miRNA display CGI


Results 1 - 20 of 47 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
19025 3' -57 NC_004684.1 + 38617 0.66 0.676051
Target:  5'- gGGugGCauGCCGcuGA-CCUGGAGCGGg -3'
miRNA:   3'- gUCugCG--CGGUcuUUcGGACCUCGCU- -5'
19025 3' -57 NC_004684.1 + 10230 0.66 0.674977
Target:  5'- cCAGGUGCGCgagCAGcuGGCCgugcgcgUGGAGCGGg -3'
miRNA:   3'- -GUCUGCGCG---GUCuuUCGG-------ACCUCGCU- -5'
19025 3' -57 NC_004684.1 + 66859 0.66 0.674977
Target:  5'- cCAGGCcuuCGCCGGGuccAGGCCUugcagcagcuccaGGAGCGu -3'
miRNA:   3'- -GUCUGc--GCGGUCU---UUCGGA-------------CCUCGCu -5'
19025 3' -57 NC_004684.1 + 54261 0.66 0.672828
Target:  5'- gAGGCGCuGCguGGAgaagcugccgcgcuGGCCggUGGGGCGGc -3'
miRNA:   3'- gUCUGCG-CGguCUU--------------UCGG--ACCUCGCU- -5'
19025 3' -57 NC_004684.1 + 57090 0.66 0.671754
Target:  5'- aGGugGcCGCCcgcaugcacuGGaCCUGGAGCGAc -3'
miRNA:   3'- gUCugC-GCGGucuu------UC-GGACCUCGCU- -5'
19025 3' -57 NC_004684.1 + 19553 0.66 0.64371
Target:  5'- cCGGGCgGUGCCAGGucuccGGGCCUGGcGUc- -3'
miRNA:   3'- -GUCUG-CGCGGUCU-----UUCGGACCuCGcu -5'
19025 3' -57 NC_004684.1 + 5181 0.66 0.64371
Target:  5'- aGGugGCGCUGGuuGGCCaGGA-CGGc -3'
miRNA:   3'- gUCugCGCGGUCuuUCGGaCCUcGCU- -5'
19025 3' -57 NC_004684.1 + 43752 0.66 0.632896
Target:  5'- uCAGcaGCgGUGCCAGcAAGGCCgGGAcaGCGAu -3'
miRNA:   3'- -GUC--UG-CGCGGUC-UUUCGGaCCU--CGCU- -5'
19025 3' -57 NC_004684.1 + 28058 0.67 0.622082
Target:  5'- uGGGCG-GCCAaccGGCCUGGGcGCGGc -3'
miRNA:   3'- gUCUGCgCGGUcuuUCGGACCU-CGCU- -5'
19025 3' -57 NC_004684.1 + 64931 0.67 0.611276
Target:  5'- aGGugGCGgCGGuGAGcGCCUGGcgGGCGGu -3'
miRNA:   3'- gUCugCGCgGUC-UUU-CGGACC--UCGCU- -5'
19025 3' -57 NC_004684.1 + 53670 0.67 0.600487
Target:  5'- gCAGGCGCacacggguggGCCGGAAcaccugguuGGCCgaccgguaGGGGCGGa -3'
miRNA:   3'- -GUCUGCG----------CGGUCUU---------UCGGa-------CCUCGCU- -5'
19025 3' -57 NC_004684.1 + 17330 0.67 0.589725
Target:  5'- aAGGCGCagcucgaCCGGuuccuGGCCUGGAGCc- -3'
miRNA:   3'- gUCUGCGc------GGUCuu---UCGGACCUCGcu -5'
19025 3' -57 NC_004684.1 + 18143 0.67 0.589725
Target:  5'- uGGACGCGCC-----GCUgUGGGGCGAc -3'
miRNA:   3'- gUCUGCGCGGucuuuCGG-ACCUCGCU- -5'
19025 3' -57 NC_004684.1 + 44918 0.67 0.578997
Target:  5'- uCGGuGCGCGCCGGguAGUC-GGuGGCGAc -3'
miRNA:   3'- -GUC-UGCGCGGUCuuUCGGaCC-UCGCU- -5'
19025 3' -57 NC_004684.1 + 62501 0.67 0.578997
Target:  5'- cCGGugGCGaCCAGGccGCCUG-AGCc- -3'
miRNA:   3'- -GUCugCGC-GGUCUuuCGGACcUCGcu -5'
19025 3' -57 NC_004684.1 + 7991 0.67 0.567246
Target:  5'- aGGACGC-CUGGAAGGCCUacgacgcGGuaGGCGAg -3'
miRNA:   3'- gUCUGCGcGGUCUUUCGGA-------CC--UCGCU- -5'
19025 3' -57 NC_004684.1 + 48960 0.68 0.557676
Target:  5'- -cGGCGgGCgGGguGGCC-GGGGCGGg -3'
miRNA:   3'- guCUGCgCGgUCuuUCGGaCCUCGCU- -5'
19025 3' -57 NC_004684.1 + 55388 0.68 0.547098
Target:  5'- cCGGAuCGCGCCGGAAAccuucgcuGCgCUGGcGGUGGa -3'
miRNA:   3'- -GUCU-GCGCGGUCUUU--------CG-GACC-UCGCU- -5'
19025 3' -57 NC_004684.1 + 33615 0.68 0.547098
Target:  5'- cCAGGCaGCGCCGGAucGUC-GG-GCGGc -3'
miRNA:   3'- -GUCUG-CGCGGUCUuuCGGaCCuCGCU- -5'
19025 3' -57 NC_004684.1 + 56441 0.68 0.546044
Target:  5'- gAGGC-CGCCAccacGAuccucaaAGGCCUGGAGCa- -3'
miRNA:   3'- gUCUGcGCGGU----CU-------UUCGGACCUCGcu -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.