miRNA display CGI


Results 1 - 20 of 30 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
19225 3' -55.9 NC_004684.1 + 49201 0.66 0.747663
Target:  5'- gGcCUGcucGGUcGGCCAGUcGGUCGGUGc -3'
miRNA:   3'- aCaGGC---UCAaCCGGUCGuCCAGCUAC- -5'
19225 3' -55.9 NC_004684.1 + 64137 0.66 0.737341
Target:  5'- aUGUCCGGccaGGCCAGCAgcguGGUCu--- -3'
miRNA:   3'- -ACAGGCUcaaCCGGUCGU----CCAGcuac -5'
19225 3' -55.9 NC_004684.1 + 54616 0.66 0.726916
Target:  5'- uUGUCCucGUUGGCC-GCAGG-CGc-- -3'
miRNA:   3'- -ACAGGcuCAACCGGuCGUCCaGCuac -5'
19225 3' -55.9 NC_004684.1 + 39165 0.66 0.726916
Target:  5'- gUGcUCCGGGUgggcGGCCAgguagcGCAGGcuggCGGUGc -3'
miRNA:   3'- -AC-AGGCUCAa---CCGGU------CGUCCa---GCUAC- -5'
19225 3' -55.9 NC_004684.1 + 65948 0.66 0.7058
Target:  5'- gGUCCaGAGUgugcaccuucgUGGaCAGCGGGUCGc-- -3'
miRNA:   3'- aCAGG-CUCA-----------ACCgGUCGUCCAGCuac -5'
19225 3' -55.9 NC_004684.1 + 2648 0.67 0.673626
Target:  5'- --aCC-AGcucGGCCAGCAGGUCGGc- -3'
miRNA:   3'- acaGGcUCaa-CCGGUCGUCCAGCUac -5'
19225 3' -55.9 NC_004684.1 + 53471 0.67 0.630238
Target:  5'- --aCCGgcaacggguGGUUGGCCAgGUAGGcgUCGAUGg -3'
miRNA:   3'- acaGGC---------UCAACCGGU-CGUCC--AGCUAC- -5'
19225 3' -55.9 NC_004684.1 + 50545 0.67 0.630238
Target:  5'- aUGgCUGAGUUGGCCuuuCGuGGUUGGUGg -3'
miRNA:   3'- -ACaGGCUCAACCGGuc-GU-CCAGCUAC- -5'
19225 3' -55.9 NC_004684.1 + 59294 0.68 0.619371
Target:  5'- cUG-CCG-GUgggcaGGCCGGUgucgGGGUCGAUGg -3'
miRNA:   3'- -ACaGGCuCAa----CCGGUCG----UCCAGCUAC- -5'
19225 3' -55.9 NC_004684.1 + 48588 0.68 0.608515
Target:  5'- --aUgGAGUUGGCCagcAGCAGGUCa--- -3'
miRNA:   3'- acaGgCUCAACCGG---UCGUCCAGcuac -5'
19225 3' -55.9 NC_004684.1 + 65395 0.68 0.597678
Target:  5'- gGUCC-AGcgcccaGGCCAGCAGuGUCGAg- -3'
miRNA:   3'- aCAGGcUCaa----CCGGUCGUC-CAGCUac -5'
19225 3' -55.9 NC_004684.1 + 28000 0.68 0.5761
Target:  5'- cGUCUGGGUgau---GCAGGUCGAUGg -3'
miRNA:   3'- aCAGGCUCAaccgguCGUCCAGCUAC- -5'
19225 3' -55.9 NC_004684.1 + 527 0.69 0.554701
Target:  5'- cGgcgCUGAcGUgcUGGCCAGCGcGGUCGAg- -3'
miRNA:   3'- aCa--GGCU-CA--ACCGGUCGU-CCAGCUac -5'
19225 3' -55.9 NC_004684.1 + 43863 0.69 0.544088
Target:  5'- cG-CCGAgGUUGGUgAGCAGGcUGGUGa -3'
miRNA:   3'- aCaGGCU-CAACCGgUCGUCCaGCUAC- -5'
19225 3' -55.9 NC_004684.1 + 22782 0.69 0.532491
Target:  5'- aUGUUCGAGggcgUGGCUGGCGacuucaacacgcuGGUCGAc- -3'
miRNA:   3'- -ACAGGCUCa---ACCGGUCGU-------------CCAGCUac -5'
19225 3' -55.9 NC_004684.1 + 19025 0.69 0.512677
Target:  5'- -cUCCGGGUUGGCaccggcggccgGGCAGGUC-AUGa -3'
miRNA:   3'- acAGGCUCAACCGg----------UCGUCCAGcUAC- -5'
19225 3' -55.9 NC_004684.1 + 58549 0.69 0.512677
Target:  5'- cGUCCaGGcccaUGGCCAGuCGGG-CGAUGg -3'
miRNA:   3'- aCAGGcUCa---ACCGGUC-GUCCaGCUAC- -5'
19225 3' -55.9 NC_004684.1 + 52170 0.7 0.502371
Target:  5'- cUGUCCGGGUaggcgaaccgGGCCAGUAGGaccguaUCGGc- -3'
miRNA:   3'- -ACAGGCUCAa---------CCGGUCGUCC------AGCUac -5'
19225 3' -55.9 NC_004684.1 + 2799 0.7 0.502371
Target:  5'- aGUUCGAGUUcgccgaGGCCAagaagcuccugcGCGGGUgGGUGg -3'
miRNA:   3'- aCAGGCUCAA------CCGGU------------CGUCCAgCUAC- -5'
19225 3' -55.9 NC_004684.1 + 64939 0.7 0.492156
Target:  5'- cG-CCGAGcUGGCCgcccaGGCGGG-CGAUGu -3'
miRNA:   3'- aCaGGCUCaACCGG-----UCGUCCaGCUAC- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.