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
27018 5' -57.6 NC_005832.1 + 35700 0.66 0.766706
Target:  5'- cGCcGUGGGCGccuCUGCgUCUAGguGGg -3'
miRNA:   3'- -UGcCACCUGUu--GACGgAGGUCguCCg -5'
27018 5' -57.6 NC_005832.1 + 75349 0.66 0.766706
Target:  5'- gGCGGcguaGGAUccccuccuGACcuUGCCcugCCAGUAGGCa -3'
miRNA:   3'- -UGCCa---CCUG--------UUG--ACGGa--GGUCGUCCG- -5'
27018 5' -57.6 NC_005832.1 + 5915 0.66 0.766706
Target:  5'- gACGGggacgaGGGCAACcucuaCCUCCcGCAGGg -3'
miRNA:   3'- -UGCCa-----CCUGUUGac---GGAGGuCGUCCg -5'
27018 5' -57.6 NC_005832.1 + 54384 0.66 0.757009
Target:  5'- cACGGUGGACAGg-GUCggCCc-CAGGCc -3'
miRNA:   3'- -UGCCACCUGUUgaCGGa-GGucGUCCG- -5'
27018 5' -57.6 NC_005832.1 + 10814 0.66 0.756033
Target:  5'- -aGGUGGGuCAugccGgUGCCUCcCAGCAccuccccGGCa -3'
miRNA:   3'- ugCCACCU-GU----UgACGGAG-GUCGU-------CCG- -5'
27018 5' -57.6 NC_005832.1 + 62102 0.66 0.747198
Target:  5'- gACGGggaUGGAC-ACgggGCCggucCCAGuUAGGCa -3'
miRNA:   3'- -UGCC---ACCUGuUGa--CGGa---GGUC-GUCCG- -5'
27018 5' -57.6 NC_005832.1 + 39630 0.67 0.686468
Target:  5'- uCGGUGGACGugauaCUUCCAGuCGGGUu -3'
miRNA:   3'- uGCCACCUGUugac-GGAGGUC-GUCCG- -5'
27018 5' -57.6 NC_005832.1 + 53341 0.67 0.676126
Target:  5'- aACGuGUGGAaGGCUGCC-CUGGCcuacaGGGCc -3'
miRNA:   3'- -UGC-CACCUgUUGACGGaGGUCG-----UCCG- -5'
27018 5' -57.6 NC_005832.1 + 71158 0.68 0.65534
Target:  5'- -gGGcUGGAgAg--GCuCUCCGGCGGGCa -3'
miRNA:   3'- ugCC-ACCUgUugaCG-GAGGUCGUCCG- -5'
27018 5' -57.6 NC_005832.1 + 11888 0.68 0.644914
Target:  5'- gGCGGUG-AgGGCUccGUCUCCcauAGCGGGCc -3'
miRNA:   3'- -UGCCACcUgUUGA--CGGAGG---UCGUCCG- -5'
27018 5' -57.6 NC_005832.1 + 26600 0.68 0.603187
Target:  5'- -aGGUGG-CGAggGCCgCCGGguGGCu -3'
miRNA:   3'- ugCCACCuGUUgaCGGaGGUCguCCG- -5'
27018 5' -57.6 NC_005832.1 + 39796 0.69 0.592791
Target:  5'- aGCGGUGGGucCAACcgGUC-CUAGCGGGg -3'
miRNA:   3'- -UGCCACCU--GUUGa-CGGaGGUCGUCCg -5'
27018 5' -57.6 NC_005832.1 + 43270 0.69 0.551578
Target:  5'- gACGGUGGcCAGCacgGCCUCCcu-GGGUg -3'
miRNA:   3'- -UGCCACCuGUUGa--CGGAGGucgUCCG- -5'
27018 5' -57.6 NC_005832.1 + 66821 0.69 0.541402
Target:  5'- cACGGUcccGGccGCGGCcuggGCUUCCAGCAGaGCc -3'
miRNA:   3'- -UGCCA---CC--UGUUGa---CGGAGGUCGUC-CG- -5'
27018 5' -57.6 NC_005832.1 + 7589 0.7 0.531289
Target:  5'- cACGGUGGGaaaGACUgcgaGCCUCgAGCuGGa -3'
miRNA:   3'- -UGCCACCUg--UUGA----CGGAGgUCGuCCg -5'
27018 5' -57.6 NC_005832.1 + 66374 0.7 0.531289
Target:  5'- gACGG-GGGCAugUcauaGCCUCCAG--GGCa -3'
miRNA:   3'- -UGCCaCCUGUugA----CGGAGGUCguCCG- -5'
27018 5' -57.6 NC_005832.1 + 46637 0.7 0.501388
Target:  5'- gAUGGUGGGCAugACUcCCUUUuucguGGCGGGCu -3'
miRNA:   3'- -UGCCACCUGU--UGAcGGAGG-----UCGUCCG- -5'
27018 5' -57.6 NC_005832.1 + 50935 0.71 0.453307
Target:  5'- gACGGUaGGACugGAUcgGCCggUCCAGuCAGGCg -3'
miRNA:   3'- -UGCCA-CCUG--UUGa-CGG--AGGUC-GUCCG- -5'
27018 5' -57.6 NC_005832.1 + 34278 0.73 0.370279
Target:  5'- uGCGGUGGACAugUuCCUCUugcugauccacucGUAGGCa -3'
miRNA:   3'- -UGCCACCUGUugAcGGAGGu------------CGUCCG- -5'
27018 5' -57.6 NC_005832.1 + 10596 0.73 0.333611
Target:  5'- -gGGUGGAgGAgaGCCaCCGGCAGGg -3'
miRNA:   3'- ugCCACCUgUUgaCGGaGGUCGUCCg -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.