Locus 1100

Sequence ID 3L_DroMel_CAF1
Location 3,213,599 – 3,213,694
Length 95
Max. P 0.687698
window1703

overview

Window 3

Location 3,213,599 – 3,213,694
Length 95
Sequences 6
Columns 107
Reading direction forward
Mean pairwise identity 76.04
Mean single sequence MFE -20.80
Consensus MFE -12.49
Energy contribution -12.74
Covariance contribution 0.25
Combinations/Pair 1.33
Mean z-score -1.49
Structure conservation index 0.60
SVM decision value 0.32
SVM RNA-class probability 0.687698
Prediction RNA

Download alignment: ClustalW | MAF

>3L_DroMel_CAF1 3213599 95 + 23771897
---CCACC------GCCCCAGCACCGUGGCAACUACAAGGGCAAUAACUACAAUCCGCAUUAUCAUGCCCAGCAU---UCUUCGAUGGCGAGUGGCUCGCACCAUCA
---(((((------(((........(((....).))..(((((......................))))).....---........)))).))))............ ( -21.55)
>DroVir_CAF1 9787 92 + 1
CCGGCGCC------GCCGCAGCAUCGCGGCAAUUACAAGGGCAACAAUUAUAAUCCCAACUAUCAUGCUCAGCAGCAUGCGUCCAUGU---------CGCAUCAUCA
...(((..------(((((......)))))....(((.((((.......(((........)))((((((....)))))).)))).)))---------)))....... ( -24.60)
>DroPse_CAF1 28655 98 + 1
---CCACCACCACAGCCCCAGCACCGGGGCAACUACAAGGGCAACAACUAUAAUCCUAACUAUCACGCCCAGCAC---UCGUCCAUGUCGAACAGCUCC---CAUCA
---...........(((((......)))))........((((........................))))(((..---(((.......)))...)))..---..... ( -20.06)
>DroWil_CAF1 14998 97 + 1
---CCACC---CCAGCAUCAGCAUCGUGGCAAUUACAAGGGAAAUAAUUAUAAUCCGCACUACCAUGCCCAGCAC---UCGUCCAUGUCUAGCAGCUCGCAUCAUC-
---.....---...((....))...(((((.........(((...........)))((.....((((..(.....---..)..))))....)).)).)))......- ( -11.80)
>DroAna_CAF1 8919 95 + 1
---CCACC------GCCCCAGCACCGGGGCAACUACAAGGGUAACAACUACAACCCGCACUAUCAUGCCCAGCAC---UCGUCAAUGGCGAGCGGCUCCCACCACCA
---.....------(((((......)))))........((((..........))))(((......)))..(((.(---((((.....)))))..))).......... ( -26.70)
>DroPer_CAF1 26198 98 + 1
---CCACCACCACAGCCCCAGCACCGGGGCAACUACAAGGGCAACAACUAUAAUCCUAACUAUCACGCCCAGCAC---UCGUCCAUGUCGAACAGCUCC---CAUCA
---...........(((((......)))))........((((........................))))(((..---(((.......)))...)))..---..... ( -20.06)
>consensus
___CCACC______GCCCCAGCACCGGGGCAACUACAAGGGCAACAACUAUAAUCCGAACUAUCAUGCCCAGCAC___UCGUCCAUGUCGAGCAGCUCCCA_CAUCA
..............(((((......)))))........((((........................))))..................................... (-12.49 = -12.74 +   0.25)

alignment

Postscript

secondary structure

Postscript

dotplot

Postscript

Generated by rnazCluster.pl (part of RNAz 1.0) on Mon Dec 4 09:59:02 2006