miRNA display CGI


Results 1 - 20 of 23 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
11579 5' -56.8 NC_003085.1 + 40319 0.66 0.616395
Target:  5'- aCCUC-GCCGgcaagGGCUGGCGCgugccucagUGGGc -3'
miRNA:   3'- -GGAGcCGGUa----CCGGUCGCGaua------ACCU- -5'
11579 5' -56.8 NC_003085.1 + 29503 0.66 0.594411
Target:  5'- aCCUuggcgCGGCCAUgGGCCAGCacaacGCgaacaUGGGc -3'
miRNA:   3'- -GGA-----GCCGGUA-CCGGUCG-----CGaua--ACCU- -5'
11579 5' -56.8 NC_003085.1 + 35064 0.66 0.594411
Target:  5'- gCCUCGGCCAgcaGCguGCGCa------ -3'
miRNA:   3'- -GGAGCCGGUac-CGguCGCGauaaccu -5'
11579 5' -56.8 NC_003085.1 + 39706 0.66 0.583462
Target:  5'- cUCUCcGCCGUugaGGCgCAGCGCaaggUGGAu -3'
miRNA:   3'- -GGAGcCGGUA---CCG-GUCGCGaua-ACCU- -5'
11579 5' -56.8 NC_003085.1 + 34774 0.66 0.572554
Target:  5'- gCCgUGGCCAUGcaaCCGGCGcCUGUUGa- -3'
miRNA:   3'- -GGaGCCGGUACc--GGUCGC-GAUAACcu -5'
11579 5' -56.8 NC_003085.1 + 40628 0.66 0.561695
Target:  5'- aCCgCGGCCGUcaccGuGCCGuCGUUGUUGGGg -3'
miRNA:   3'- -GGaGCCGGUA----C-CGGUcGCGAUAACCU- -5'
11579 5' -56.8 NC_003085.1 + 18045 0.67 0.550893
Target:  5'- cCCUgCGGCCcgcgcuGCCGGCGCUucaggUGGc -3'
miRNA:   3'- -GGA-GCCGGuac---CGGUCGCGAua---ACCu -5'
11579 5' -56.8 NC_003085.1 + 24447 0.67 0.540155
Target:  5'- aCCgCGcGCUGUGGCCcuucuGGCGCUcgcaggUGGAg -3'
miRNA:   3'- -GGaGC-CGGUACCGG-----UCGCGAua----ACCU- -5'
11579 5' -56.8 NC_003085.1 + 20341 0.67 0.540155
Target:  5'- cUCUgGGCCAcGGCgccuCAGCGCg---GGAg -3'
miRNA:   3'- -GGAgCCGGUaCCG----GUCGCGauaaCCU- -5'
11579 5' -56.8 NC_003085.1 + 39225 0.67 0.529489
Target:  5'- cCCUCGGCCA-GGCUacGGCGUa------ -3'
miRNA:   3'- -GGAGCCGGUaCCGG--UCGCGauaaccu -5'
11579 5' -56.8 NC_003085.1 + 10475 0.67 0.508397
Target:  5'- cCCUCGGC--UGGCCgaccugcugcgcGGCGCac-UGGAg -3'
miRNA:   3'- -GGAGCCGguACCGG------------UCGCGauaACCU- -5'
11579 5' -56.8 NC_003085.1 + 28228 0.67 0.508397
Target:  5'- -gUCGGCCAUGGguggcggCAGCGgUAcUUGGGa -3'
miRNA:   3'- ggAGCCGGUACCg------GUCGCgAU-AACCU- -5'
11579 5' -56.8 NC_003085.1 + 462 0.67 0.497985
Target:  5'- ---gGGCCA--GCCGGCGCUGUUGc- -3'
miRNA:   3'- ggagCCGGUacCGGUCGCGAUAACcu -5'
11579 5' -56.8 NC_003085.1 + 26229 0.67 0.497985
Target:  5'- cCCUCGGCCAggauaUGGUgcGCGaCUAccagUGGAc -3'
miRNA:   3'- -GGAGCCGGU-----ACCGguCGC-GAUa---ACCU- -5'
11579 5' -56.8 NC_003085.1 + 7213 0.68 0.487669
Target:  5'- cCUUCGGCauguggAUGGCgCAGCGCUGccccuacGGAc -3'
miRNA:   3'- -GGAGCCGg-----UACCG-GUCGCGAUaa-----CCU- -5'
11579 5' -56.8 NC_003085.1 + 23418 0.68 0.477454
Target:  5'- gCCUCGGC---GGCCGGCgGCgcUUGGc -3'
miRNA:   3'- -GGAGCCGguaCCGGUCG-CGauAACCu -5'
11579 5' -56.8 NC_003085.1 + 42549 0.69 0.418563
Target:  5'- gCCUCGGCCAgcgcgcgGGCgAGgGCUGa---- -3'
miRNA:   3'- -GGAGCCGGUa------CCGgUCgCGAUaaccu -5'
11579 5' -56.8 NC_003085.1 + 12817 0.7 0.373001
Target:  5'- cCCUgaCGGUCcgGGCgGauGCGCUGUUGGc -3'
miRNA:   3'- -GGA--GCCGGuaCCGgU--CGCGAUAACCu -5'
11579 5' -56.8 NC_003085.1 + 9735 0.7 0.355744
Target:  5'- uCCUCGGCguCAUGGaguCCagGGCGCgcUUGGAa -3'
miRNA:   3'- -GGAGCCG--GUACC---GG--UCGCGauAACCU- -5'
11579 5' -56.8 NC_003085.1 + 27598 0.72 0.292456
Target:  5'- gUUCGGCCAccuucGGCCuGCGCggugugUGGAg -3'
miRNA:   3'- gGAGCCGGUa----CCGGuCGCGaua---ACCU- -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.