.(....).))).)...(((...((((--------------..(....)..))))...))).)))))))))((..(((((.....))))).))..-.... ( -28.70)
>consensus
UGAGAUGGCCA__AGUGGGAAGUGUGAGGU____GUGAGG______________UGCGAGUGUGCCCGGUGUCACGCUGUCUAAUGGACGCCCCAAAUGGCCAGCCAUCAAAA
.((..((((((....((((.......................................((((((.(....).))))))(((.....)))..))))..))))))....)).... (-18.60 = -19.56 +   0.96)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:02:58 2006