miRNA display CGI


Results 1 - 18 of 18 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
23485 3' -50.9 NC_005259.1 + 42042 0.66 0.943943
Target:  5'- gGUCgACUGCGCuGUccucgGggUGgGCGGCu -3'
miRNA:   3'- aUAGgUGGCGUG-CAa----CuuACaCGUCG- -5'
23485 3' -50.9 NC_005259.1 + 27855 0.66 0.943943
Target:  5'- gGUCgcgCGCCGUACGaccgcccucUUGggUGUGCAc- -3'
miRNA:   3'- aUAG---GUGGCGUGC---------AACuuACACGUcg -5'
23485 3' -50.9 NC_005259.1 + 42189 0.66 0.943943
Target:  5'- gUAUCCGCUGCGCGccgucgcgaUGGAUGcccGCcGCg -3'
miRNA:   3'- -AUAGGUGGCGUGCa--------ACUUACa--CGuCG- -5'
23485 3' -50.9 NC_005259.1 + 64754 0.66 0.938836
Target:  5'- --cCCACCGCGCcucgcGAcgGUGCgccucGGCg -3'
miRNA:   3'- auaGGUGGCGUGcaa--CUuaCACG-----UCG- -5'
23485 3' -50.9 NC_005259.1 + 35859 0.66 0.938836
Target:  5'- gGUCCGCCGCcGCGUccacc--GCAGCc -3'
miRNA:   3'- aUAGGUGGCG-UGCAacuuacaCGUCG- -5'
23485 3' -50.9 NC_005259.1 + 66079 0.66 0.927752
Target:  5'- --gCCACacaguGCACGccUGAugGUGCAGCg -3'
miRNA:   3'- auaGGUGg----CGUGCa-ACUuaCACGUCG- -5'
23485 3' -50.9 NC_005259.1 + 31764 0.66 0.915502
Target:  5'- --cCCACCGCccCGUcaucGAUGUGCuGCg -3'
miRNA:   3'- auaGGUGGCGu-GCAac--UUACACGuCG- -5'
23485 3' -50.9 NC_005259.1 + 48463 0.66 0.915502
Target:  5'- -uUCCACCGCGCGccGggUcgcGU-CGGCc -3'
miRNA:   3'- auAGGUGGCGUGCaaCuuA---CAcGUCG- -5'
23485 3' -50.9 NC_005259.1 + 56236 0.67 0.902094
Target:  5'- gUcgCCGCCGacCACGUUGGGaucgGCGGCc -3'
miRNA:   3'- -AuaGGUGGC--GUGCAACUUaca-CGUCG- -5'
23485 3' -50.9 NC_005259.1 + 47682 0.67 0.902094
Target:  5'- --gCCACCuuuuGCAUgcccgGUUGGAUGcGCGGCa -3'
miRNA:   3'- auaGGUGG----CGUG-----CAACUUACaCGUCG- -5'
23485 3' -50.9 NC_005259.1 + 769 0.68 0.871905
Target:  5'- cGUCCACCGCGCc--GAg---GCGGCu -3'
miRNA:   3'- aUAGGUGGCGUGcaaCUuacaCGUCG- -5'
23485 3' -50.9 NC_005259.1 + 6271 0.68 0.863687
Target:  5'- --gCCGCCGCGCcuaccucgugGUcGAGUgGUGCGGUa -3'
miRNA:   3'- auaGGUGGCGUG----------CAaCUUA-CACGUCG- -5'
23485 3' -50.9 NC_005259.1 + 2534 0.69 0.818951
Target:  5'- --gCCACCGCGCGcaUUGGAcagaucGCGGCg -3'
miRNA:   3'- auaGGUGGCGUGC--AACUUaca---CGUCG- -5'
23485 3' -50.9 NC_005259.1 + 4438 0.69 0.799537
Target:  5'- gGUCgaGCCGCcCGUgcGAGUGgGCAGCg -3'
miRNA:   3'- aUAGg-UGGCGuGCAa-CUUACaCGUCG- -5'
23485 3' -50.9 NC_005259.1 + 47829 0.71 0.726401
Target:  5'- --gCCACCGCugcCGcUGAcgGUGCgAGCu -3'
miRNA:   3'- auaGGUGGCGu--GCaACUuaCACG-UCG- -5'
23485 3' -50.9 NC_005259.1 + 33408 0.71 0.714357
Target:  5'- gUGUCCACCGCGCGUacgccucccagcGCGGCu -3'
miRNA:   3'- -AUAGGUGGCGUGCAacuuaca-----CGUCG- -5'
23485 3' -50.9 NC_005259.1 + 4501 0.71 0.682154
Target:  5'- aUcgCCACCGCGCcggGAGUGgcgcugcGCGGCa -3'
miRNA:   3'- -AuaGGUGGCGUGcaaCUUACa------CGUCG- -5'
23485 3' -50.9 NC_005259.1 + 26176 0.73 0.58074
Target:  5'- cGUCCugUGCGaucuccaGAAUGUGCGGCa -3'
miRNA:   3'- aUAGGugGCGUgcaa---CUUACACGUCG- -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.