Locus 3258

Sequence ID 3R_DroMel_CAF1
Location 8,697,030 – 8,697,127
Length 97
Max. P 0.555209
window5265

overview

Window 5

Location 8,697,030 – 8,697,127
Length 97
Sequences 6
Columns 99
Reading direction forward
Mean pairwise identity 81.42
Mean single sequence MFE -25.87
Consensus MFE -16.31
Energy contribution -16.48
Covariance contribution 0.17
Combinations/Pair 1.29
Mean z-score -1.63
Structure conservation index 0.63
SVM decision value 0.04
SVM RNA-class probability 0.555209
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 8697030 97 + 27905053
G-AAAAGUGAGGGCCUGGCCUGUCCUGGCCUGGUAUGCAA-ACAGCAAAUACAACAAUAUUUUAUUGCUCCUCUGACAUGGGGACAACAGUCGGAGCCC
.-...((((((((((.((((......)))).))).(((..-...)))............)))))))(((((.(((...((....)).)))..))))).. ( -29.50)
>DroPse_CAF1 138449 89 + 1
GCAAAAGU-AGGAUGUGGCU----CCGGC--UGUAUGCAAAAGAGCAAAUACAACAAUAUUUUAUUGCUCCUCUGGCAUAAACACAACAGCCAGG---C
((......-.(((......)----))(((--(((((((....((((((................)))))).....)))).......))))))..)---) ( -21.50)
>DroSim_CAF1 140173 97 + 1
C-AAAAGUGAGGGCCUGGCCUGUCCUGGCCUGGUAUGCAA-ACAGCAAAUACAACAAUAUUUUAUUGCUCCUCUGACAUGGGGACAACAGUCGGAGCCG
.-...((((((((((.((((......)))).))).(((..-...)))............)))))))(((((.(((...((....)).)))..))))).. ( -29.50)
>DroEre_CAF1 137623 87 + 1
G-AAAAGUGAGGGCCUG----------GCCUGGUAUGCAA-ACAGCAAAUACAACAAUAUUUUAUUGCUCCUCUGACAUGGGGACAACAGUCGGAGCCC
.-........(((((((----------((.((((((((..-...)))..)))............(((.(((((......))))))))))))))).)))) ( -25.20)
>DroYak_CAF1 131403 87 + 1
G-AAAAGUGAGGGCCUG----------GCCUGGUAUGCAA-ACAGCAAAUACAACAAUAUUUUAUUGCUCCUCUGACAUGGGGACAACAGUCGGGGCCC
.-........((((((.----------(.(((((((((..-...)))..)))............(((.(((((......))))))))))).).)))))) ( -28.00)
>DroPer_CAF1 134419 89 + 1
GCAAAAGU-AGGAUGUGGCU----CCGGC--UGUAUGCAAAAGAGCAAAUACAACAAUAUUUUAUUGCUCCUCUGGCAUAAACACAACAGCCAGG---C
((......-.(((......)----))(((--(((((((....((((((................)))))).....)))).......))))))..)---) ( -21.50)
>consensus
G_AAAAGUGAGGGCCUGGC_____C_GGCCUGGUAUGCAA_ACAGCAAAUACAACAAUAUUUUAUUGCUCCUCUGACAUGGGGACAACAGUCGGAGCCC
.....(((((..(((.((((......)))).))).(((......))).................))))).(((((((.((....))...)))))))... (-16.31 = -16.48 +   0.17)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 10:56:53 2006