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 + 58412 0.66 0.730144
Target:  5'- uGCGugGaguagGCGCCGGCaGGuGAGCcaGUGGGc -3'
miRNA:   3'- gCGCugU-----UGCGGCCG-CU-CUUG--CACUC- -5'
18235 3' -55.7 NC_004680.1 + 56598 0.71 0.456855
Target:  5'- gGCgGACAGCGCUGGUGuG-GCGUGGc -3'
miRNA:   3'- gCG-CUGUUGCGGCCGCuCuUGCACUc -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 + 55447 0.71 0.418838
Target:  5'- aGCGAaGugGCCGGCGAGuucCGgGGGg -3'
miRNA:   3'- gCGCUgUugCGGCCGCUCuu-GCaCUC- -5'
18235 3' -55.7 NC_004680.1 + 53819 1.1 0.001072
Target:  5'- gCGCGACAACGCCGGCGAGAACGUGAGg -3'
miRNA:   3'- -GCGCUGUUGCGGCCGCUCUUGCACUC- -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 + 49381 0.67 0.655773
Target:  5'- cCGCGACAGCGCCGuugcuuggcuGCGAuuGGCGgcgGAu -3'
miRNA:   3'- -GCGCUGUUGCGGC----------CGCUc-UUGCa--CUc -5'
18235 3' -55.7 NC_004680.1 + 48097 0.71 0.436659
Target:  5'- gCGCGugGgcggaugucaugaGCGCCGGCGAcaagggggaGggUGUGAa -3'
miRNA:   3'- -GCGCugU-------------UGCGGCCGCU---------CuuGCACUc -5'
18235 3' -55.7 NC_004680.1 + 47779 0.76 0.241336
Target:  5'- uGCGAacgggaGACuCCGGCG-GAACGUGAGg -3'
miRNA:   3'- gCGCUg-----UUGcGGCCGCuCUUGCACUC- -5'
18235 3' -55.7 NC_004680.1 + 46175 0.73 0.365578
Target:  5'- aCGUGuGCucgGugGUCGGCGAGGGCGUGGu -3'
miRNA:   3'- -GCGC-UG---UugCGGCCGCUCUUGCACUc -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 + 38231 0.66 0.716573
Target:  5'- aGCcuGCggUGCCGGCuacaagaacuagggGAGAcaGCGUGAGc -3'
miRNA:   3'- gCGc-UGuuGCGGCCG--------------CUCU--UGCACUC- -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 + 32745 0.7 0.527489
Target:  5'- aGCGugGGUGuuGGCGGGuggauccGCGUGGGg -3'
miRNA:   3'- gCGCugUUGCggCCGCUCu------UGCACUC- -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 + 26183 0.68 0.644983
Target:  5'- gGUGGCGuuccaGCCGGCGGGGcCGcGGGa -3'
miRNA:   3'- gCGCUGUug---CGGCCGCUCUuGCaCUC- -5'
18235 3' -55.7 NC_004680.1 + 26097 0.7 0.517125
Target:  5'- cCGCGGCccCGCCGGCuGGAACGc--- -3'
miRNA:   3'- -GCGCUGuuGCGGCCGcUCUUGCacuc -5'
18235 3' -55.7 NC_004680.1 + 25831 0.7 0.486548
Target:  5'- gGCGGCGGcCGCCaccacGGCGAGAccACG-GAGc -3'
miRNA:   3'- gCGCUGUU-GCGG-----CCGCUCU--UGCaCUC- -5'
18235 3' -55.7 NC_004680.1 + 25711 0.7 0.476546
Target:  5'- uGCGGCGucgGCGaCGGCGGGGAUGccGAGg -3'
miRNA:   3'- gCGCUGU---UGCgGCCGCUCUUGCa-CUC- -5'
18235 3' -55.7 NC_004680.1 + 21940 0.68 0.612582
Target:  5'- aGUGAUgguGACGCCGaaCGAGA-CGUGGGa -3'
miRNA:   3'- gCGCUG---UUGCGGCc-GCUCUuGCACUC- -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.