miRNA display CGI


Results 1 - 20 of 36 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
18235 3' -55.7 NC_004680.1 + 18449 0.66 0.740476
Target:  5'- cCGCGGCGGCGUgcauaCGGuUGAGAACacgcugGAGg -3'
miRNA:   3'- -GCGCUGUUGCG-----GCC-GCUCUUGca----CUC- -5'
18235 3' -55.7 NC_004680.1 + 12212 0.66 0.740476
Target:  5'- cCGCGGCAGCGuucCCcGCGAGcgguuccgguGGCGUGGu -3'
miRNA:   3'- -GCGCUGUUGC---GGcCGCUC----------UUGCACUc -5'
18235 3' -55.7 NC_004680.1 + 58412 0.66 0.730144
Target:  5'- uGCGugGaguagGCGCCGGCaGGuGAGCcaGUGGGc -3'
miRNA:   3'- gCGCugU-----UGCGGCCG-CU-CUUG--CACUC- -5'
18235 3' -55.7 NC_004680.1 + 27276 0.66 0.719717
Target:  5'- gGCGGCGACGCUGccgcCGAGAACcucgccaaGUGGu -3'
miRNA:   3'- gCGCUGUUGCGGCc---GCUCUUG--------CACUc -5'
18235 3' -55.7 NC_004680.1 + 38231 0.66 0.716573
Target:  5'- aGCcuGCggUGCCGGCuacaagaacuagggGAGAcaGCGUGAGc -3'
miRNA:   3'- gCGc-UGuuGCGGCCG--------------CUCU--UGCACUC- -5'
18235 3' -55.7 NC_004680.1 + 13656 0.66 0.709207
Target:  5'- gGCGGCGgauacaucuACGCCaauggugaccaGGCGAGGugGcGGGa -3'
miRNA:   3'- gCGCUGU---------UGCGG-----------CCGCUCUugCaCUC- -5'
18235 3' -55.7 NC_004680.1 + 16878 0.67 0.698624
Target:  5'- aCGCGGgAGCuaaaGGCGAuGAugGUGAGu -3'
miRNA:   3'- -GCGCUgUUGcgg-CCGCU-CUugCACUC- -5'
18235 3' -55.7 NC_004680.1 + 43634 0.67 0.666543
Target:  5'- aGCGGCAGCGuucCCGGCcgcccuggucGAACGUGGc -3'
miRNA:   3'- gCGCUGUUGC---GGCCGcu--------CUUGCACUc -5'
18235 3' -55.7 NC_004680.1 + 49381 0.67 0.655773
Target:  5'- cCGCGACAGCGCCGuugcuuggcuGCGAuuGGCGgcgGAu -3'
miRNA:   3'- -GCGCUGUUGCGGC----------CGCUc-UUGCa--CUc -5'
18235 3' -55.7 NC_004680.1 + 3434 0.67 0.655773
Target:  5'- cCGCaGCAucucuggcuaagGCgGCCGGCGAGu-CGUGGGc -3'
miRNA:   3'- -GCGcUGU------------UG-CGGCCGCUCuuGCACUC- -5'
18235 3' -55.7 NC_004680.1 + 26183 0.68 0.644983
Target:  5'- gGUGGCGuuccaGCCGGCGGGGcCGcGGGa -3'
miRNA:   3'- gCGCUGUug---CGGCCGCUCUuGCaCUC- -5'
18235 3' -55.7 NC_004680.1 + 56053 0.68 0.634182
Target:  5'- uGCGGCGACGCCGacugcccagacuGCGGcGAAUGguacGAGu -3'
miRNA:   3'- gCGCUGUUGCGGC------------CGCU-CUUGCa---CUC- -5'
18235 3' -55.7 NC_004680.1 + 52133 0.68 0.634182
Target:  5'- aGCGugA-C-CCGGCcGGAACGUGAa -3'
miRNA:   3'- gCGCugUuGcGGCCGcUCUUGCACUc -5'
18235 3' -55.7 NC_004680.1 + 33790 0.68 0.63094
Target:  5'- uGgGACc-UGCCGGCGcauuucgaguaucaGGAAUGUGAGg -3'
miRNA:   3'- gCgCUGuuGCGGCCGC--------------UCUUGCACUC- -5'
18235 3' -55.7 NC_004680.1 + 21940 0.68 0.612582
Target:  5'- aGUGAUgguGACGCCGaaCGAGA-CGUGGGa -3'
miRNA:   3'- gCGCUG---UUGCGGCc-GCUCUuGCACUC- -5'
18235 3' -55.7 NC_004680.1 + 9591 0.68 0.612582
Target:  5'- uGCuGGCcGCGCgauCGGCGAGAACGUc-- -3'
miRNA:   3'- gCG-CUGuUGCG---GCCGCUCUUGCAcuc -5'
18235 3' -55.7 NC_004680.1 + 18588 0.69 0.580326
Target:  5'- aGCGAuCGACuCCGGgGAGAuguugcgcaacGCGUGAa -3'
miRNA:   3'- gCGCU-GUUGcGGCCgCUCU-----------UGCACUc -5'
18235 3' -55.7 NC_004680.1 + 9525 0.69 0.569646
Target:  5'- uGCuGCggUGgCGGCGAagaacauuGAGCGUGAGa -3'
miRNA:   3'- gCGcUGuuGCgGCCGCU--------CUUGCACUC- -5'
18235 3' -55.7 NC_004680.1 + 20847 0.69 0.569646
Target:  5'- aGCGAuCGACGCUGGCGgcGGAACa---- -3'
miRNA:   3'- gCGCU-GUUGCGGCCGC--UCUUGcacuc -5'
18235 3' -55.7 NC_004680.1 + 11879 0.69 0.569646
Target:  5'- uGCaGACGGCGCCccGGgGAGAGCGg--- -3'
miRNA:   3'- gCG-CUGUUGCGG--CCgCUCUUGCacuc -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.