Locus 5289

Sequence ID 3R_DroMel_CAF1
Location 13,813,747 – 13,813,841
Length 94
Max. P 0.859515
window8629

overview

Window 9

Location 13,813,747 – 13,813,841
Length 94
Sequences 6
Columns 107
Reading direction reverse
Mean pairwise identity 67.48
Mean single sequence MFE -21.40
Consensus MFE -6.18
Energy contribution -6.32
Covariance contribution 0.14
Combinations/Pair 1.46
Mean z-score -2.22
Structure conservation index 0.29
SVM decision value 0.82
SVM RNA-class probability 0.859515
Prediction RNA

Download alignment: ClustalW | MAF

>3R_DroMel_CAF1 13813747 94 - 27905053
--CAUAGCCAUU-GGAUGGCUGGGCGGCCAC---UCCUUACUCGCAUUUCGCUGUCAUUUUUUUUUUUCAUCGGCGAAUGCAUAAUUCUUAUUU----UUUGCU---
--...(((....-((((((((....))))).---)))......(((((.(((((.................)))))))))).............----...)))--- ( -23.93)
>DroVir_CAF1 109822 86 - 1
--U--GGCCGUUCAGAUAUACGAGCUGCCUCGGCACCUUAUUCUCCU------A-------CAUGGGACCACAGCGAAUGCAUAAUUCUUACAU----UUCGCGUGC
--.--(((.((((........)))).)))...((((.......((((------.-------...)))).....(((((................----))))))))) ( -20.99)
>DroSec_CAF1 85708 92 - 1
--CAUAGCCAUU-GGAUGGCCGAAUGGCCAC---UCCUUUCUCCCCUUUCGCUGC-----UCUUAUUUCCUCAGCGAAUGCAUAAUUCUUAUUUU-UUUUUGCU---
--....((....-((((((((....))))).---)))..........(((((((.-----...........))))))).))..............-........--- ( -20.70)
>DroSim_CAF1 87641 93 - 1
--CAUAGCCAUU-GGAUGGCCGAAUGGCCAC---UCCUUUCUCCGCUUUCGCUGC-----UCUUUUUUCCUCAGCGAAUGCAUAAUUCUUAUUUUUUUUUUGCU---
--...(((....-((((((((....))))).---))).......((.(((((((.-----...........))))))).))....................)))--- ( -24.60)
>DroEre_CAF1 83615 89 - 1
CCCAUUGCCAUU-GGAUGGCUGAGCGGCCAC---UCCUUCCUCGCUUUUCGCCA-------GUUUUUUCCUGAGCGAAUGCAUAAUUCUUACUU----UUUGCU---
......((....-((((((((....))))).---)))......((..(((((((-------(.......))).))))).)).............----...)).--- ( -22.80)
>DroAna_CAF1 85481 79 - 1
--UGUUG--GUU-GGCUGACUGGGUGGCAAC---UCCUU---CGCUUUUCCC----------GUUCCUCCUGAGCGAAUGCAUAAUUCUUACUU----UUCGCC---
--..(..--(..-((..(((.(((.(((...---.....---.)))...)))----------)))))..)..)(((((................----))))).--- ( -15.39)
>consensus
__CAUAGCCAUU_GGAUGGCCGAGCGGCCAC___UCCUUACUCGCCUUUCGCUG_______CUUUUUUCCUCAGCGAAUGCAUAAUUCUUACUU____UUUGCU___
......((((((.((....)).)))))).............................................(((((....................))))).... ( -6.18 =  -6.32 +   0.14)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 11:51:10 2006