Locus 4095

Sequence ID X_DroMel_CAF1
Location 10,805,010 – 10,805,174
Length 164
Max. P 0.988236
window6730 window6731

overview

Window 0

Location 10,805,010 – 10,805,115
Length 105
Sequences 6
Columns 117
Reading direction forward
Mean pairwise identity 71.29
Mean single sequence MFE -35.84
Consensus MFE -14.24
Energy contribution -15.72
Covariance contribution 1.48
Combinations/Pair 1.26
Mean z-score -2.53
Structure conservation index 0.40
SVM decision value 2.11
SVM RNA-class probability 0.988236
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10805010 105 + 22224390
AGCAAAUGGCAGCCGAACGGC--GGCAACUGGUU-GCUGGUCAUCGAGU----UGGCCAAAAAGGCACCCAGCAACUUUCACAUGCCAUUGACAUG-----GCCAGCAAAACUAAAA
.((...((((.(((....)))--((((...((((-(((((.((......----))(((.....)))..)))))))))......)))).........-----)))))).......... ( -36.70)
>DroSec_CAF1 20259 105 + 1
AGCAAAUGGCAGUCGAACGGC--GGCAACUGGUU-GCUGGUCGUCGAGU----UGGCCAAAAAGGCGCCCAGCAACUUUCACAUGCCAUUGACAUG-----GCCAGCAAAACUAAAA
.((...((((.(((((..(((--(......((((-(((((.((((...(----(....))...)))).)))))))))......)))).)))))...-----)))))).......... ( -39.10)
>DroEre_CAF1 25633 102 + 1
AGCAAGUGGCAGCCGAACG-----GCAACUGGUU-GCUGGUCGUCGAGU----UGGCCAAAAAGGCGCCCAGCAACUUUCACAUGCCAUUGACAUG-----GCCAGCAAAAAUGAAA
.((..((((..(((....)-----))....((((-(((((.((((...(----(....))...)))).))))))))).))))..(((((....)))-----))..)).......... ( -36.10)
>DroYak_CAF1 24278 98 + 1
AGCAAACGGCAACUG---------GUUGUUGGUU-GUUGGUCGUCGAGU----UGGCCAAAAAGGCGCCCAGCAACUUUCACAUGCCAUUGACAUG-----GCCAGCAAAAAUAUAA
.((.....))..(((---------((((..((((-(((((.((((...(----(....))...)))).)))))))))..))((((.......))))-----)))))........... ( -29.50)
>DroMoj_CAF1 22053 103 + 1
GGCGCUUGGCGCU----UGGCUGGGCGACCGGUUAGCUGGUCAAGUGCUUCGUUGGCCAAAAAGGCGCCCAGCAACUUUCACAAGCCGUUGACUUGACU--UUAGACAG--------
((((((((.....----..(((((((((((((....)))))).............(((.....))))))))))........)))).)))).........--........-------- ( -38.36)
>DroPer_CAF1 22426 88 + 1
GGCAACUGGCAACU---------GGCAACUGGUU-GC-----GCCGAGC----UGCCCAAAAAAGUGGCCAGCAACUUUCACAUGCCAUUGACAUGGCAUGGCCAGC----------
(((.....((((((---------(....).))))-))-----.....((----((.(((......))).))))........((((((((....)))))))))))...---------- ( -35.30)
>consensus
AGCAAAUGGCAGCCG__CG____GGCAACUGGUU_GCUGGUCGUCGAGU____UGGCCAAAAAGGCGCCCAGCAACUUUCACAUGCCAUUGACAUG_____GCCAGCAAAA_UAAAA
.((...((((....................((((.(((((.((((..................)))).)))))))))....((((.......)))).....)))))).......... (-14.24 = -15.72 +   1.48)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 10,805,080 – 10,805,174
Length 94
Sequences 4
Columns 102
Reading direction reverse
Mean pairwise identity 79.69
Mean single sequence MFE -23.19
Consensus MFE -16.70
Energy contribution -16.52
Covariance contribution -0.19
Combinations/Pair 1.05
Mean z-score -1.53
Structure conservation index 0.72
SVM decision value 0.04
SVM RNA-class probability 0.556137
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 10805080 94 - 22224390
UUGCACCGUGCAACUUGCAACUUGCA--------GCCCGCCAAUCGCAUAUAUAUUGUAUUUUUUUUUUUUAGUUUUGCUGGCCAUGUCAAUGGCAUGUGAA
(((((...(((.....)))...))))--------)........((((((.....................(((.....)))(((((....))))))))))). ( -21.20)
>DroSec_CAF1 20329 91 - 1
UUGCAGCGUGCAACUUGCAACUUGCA--------GCCCGCCAAUCGCAUAUAUAUU---UUUUUUCUUUUUAGUUUUGCUGGCCAUGUCAAUGGCAUGUGAA
((((((..(((.....)))..)))))--------)........((((((.......---...........(((.....)))(((((....))))))))))). ( -21.90)
>DroEre_CAF1 25700 86 - 1
UUGCACCGUGCAACUCGCAACUUGCAACUC-GCUGCCCGCCACGCGUAUAU---------------UUUUCAUUUUUGCUGGCCAUGUCAAUGGCAUGUGAA
(((((...(((.....)))...))))).((-((((((.((((.(((.....---------------..........))))))).((....)))))).)))). ( -22.16)
>DroYak_CAF1 24341 87 - 1
UUGCAGCGUGCAACUUGCAACUUGCAACGCGGCUGCCCGCCACGCGCAUAU---------------UUUAUAUUUUUGCUGGCCAUGUCAAUGGCAUGUGAA
.(((.(((((....((((.....)))).((((....))))))))))))...---------------........((..(..(((((....)))))..)..)) ( -27.50)
>consensus
UUGCACCGUGCAACUUGCAACUUGCA________GCCCGCCAAGCGCAUAU_______________UUUUUAGUUUUGCUGGCCAUGUCAAUGGCAUGUGAA
.((((...(((.....)))...))))............((((...(((............................)))))))(((((.....))))).... (-16.70 = -16.52 +  -0.19)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:16:14 2006