Locus 4617

Sequence ID X_DroMel_CAF1
Location 12,084,390 – 12,084,483
Length 93
Max. P 0.999961
window7589 window7590

overview

Window 9

Location 12,084,390 – 12,084,483
Length 93
Sequences 4
Columns 111
Reading direction forward
Mean pairwise identity 70.30
Mean single sequence MFE -26.65
Consensus MFE -16.44
Energy contribution -17.00
Covariance contribution 0.56
Combinations/Pair 1.15
Mean z-score -3.10
Structure conservation index 0.62
SVM decision value 4.92
SVM RNA-class probability 0.999961
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12084390 93 + 22224390
GCCAACAGAAAUUUGUUGGGCAAUUUCCAAGCCAGCAAAUCUCUGCAAUGCUGGUUGCAG-GCAACCCAACCAGCUAAGCCACCCAUUUCACCC-----------------
((...((((.(((((((((............))))))))).))))....((((((((..(-....).))))))))...))..............----------------- ( -29.00)
>DroSec_CAF1 20105 92 + 1
GCCAACAGAAAUUUGUUGGGCAAUUUCCAAGCCAACAAAUCUCUGCAAUGCUGG-UGCAG-GCAACCCAACCAGCUAAGCCACCCAUUUCACCA-----------------
((...((((.(((((((((............))))))))).))))....(((((-(...(-....)...))))))...))..............----------------- ( -26.60)
>DroMoj_CAF1 34503 102 + 1
GCCAACAGAAAUUUGUUGGGCAAUUUCCAAGCCAACAAAUCUCUGCAAAGCUGC-CGCACUGCAACACUGG--GCUAACAC--CCACCCC----GGCCCCACCCGCACUCA
(((...(((.(((((((((............))))))))).)))(((..((...-.))..))).....(((--(......)--)))....----))).............. ( -25.00)
>DroAna_CAF1 18194 109 + 1
GCCAACAGAAAUUUGUUGGGCAAUUUCCAAGCCAACAAAUCCCUGCAAUGUCGG-UGCAG-GGAAGGCCUCCAACUAUUCCCGACAUCCCCCCAUAGCCCACCCACUAGAU
(((........((((((((............))))))))((((((((.......-)))))-))).)))........................................... ( -26.00)
>consensus
GCCAACAGAAAUUUGUUGGGCAAUUUCCAAGCCAACAAAUCUCUGCAAUGCUGG_UGCAG_GCAACCCAACCAGCUAAGCCACCCAUCCCACCA_________________
.....((((.(((((((((............))))))))).))))....(((((.((..........)).))))).................................... (-16.44 = -17.00 +   0.56)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 0

Location 12,084,390 – 12,084,483
Length 93
Sequences 4
Columns 111
Reading direction reverse
Mean pairwise identity 70.30
Mean single sequence MFE -37.65
Consensus MFE -24.17
Energy contribution -24.80
Covariance contribution 0.63
Combinations/Pair 1.21
Mean z-score -2.76
Structure conservation index 0.64
SVM decision value 4.44
SVM RNA-class probability 0.999898
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12084390 93 - 22224390
-----------------GGGUGAAAUGGGUGGCUUAGCUGGUUGGGUUGC-CUGCAACCAGCAUUGCAGAGAUUUGCUGGCUUGGAAAUUGCCCAACAAAUUUCUGUUGGC
-----------------.(((....((((..((((((....))))))..)-)))..))).((...(((((((((((..(((.........)))...)))))))))))..)) ( -33.90)
>DroSec_CAF1 20105 92 - 1
-----------------UGGUGAAAUGGGUGGCUUAGCUGGUUGGGUUGC-CUGCA-CCAGCAUUGCAGAGAUUUGUUGGCUUGGAAAUUGCCCAACAAAUUUCUGUUGGC
-----------------(((((....(((..((((((....))))))..)-)).))-)))((...((((((((((((((((.........).)))))))))))))))..)) ( -41.10)
>DroMoj_CAF1 34503 102 - 1
UGAGUGCGGGUGGGGCC----GGGGUGG--GUGUUAGC--CCAGUGUUGCAGUGCG-GCAGCUUUGCAGAGAUUUGUUGGCUUGGAAAUUGCCCAACAAAUUUCUGUUGGC
((.(..(..(..(.((.----.((((..--......))--)).)).)..).)..).-.))(((..((((((((((((((((.........).))))))))))))))).))) ( -38.70)
>DroAna_CAF1 18194 109 - 1
AUCUAGUGGGUGGGCUAUGGGGGGAUGUCGGGAAUAGUUGGAGGCCUUCC-CUGCA-CCGACAUUGCAGGGAUUUGUUGGCUUGGAAAUUGCCCAACAAAUUUCUGUUGGC
.....((.((((.(....((((((.(.((.((.....)).)).).)))))-)).))-)).))...((((..((((((((((.........).)))))))))..)))).... ( -36.90)
>consensus
_________________UGGUGAAAUGGGUGGCUUAGCUGGUUGGGUUGC_CUGCA_CCAGCAUUGCAGAGAUUUGUUGGCUUGGAAAUUGCCCAACAAAUUUCUGUUGGC
....................................(((((.(((........))).)))))...((((((((((((((((.........).))))))))))))))).... (-24.17 = -24.80 +   0.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:29:30 2006