Locus 5999

Sequence ID 3L_DroMel_CAF1
Location 16,023,179 – 16,023,270
Length 91
Max. P 0.825265
window9594 window9595

overview

Window 4

Location 16,023,179 – 16,023,270
Length 91
Sequences 4
Columns 91
Reading direction forward
Mean pairwise identity 90.91
Mean single sequence MFE -22.93
Consensus MFE -18.40
Energy contribution -18.02
Covariance contribution -0.37
Combinations/Pair 1.08
Mean z-score -1.83
Structure conservation index 0.80
SVM decision value 0.54
SVM RNA-class probability 0.774932
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16023179 91 + 23771897
CGCUCUAUGCCAGAUACAAUUUGAUGUGAUGUCUGCAGUCCGUAGUCCGCAACUCGCAUUUGUAUCUGUAUCUGUAUCUGUAUCUGCUGCC
.((...((((((((((((((..(((((((.((.(((.(.(....).).))))))))))))...)).)))))))).....))))..)).... ( -22.00)
>DroSec_CAF1 23010 85 + 1
CGCUCUAUGCCAGAUACAAUUUGAUGUGAUGUCUGCAGUCCGUAGUCCGCAACUCGCAUUUGUAUCUGUA------UCUGUAUCUGCUGCC
.((...((((.(((((((((..(((((((.((.(((.(.(....).).))))))))))))...)).))))------)))))))..)).... ( -22.20)
>DroSim_CAF1 31625 85 + 1
CGCUCUAUGCCAGAUACAAUUUGAUGUGAUGUCUGCAGUCCGUAGUCCGCAACUCGCAUUUGUAUCUGUA------UCUGUAUCUGCUGCC
.((...((((.(((((((((..(((((((.((.(((.(.(....).).))))))))))))...)).))))------)))))))..)).... ( -22.20)
>DroEre_CAF1 26032 79 + 1
CGCUCUAUGCCAGAUACAAUUUGAUGUGAUGUCUGCAGUCCGCAGUCCGCAUCUCGCAUC------UGUA------UCUGUAUCUGCUGAC
.((...((((.(((((((....((((((((((((((.....))))...)))))..)))))------))))------)))))))..)).... ( -25.30)
>consensus
CGCUCUAUGCCAGAUACAAUUUGAUGUGAUGUCUGCAGUCCGUAGUCCGCAACUCGCAUUUGUAUCUGUA______UCUGUAUCUGCUGCC
.((.....))((((((((....((((((((((((((.....))))...)))..)))))))..................))))))))..... (-18.40 = -18.02 +  -0.37)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Window 5

Location 16,023,179 – 16,023,270
Length 91
Sequences 4
Columns 91
Reading direction reverse
Mean pairwise identity 90.91
Mean single sequence MFE -23.77
Consensus MFE -19.27
Energy contribution -19.52
Covariance contribution 0.25
Combinations/Pair 1.00
Mean z-score -1.91
Structure conservation index 0.81
SVM decision value 0.70
SVM RNA-class probability 0.825265
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 16023179 91 - 23771897
GGCAGCAGAUACAGAUACAGAUACAGAUACAAAUGCGAGUUGCGGACUACGGACUGCAGACAUCACAUCAAAUUGUAUCUGGCAUAGAGCG
.......................((((((((((((.((.((((((.(....).))))))...)).)))....)))))))))((.....)). ( -24.00)
>DroSec_CAF1 23010 85 - 1
GGCAGCAGAUACAGA------UACAGAUACAAAUGCGAGUUGCGGACUACGGACUGCAGACAUCACAUCAAAUUGUAUCUGGCAUAGAGCG
...............------..((((((((((((.((.((((((.(....).))))))...)).)))....)))))))))((.....)). ( -24.00)
>DroSim_CAF1 31625 85 - 1
GGCAGCAGAUACAGA------UACAGAUACAAAUGCGAGUUGCGGACUACGGACUGCAGACAUCACAUCAAAUUGUAUCUGGCAUAGAGCG
...............------..((((((((((((.((.((((((.(....).))))))...)).)))....)))))))))((.....)). ( -24.00)
>DroEre_CAF1 26032 79 - 1
GUCAGCAGAUACAGA------UACA------GAUGCGAGAUGCGGACUGCGGACUGCAGACAUCACAUCAAAUUGUAUCUGGCAUAGAGCG
.....(((((((((.------....------((((.((..(((((........)))))....)).))))...)))))))))((.....)). ( -23.10)
>consensus
GGCAGCAGAUACAGA______UACAGAUACAAAUGCGAGUUGCGGACUACGGACUGCAGACAUCACAUCAAAUUGUAUCUGGCAUAGAGCG
.....(((((((((.........((........)).((.((((((.(....).))))))...))........)))))))))((.....)). (-19.27 = -19.52 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 12:06:24 2006