miRNA display CGI


Results 1 - 20 of 40 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
28363 3' -57.3 NC_005946.1 + 59759 0.66 0.826054
Target:  5'- gGuGGACUugAGcUUGGCCACaGCGGCUg -3'
miRNA:   3'- gCuCCUGG--UCaGACUGGUGcCGCUGG- -5'
28363 3' -57.3 NC_005946.1 + 78978 0.66 0.825206
Target:  5'- -cAGGGCCGGg--GGCCACagggcuuGGCGuACCu -3'
miRNA:   3'- gcUCCUGGUCagaCUGGUG-------CCGC-UGG- -5'
28363 3' -57.3 NC_005946.1 + 89760 0.66 0.814891
Target:  5'- aGAGGGUCAGgacCUGgggagugucgggcaGCCAccCGGCGGCCc -3'
miRNA:   3'- gCUCCUGGUCa--GAC--------------UGGU--GCCGCUGG- -5'
28363 3' -57.3 NC_005946.1 + 41498 0.66 0.808763
Target:  5'- --uGGACCuGUgccGCCACGGgGACCc -3'
miRNA:   3'- gcuCCUGGuCAgacUGGUGCCgCUGG- -5'
28363 3' -57.3 NC_005946.1 + 73533 0.66 0.806997
Target:  5'- cCGAGGACCccguggcGGaUCUGGCCaagcacguccccgACGGCaGGuCCg -3'
miRNA:   3'- -GCUCCUGG-------UC-AGACUGG-------------UGCCG-CU-GG- -5'
28363 3' -57.3 NC_005946.1 + 79245 0.66 0.799872
Target:  5'- aGAGGACCc------UCGCGGCGGCCu -3'
miRNA:   3'- gCUCCUGGucagacuGGUGCCGCUGG- -5'
28363 3' -57.3 NC_005946.1 + 49364 0.66 0.790829
Target:  5'- nCGAGGACCgGGUCgUGAgUCAggaGGCaGGCCu -3'
miRNA:   3'- -GCUCCUGG-UCAG-ACU-GGUg--CCG-CUGG- -5'
28363 3' -57.3 NC_005946.1 + 67553 0.66 0.790829
Target:  5'- gGAGGACCGG-CUgGGCCcugcACuGGUGGCa -3'
miRNA:   3'- gCUCCUGGUCaGA-CUGG----UG-CCGCUGg -5'
28363 3' -57.3 NC_005946.1 + 63294 0.67 0.781643
Target:  5'- aGuGGACCacccccacAGagUGAgCgGCGGCGGCCg -3'
miRNA:   3'- gCuCCUGG--------UCagACU-GgUGCCGCUGG- -5'
28363 3' -57.3 NC_005946.1 + 69406 0.67 0.780717
Target:  5'- gGAGGAaagacugaagacaCCGccUUGGCCACGGCcACCg -3'
miRNA:   3'- gCUCCU-------------GGUcaGACUGGUGCCGcUGG- -5'
28363 3' -57.3 NC_005946.1 + 103861 0.67 0.772322
Target:  5'- cCGAGGACCuccgccaUCUca-CGCaGGCGACCg -3'
miRNA:   3'- -GCUCCUGGuc-----AGAcugGUG-CCGCUGG- -5'
28363 3' -57.3 NC_005946.1 + 102995 0.67 0.772322
Target:  5'- gGAGGGCCGGga-GA-CACGGgGACg -3'
miRNA:   3'- gCUCCUGGUCagaCUgGUGCCgCUGg -5'
28363 3' -57.3 NC_005946.1 + 74222 0.67 0.772322
Target:  5'- uGuGGaACgAGUUcccGGCCAUGGUGGCCa -3'
miRNA:   3'- gCuCC-UGgUCAGa--CUGGUGCCGCUGG- -5'
28363 3' -57.3 NC_005946.1 + 100911 0.67 0.772322
Target:  5'- aGAGGACagcguguccuCGGUCuUGGCCggucugACGGCuGCCa -3'
miRNA:   3'- gCUCCUG----------GUCAG-ACUGG------UGCCGcUGG- -5'
28363 3' -57.3 NC_005946.1 + 94253 0.67 0.762876
Target:  5'- cCGAGGugUAcUCUGACCccgacAUGGUcGCCg -3'
miRNA:   3'- -GCUCCugGUcAGACUGG-----UGCCGcUGG- -5'
28363 3' -57.3 NC_005946.1 + 1048 0.67 0.753314
Target:  5'- --uGGACC-GUCUGGCC-C-GUGACCg -3'
miRNA:   3'- gcuCCUGGuCAGACUGGuGcCGCUGG- -5'
28363 3' -57.3 NC_005946.1 + 75134 0.67 0.753314
Target:  5'- -cAGGGCCAGgccgGACCugGGa-GCCa -3'
miRNA:   3'- gcUCCUGGUCaga-CUGGugCCgcUGG- -5'
28363 3' -57.3 NC_005946.1 + 80380 0.67 0.753314
Target:  5'- aGAGGACCAGcCUGucccuGCCuuCGGacaggGGCCc -3'
miRNA:   3'- gCUCCUGGUCaGAC-----UGGu-GCCg----CUGG- -5'
28363 3' -57.3 NC_005946.1 + 22181 0.67 0.743644
Target:  5'- --cGGGCUGGcugccCUGGCCGCGGCcgcuccccuGACCg -3'
miRNA:   3'- gcuCCUGGUCa----GACUGGUGCCG---------CUGG- -5'
28363 3' -57.3 NC_005946.1 + 42150 0.67 0.733877
Target:  5'- aCGGGGACC-GUCUGcgcguCCAUGuCGGCUc -3'
miRNA:   3'- -GCUCCUGGuCAGACu----GGUGCcGCUGG- -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.