miRNA display CGI


Results 1 - 20 of 39 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
19531 3' -59.3 NC_004685.1 + 40886 0.66 0.63336
Target:  5'- gCGCGGGCC-UGcUUCucguagGCGUCGcugacagcUCGGCc -3'
miRNA:   3'- -GCGCCCGGcAC-AAG------UGCAGC--------AGCCGc -5'
19531 3' -59.3 NC_004685.1 + 28524 0.66 0.62299
Target:  5'- uCGCGGGCCGcgagaagCACGaCGU-GGUGg -3'
miRNA:   3'- -GCGCCCGGCacaa---GUGCaGCAgCCGC- -5'
19531 3' -59.3 NC_004685.1 + 38382 0.66 0.612627
Target:  5'- gGCaaGGCgGcGUUCGCGUUGcUCGGCa -3'
miRNA:   3'- gCGc-CCGgCaCAAGUGCAGC-AGCCGc -5'
19531 3' -59.3 NC_004685.1 + 53880 0.66 0.612627
Target:  5'- cCGCGGGUCaGUGgUCAgCGagGUCGGgCa -3'
miRNA:   3'- -GCGCCCGG-CACaAGU-GCagCAGCC-Gc -5'
19531 3' -59.3 NC_004685.1 + 23319 0.66 0.612627
Target:  5'- cCGCGuGGCCcaacgcugUCACGcgaUGUCGGCGg -3'
miRNA:   3'- -GCGC-CCGGcaca----AGUGCa--GCAGCCGC- -5'
19531 3' -59.3 NC_004685.1 + 22288 0.66 0.602278
Target:  5'- gGCGGGCCucccgGUU--CGUCGUCGcGCc -3'
miRNA:   3'- gCGCCCGGca---CAAguGCAGCAGC-CGc -5'
19531 3' -59.3 NC_004685.1 + 25590 0.66 0.591953
Target:  5'- aGCcGGCCGUGUUCAgGuucuggauggUCGUCccGGCc -3'
miRNA:   3'- gCGcCCGGCACAAGUgC----------AGCAG--CCGc -5'
19531 3' -59.3 NC_004685.1 + 65569 0.66 0.591953
Target:  5'- uGCGGGUCGUacagGUcCAugccggacguguCGUUGUUGGCGa -3'
miRNA:   3'- gCGCCCGGCA----CAaGU------------GCAGCAGCCGC- -5'
19531 3' -59.3 NC_004685.1 + 41524 0.66 0.588861
Target:  5'- gGUGGGCCGaggcguucGUcgcgacugaacgcaUCGCGUCGaCGGCu -3'
miRNA:   3'- gCGCCCGGCa-------CA--------------AGUGCAGCaGCCGc -5'
19531 3' -59.3 NC_004685.1 + 47584 0.66 0.581657
Target:  5'- uCGaCGGGCCGUcagcagCGCGgCGUCGaGCa -3'
miRNA:   3'- -GC-GCCCGGCAcaa---GUGCaGCAGC-CGc -5'
19531 3' -59.3 NC_004685.1 + 47947 0.66 0.581657
Target:  5'- gGCcgucGCCGUGcaUCACGcUGUCGGCGg -3'
miRNA:   3'- gCGcc--CGGCACa-AGUGCaGCAGCCGC- -5'
19531 3' -59.3 NC_004685.1 + 26023 0.67 0.5714
Target:  5'- gCGCGGGCCGgaga-ACGUCuUCGaGCc -3'
miRNA:   3'- -GCGCCCGGCacaagUGCAGcAGC-CGc -5'
19531 3' -59.3 NC_004685.1 + 1911 0.67 0.5714
Target:  5'- cCGCuGcGGCCGcgGUUgGCGUCaG-CGGCGa -3'
miRNA:   3'- -GCG-C-CCGGCa-CAAgUGCAG-CaGCCGC- -5'
19531 3' -59.3 NC_004685.1 + 75 0.67 0.570376
Target:  5'- gGCGGGCgcgcgccCGUGUggacgCGCGccCGUUGGCc -3'
miRNA:   3'- gCGCCCG-------GCACAa----GUGCa-GCAGCCGc -5'
19531 3' -59.3 NC_004685.1 + 35586 0.67 0.561185
Target:  5'- aGgGGGCCGaacUUCACcaUGUCGGUGg -3'
miRNA:   3'- gCgCCCGGCac-AAGUGcaGCAGCCGC- -5'
19531 3' -59.3 NC_004685.1 + 31207 0.67 0.560167
Target:  5'- gGCGGGCCuuggGUUCcccgguggcaaggGCGUCGgcucgggccuggUCGGCa -3'
miRNA:   3'- gCGCCCGGca--CAAG-------------UGCAGC------------AGCCGc -5'
19531 3' -59.3 NC_004685.1 + 28479 0.67 0.551022
Target:  5'- uCGUcGGCgGcgagGUUCACGguguaaUCGUCGGCGu -3'
miRNA:   3'- -GCGcCCGgCa---CAAGUGC------AGCAGCCGC- -5'
19531 3' -59.3 NC_004685.1 + 47558 0.67 0.544951
Target:  5'- gGCGGGCaggGUGUUcggaaaccgaacagcUugGUgGUCGGUGc -3'
miRNA:   3'- gCGCCCGg--CACAA---------------GugCAgCAGCCGC- -5'
19531 3' -59.3 NC_004685.1 + 5458 0.67 0.530872
Target:  5'- uGCGGGCCG-GcgCGgGUCaucCGGCGc -3'
miRNA:   3'- gCGCCCGGCaCaaGUgCAGca-GCCGC- -5'
19531 3' -59.3 NC_004685.1 + 43032 0.68 0.501174
Target:  5'- gCGCGcucGGCUGUGgugugCuCGUCGgugCGGCGg -3'
miRNA:   3'- -GCGC---CCGGCACaa---GuGCAGCa--GCCGC- -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.