Locus 5450

Sequence ID X_DroMel_CAF1
Location 14,185,650 – 14,185,751
Length 101
Max. P 0.974429
window8838 window8839

overview

Window 8

Location 14,185,650 – 14,185,751
Length 101
Sequences 4
Columns 110
Reading direction forward
Mean pairwise identity 88.33
Mean single sequence MFE -38.95
Consensus MFE -31.70
Energy contribution -32.20
Covariance contribution 0.50
Combinations/Pair 1.00
Mean z-score -2.61
Structure conservation index 0.81
SVM decision value 1.73
SVM RNA-class probability 0.974429
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14185650 101 + 22224390
GCCGUGGCAAGUGAUGCGUGUGGUAAAUGCCGCAGGACACCCCUGCACAUCCUGCAUGCAUCCUGGCCGUC---------CUGGCCACUUUUCCAGCACUGUUCGUUUAU
.....(((.((.((((((((((((....)))(((((.....))))).......))))))))))).)))((.---------((((........)))).))........... ( -37.30)
>DroSec_CAF1 96053 110 + 1
GCCGUGGCAAGUGAUGCGUGUGGUAAAUGCUGCAGGACACCCCUGCACAUCCUGCAUGCAUCCUGGCCGUCCCGGCCAUCCUGGCCACUUUUCCAGAACUGUUCGUUUAU
...(((((.((.((((((((..(...(((.((((((.....))))))))).)..))))))))))(((((...)))))......))))).......((((.....)))).. ( -46.20)
>DroEre_CAF1 85046 92 + 1
GCCGUGGCAAGUGAUGCGUGUGGUAAAUGCUCCAGGACACCCCUGCACAUCCUGCAUGCAUCCU------------------GGCCACUUUUCCAGCACUGUUCGUUUAU
...(((((.((.((((((((..(...(((...((((.....))))..))).)..))))))))))------------------.)))))...................... ( -32.20)
>DroYak_CAF1 86147 110 + 1
GCCGUGGCAAGUGAUGCGUGUGGUAAAUGCUGCAGGACACCCCUGCACAUCCUGCAUGCAUCCUGGCCGUCCUGCUCGUCCUGGCCACUUUUCCAGCACUGUUCGUUUAU
((.(((((.((.((((((((..(...(((.((((((.....))))))))).)..)))))))))).)))).)..))..((.((((........)))).))........... ( -40.10)
>consensus
GCCGUGGCAAGUGAUGCGUGUGGUAAAUGCUGCAGGACACCCCUGCACAUCCUGCAUGCAUCCUGGCCGUC_________CUGGCCACUUUUCCAGCACUGUUCGUUUAU
...(((((.((.((((((((..(...(((.((((((.....))))))))).)..))))))))))...................)))))...................... (-31.70 = -32.20 +   0.50)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 9

Location 14,185,650 – 14,185,751
Length 101
Sequences 4
Columns 110
Reading direction reverse
Mean pairwise identity 88.33
Mean single sequence MFE -37.83
Consensus MFE -29.80
Energy contribution -31.12
Covariance contribution 1.31
Combinations/Pair 1.03
Mean z-score -1.71
Structure conservation index 0.79
SVM decision value 0.44
SVM RNA-class probability 0.738441
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 14185650 101 - 22224390
AUAAACGAACAGUGCUGGAAAAGUGGCCAG---------GACGGCCAGGAUGCAUGCAGGAUGUGCAGGGGUGUCCUGCGGCAUUUACCACACGCAUCACUUGCCACGGC
.....((....((.((((........))))---------.))(((.(((((((..((((((..(......)..))))))((......))....))))).)).))).)).. ( -38.10)
>DroSec_CAF1 96053 110 - 1
AUAAACGAACAGUUCUGGAAAAGUGGCCAGGAUGGCCGGGACGGCCAGGAUGCAUGCAGGAUGUGCAGGGGUGUCCUGCAGCAUUUACCACACGCAUCACUUGCCACGGC
......................(((((.((((((((((...))))).((((((.(((((((..(......)..))))))))))))).........))).)).)))))... ( -40.80)
>DroEre_CAF1 85046 92 - 1
AUAAACGAACAGUGCUGGAAAAGUGGCC------------------AGGAUGCAUGCAGGAUGUGCAGGGGUGUCCUGGAGCAUUUACCACACGCAUCACUUGCCACGGC
.....((....(((.(((..(((((.((------------------(((((((.((((.....))))...)))))))))..))))).))))))(((.....)))..)).. ( -32.10)
>DroYak_CAF1 86147 110 - 1
AUAAACGAACAGUGCUGGAAAAGUGGCCAGGACGAGCAGGACGGCCAGGAUGCAUGCAGGAUGUGCAGGGGUGUCCUGCAGCAUUUACCACACGCAUCACUUGCCACGGC
.....((....(((.(((.....(((((.(..(.....)..))))))((((((.(((((((..(......)..))))))))))))).))))))(((.....)))..)).. ( -40.30)
>consensus
AUAAACGAACAGUGCUGGAAAAGUGGCCAG_________GACGGCCAGGAUGCAUGCAGGAUGUGCAGGGGUGUCCUGCAGCAUUUACCACACGCAUCACUUGCCACGGC
.....((....(((.(((.....(((((..............)))))((((((.(((((((..(......)..))))))))))))).))))))(((.....)))..)).. (-29.80 = -31.12 +   1.31)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:48:12 2006