miRNA display CGI


Results 1 - 20 of 27 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
23320 5' -56.8 NC_005259.1 + 59129 0.66 0.721688
Target:  5'- cGAGCagaGCGUCGAGC-UCGGCaGC-GGUg -3'
miRNA:   3'- -CUCG---UGCAGCUUGuGGCCGcUGaCCA- -5'
23320 5' -56.8 NC_005259.1 + 7336 0.66 0.721688
Target:  5'- cGAGUACGUCGAG-GCCGGacaGACg--- -3'
miRNA:   3'- -CUCGUGCAGCUUgUGGCCg--CUGacca -5'
23320 5' -56.8 NC_005259.1 + 24391 0.66 0.715448
Target:  5'- gGAGUACGUCGAacGCACCgugcucaaugaccucGGCGA--GGa -3'
miRNA:   3'- -CUCGUGCAGCU--UGUGG---------------CCGCUgaCCa -5'
23320 5' -56.8 NC_005259.1 + 38924 0.66 0.690229
Target:  5'- uGAGCACGUCGGuguugcuguGC-CCGGUGccGCUGc- -3'
miRNA:   3'- -CUCGUGCAGCU---------UGuGGCCGC--UGACca -5'
23320 5' -56.8 NC_005259.1 + 50119 0.66 0.690229
Target:  5'- -cGUACGcaCGGGCACCGccacacGCGAUUGGUu -3'
miRNA:   3'- cuCGUGCa-GCUUGUGGC------CGCUGACCA- -5'
23320 5' -56.8 NC_005259.1 + 46154 0.66 0.679622
Target:  5'- cGAGCAUGUCGAAUACCGcuuGCccGCcGGg -3'
miRNA:   3'- -CUCGUGCAGCUUGUGGC---CGc-UGaCCa -5'
23320 5' -56.8 NC_005259.1 + 41712 0.67 0.658291
Target:  5'- cAGC-CGcCGcAUACCGGCGGCgGGg -3'
miRNA:   3'- cUCGuGCaGCuUGUGGCCGCUGaCCa -5'
23320 5' -56.8 NC_005259.1 + 37076 0.67 0.647586
Target:  5'- --cCACGUCcacGCACCGGCGG-UGGUg -3'
miRNA:   3'- cucGUGCAGcu-UGUGGCCGCUgACCA- -5'
23320 5' -56.8 NC_005259.1 + 32878 0.67 0.636868
Target:  5'- -cGCGCGgugaUCGAuuCACCGGgGGCgagGGUg -3'
miRNA:   3'- cuCGUGC----AGCUu-GUGGCCgCUGa--CCA- -5'
23320 5' -56.8 NC_005259.1 + 65984 0.67 0.626145
Target:  5'- aGGCGCGcCGAGCAgCCGcuCGACgUGGUg -3'
miRNA:   3'- cUCGUGCaGCUUGU-GGCc-GCUG-ACCA- -5'
23320 5' -56.8 NC_005259.1 + 66456 0.67 0.615427
Target:  5'- -uGC-CGUCGAAC-UCGGUGacGCUGGUg -3'
miRNA:   3'- cuCGuGCAGCUUGuGGCCGC--UGACCA- -5'
23320 5' -56.8 NC_005259.1 + 64027 0.67 0.615427
Target:  5'- aGGCGCGgCGAG-GCCGGUGACcGGa -3'
miRNA:   3'- cUCGUGCaGCUUgUGGCCGCUGaCCa -5'
23320 5' -56.8 NC_005259.1 + 42175 0.67 0.612214
Target:  5'- cAGCACGUCGAacuguauccgcugcGCGCCGucGCGA-UGGa -3'
miRNA:   3'- cUCGUGCAGCU--------------UGUGGC--CGCUgACCa -5'
23320 5' -56.8 NC_005259.1 + 63670 0.68 0.594042
Target:  5'- cGGaCACcUCGGGCACCGGCGcGCcGGg -3'
miRNA:   3'- cUC-GUGcAGCUUGUGGCCGC-UGaCCa -5'
23320 5' -56.8 NC_005259.1 + 62989 0.68 0.592976
Target:  5'- -cGCGCGUCGAcucgaugGCAUUGGCaGGCUGuGg -3'
miRNA:   3'- cuCGUGCAGCU-------UGUGGCCG-CUGAC-Ca -5'
23320 5' -56.8 NC_005259.1 + 48594 0.68 0.583392
Target:  5'- uGAGCuuGUCGAGCGCgGGCG-CUa-- -3'
miRNA:   3'- -CUCGugCAGCUUGUGgCCGCuGAcca -5'
23320 5' -56.8 NC_005259.1 + 58965 0.68 0.562213
Target:  5'- cAGCAgGUCGGGCAgcucgUCGGCGAC-GGc -3'
miRNA:   3'- cUCGUgCAGCUUGU-----GGCCGCUGaCCa -5'
23320 5' -56.8 NC_005259.1 + 39833 0.69 0.510318
Target:  5'- uGAGCGCGUUGG---UCGGCGACaGGa -3'
miRNA:   3'- -CUCGUGCAGCUuguGGCCGCUGaCCa -5'
23320 5' -56.8 NC_005259.1 + 67445 0.69 0.500171
Target:  5'- uGAGCGCGUCGGGgAugcccuuuUCGGCGAUggcgGGg -3'
miRNA:   3'- -CUCGUGCAGCUUgU--------GGCCGCUGa---CCa -5'
23320 5' -56.8 NC_005259.1 + 50985 0.69 0.500171
Target:  5'- cGAGCgguGUCGAGuCACCGGCGAaaaaccggacgUUGGUc -3'
miRNA:   3'- -CUCGug-CAGCUU-GUGGCCGCU-----------GACCA- -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.