miRNA display CGI


Results 1 - 20 of 30 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
23490 5' -54.9 NC_005259.1 + 11720 0.76 0.282973
Target:  5'- gGGCcacGGCGAGGcucAGAUCGAUGgUGCGCa -3'
miRNA:   3'- -CCG---CCGCUCC---UUUAGCUACaGCGCGc -5'
23490 5' -54.9 NC_005259.1 + 35215 0.76 0.282973
Target:  5'- aGGCGGCGAGGAAcgUGAccgccaCGCGUGc -3'
miRNA:   3'- -CCGCCGCUCCUUuaGCUaca---GCGCGC- -5'
23490 5' -54.9 NC_005259.1 + 42612 0.74 0.376279
Target:  5'- cGGCGGUcauGAGccCGAUGUCGCGCGu -3'
miRNA:   3'- -CCGCCGcucCUUuaGCUACAGCGCGC- -5'
23490 5' -54.9 NC_005259.1 + 9498 0.72 0.488235
Target:  5'- --aGGCGAGGAAcgUGcgcucGUCGCGCGc -3'
miRNA:   3'- ccgCCGCUCCUUuaGCua---CAGCGCGC- -5'
23490 5' -54.9 NC_005259.1 + 60621 0.72 0.498282
Target:  5'- aGGCGGCGAGGu-GUgGAacUG-CGCGUa -3'
miRNA:   3'- -CCGCCGCUCCuuUAgCU--ACaGCGCGc -5'
23490 5' -54.9 NC_005259.1 + 17618 0.71 0.560287
Target:  5'- gGGCGGCGAGGA---CGGUuUCGCa-- -3'
miRNA:   3'- -CCGCCGCUCCUuuaGCUAcAGCGcgc -5'
23490 5' -54.9 NC_005259.1 + 28008 0.7 0.581463
Target:  5'- cGgGGCGGGGucgcCGggGUUGCGCGc -3'
miRNA:   3'- cCgCCGCUCCuuuaGCuaCAGCGCGC- -5'
23490 5' -54.9 NC_005259.1 + 61033 0.7 0.592115
Target:  5'- uGGCGGCGAGG---UCGAccGaCGgGCGg -3'
miRNA:   3'- -CCGCCGCUCCuuuAGCUa-CaGCgCGC- -5'
23490 5' -54.9 NC_005259.1 + 23290 0.7 0.613507
Target:  5'- cGCGGUGGuuGGguAUCGggGUCcgGCGCGg -3'
miRNA:   3'- cCGCCGCU--CCuuUAGCuaCAG--CGCGC- -5'
23490 5' -54.9 NC_005259.1 + 41726 0.7 0.617795
Target:  5'- cGGCGGCGGGGAGGacaccgccUCGAcacGcucgaccucgcagccUUGCGCGa -3'
miRNA:   3'- -CCGCCGCUCCUUU--------AGCUa--C---------------AGCGCGC- -5'
23490 5' -54.9 NC_005259.1 + 43066 0.69 0.62423
Target:  5'- gGGuCGGUGAGGAAcgCGAgcccGUUGcCGCc -3'
miRNA:   3'- -CC-GCCGCUCCUUuaGCUa---CAGC-GCGc -5'
23490 5' -54.9 NC_005259.1 + 27409 0.69 0.631741
Target:  5'- cGGCGGCagcucggugcccgcGAGGAAuuggcucacgcGUCGcaugagcucGUCGCGCGg -3'
miRNA:   3'- -CCGCCG--------------CUCCUU-----------UAGCua-------CAGCGCGC- -5'
23490 5' -54.9 NC_005259.1 + 17182 0.68 0.688383
Target:  5'- aGGCGGCGcAGGAAGccgCGcGUGagGCGgGu -3'
miRNA:   3'- -CCGCCGC-UCCUUUa--GC-UACagCGCgC- -5'
23490 5' -54.9 NC_005259.1 + 41102 0.68 0.719899
Target:  5'- cGGCGGuCGGcGGuauGA-CGAUGUCG-GCGg -3'
miRNA:   3'- -CCGCC-GCU-CCu--UUaGCUACAGCgCGC- -5'
23490 5' -54.9 NC_005259.1 + 57443 0.68 0.719899
Target:  5'- cGCGGCGAGG---UUGGUGcgaCGCuGCGg -3'
miRNA:   3'- cCGCCGCUCCuuuAGCUACa--GCG-CGC- -5'
23490 5' -54.9 NC_005259.1 + 28238 0.68 0.719899
Target:  5'- cGGCGGCGGGGugGUCGAUcacgauccaUUGCcCGa -3'
miRNA:   3'- -CCGCCGCUCCuuUAGCUAc--------AGCGcGC- -5'
23490 5' -54.9 NC_005259.1 + 27836 0.68 0.719899
Target:  5'- uGC-GCGAGGuAGgccgCGAgGUCGCGCGc -3'
miRNA:   3'- cCGcCGCUCCuUUa---GCUaCAGCGCGC- -5'
23490 5' -54.9 NC_005259.1 + 46320 0.68 0.730254
Target:  5'- cGCGGCcccGAGGG--UCGc-GUCGCGCa -3'
miRNA:   3'- cCGCCG---CUCCUuuAGCuaCAGCGCGc -5'
23490 5' -54.9 NC_005259.1 + 67469 0.67 0.740514
Target:  5'- cGGCgauGGCGGGGAuAUUGAUGacUCGC-Ca -3'
miRNA:   3'- -CCG---CCGCUCCUuUAGCUAC--AGCGcGc -5'
23490 5' -54.9 NC_005259.1 + 6655 0.67 0.750672
Target:  5'- -aCGGuCGAGGguGUCcGUGaCGCGCGa -3'
miRNA:   3'- ccGCC-GCUCCuuUAGcUACaGCGCGC- -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.