Locus 4870

Sequence ID X_DroMel_CAF1
Location 12,665,815 – 12,665,913
Length 98
Max. P 0.701137
window7950 window7951

overview

Window 0

Location 12,665,815 – 12,665,913
Length 98
Sequences 4
Columns 106
Reading direction forward
Mean pairwise identity 86.58
Mean single sequence MFE -19.67
Consensus MFE -14.03
Energy contribution -14.66
Covariance contribution 0.63
Combinations/Pair 1.08
Mean z-score -1.42
Structure conservation index 0.71
SVM decision value -0.03
SVM RNA-class probability 0.518911
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12665815 98 + 22224390
UUUUUGUAA--------CGUAUUUUUUACGAGGCUGGCGCCGUUUUUAUGACCAUUGCUUCCCUUUGUUACUUGCAAUUUGUUUUUUGAUGUUUAUGCCACGCCAG
.........--------((((.....)))).((((((((.((((.....(((.(((((...............)))))..)))....))))....))))).))).. ( -20.36)
>DroSec_CAF1 19442 98 + 1
UUUUUGUAA--------CGUAUUUUUUACGAGGCUGGCGCCGUUUUUAUGACCAUUGCUUCCCUUUGUUACUUGCAAUUUGUUUUUUGAUGUUUAUGCCACGCCAG
.........--------((((.....)))).((((((((.((((.....(((.(((((...............)))))..)))....))))....))))).))).. ( -20.36)
>DroEre_CAF1 19675 93 + 1
---UUUU-A--------CGUA-UUUUUACGAGGCUGGCGCCGUUUUUAUGACCAUUGCUUCCCUUUGUUACUUGCAAUUUGCUUUUUGAUGUUUAUGCCACGCCAG
---....-.--------((((-....)))).((((((((.((((.....(...(((((...............)))))...).....))))....))))).))).. ( -19.36)
>DroAna_CAF1 24779 99 + 1
UUUUCGUAGUAGUAUUUUGUA-UUUUUACGAGGAUGGCGCC-UUUUUAUGACCGUUUCU----UUUGUUACUUGCAAUUUGUU-UUUGAUGUUUAUGCCACGCCAG
(((((((((.(((((...)))-)).)))))))))(((((..-....(((((.((((.(.----.((((.....))))...)..-...)))).)))))...))))). ( -18.60)
>consensus
UUUUUGUAA________CGUA_UUUUUACGAGGCUGGCGCCGUUUUUAUGACCAUUGCUUCCCUUUGUUACUUGCAAUUUGUUUUUUGAUGUUUAUGCCACGCCAG
.................((((.....)))).((((((((.((((.....(((.(((((...............)))))..)))....))))....))))).))).. (-14.03 = -14.66 +   0.63)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 1

Location 12,665,815 – 12,665,913
Length 98
Sequences 4
Columns 106
Reading direction reverse
Mean pairwise identity 86.58
Mean single sequence MFE -16.45
Consensus MFE -12.44
Energy contribution -13.19
Covariance contribution 0.75
Combinations/Pair 1.00
Mean z-score -1.67
Structure conservation index 0.76
SVM decision value 0.35
SVM RNA-class probability 0.701137
Prediction RNA

Download alignment: ClustalW | MAF

>X_DroMel_CAF1 12665815 98 - 22224390
CUGGCGUGGCAUAAACAUCAAAAAACAAAUUGCAAGUAACAAAGGGAAGCAAUGGUCAUAAAAACGGCGCCAGCCUCGUAAAAAAUACG--------UUACAAAAA
..(((.((((..................(((((...............))))).(((........)))))))))).((((.....))))--------......... ( -17.86)
>DroSec_CAF1 19442 98 - 1
CUGGCGUGGCAUAAACAUCAAAAAACAAAUUGCAAGUAACAAAGGGAAGCAAUGGUCAUAAAAACGGCGCCAGCCUCGUAAAAAAUACG--------UUACAAAAA
..(((.((((..................(((((...............))))).(((........)))))))))).((((.....))))--------......... ( -17.86)
>DroEre_CAF1 19675 93 - 1
CUGGCGUGGCAUAAACAUCAAAAAGCAAAUUGCAAGUAACAAAGGGAAGCAAUGGUCAUAAAAACGGCGCCAGCCUCGUAAAAA-UACG--------U-AAAA---
..(((.((((..................(((((...............))))).(((........)))))))))).((((....-))))--------.-....--- ( -17.86)
>DroAna_CAF1 24779 99 - 1
CUGGCGUGGCAUAAACAUCAAA-AACAAAUUGCAAGUAACAAA----AGAAACGGUCAUAAAAA-GGCGCCAUCCUCGUAAAAA-UACAAAAUACUACUACGAAAA
.((((((.(((...........-.......)))..........----.((.....)).......-.))))))...(((((....-.............)))))... ( -12.20)
>consensus
CUGGCGUGGCAUAAACAUCAAAAAACAAAUUGCAAGUAACAAAGGGAAGCAAUGGUCAUAAAAACGGCGCCAGCCUCGUAAAAA_UACG________UUACAAAAA
..(((.((((..................(((((...............))))).(((........))))))))))..(((.....))).................. (-12.44 = -13.19 +   0.75)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:35:00 2006