miRNA display CGI


Results 1 - 20 of 53 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
24056 5' -58.6 NC_005262.1 + 44109 1.08 0.000698
Target:  5'- uCGCCUGGGCGAAAGAGCGCAUCGGCGu -3'
miRNA:   3'- -GCGGACCCGCUUUCUCGCGUAGCCGC- -5'
24056 5' -58.6 NC_005262.1 + 59263 0.75 0.162138
Target:  5'- aCGCgCaGGaGCGAAAcGAGCGCGUCGcGCGg -3'
miRNA:   3'- -GCG-GaCC-CGCUUU-CUCGCGUAGC-CGC- -5'
24056 5' -58.6 NC_005262.1 + 26652 0.75 0.175493
Target:  5'- uGCCUGcGCGAAcuGGcgcAGCGCGUCGGCc -3'
miRNA:   3'- gCGGACcCGCUU--UC---UCGCGUAGCCGc -5'
24056 5' -58.6 NC_005262.1 + 35562 0.72 0.257724
Target:  5'- uCGCC-GGcGCGGgaAAGAGCGCGaauguugugcUCGGCGc -3'
miRNA:   3'- -GCGGaCC-CGCU--UUCUCGCGU----------AGCCGC- -5'
24056 5' -58.6 NC_005262.1 + 16685 0.72 0.2642
Target:  5'- aGCC-GGGCG-AGGAGUGCAUCGucacGCa -3'
miRNA:   3'- gCGGaCCCGCuUUCUCGCGUAGC----CGc -5'
24056 5' -58.6 NC_005262.1 + 35822 0.72 0.277547
Target:  5'- aGCaucaUGGGCc--GGAGCgGCGUCGGCGc -3'
miRNA:   3'- gCGg---ACCCGcuuUCUCG-CGUAGCCGC- -5'
24056 5' -58.6 NC_005262.1 + 46982 0.71 0.298568
Target:  5'- gGCCugUGGGCGAAGGcauGGCGCGcgacgcagaUgGGCGa -3'
miRNA:   3'- gCGG--ACCCGCUUUC---UCGCGU---------AgCCGC- -5'
24056 5' -58.6 NC_005262.1 + 49842 0.71 0.305844
Target:  5'- aGCCUcGGGCGc--GGGCGCcgcCGGCGu -3'
miRNA:   3'- gCGGA-CCCGCuuuCUCGCGua-GCCGC- -5'
24056 5' -58.6 NC_005262.1 + 2974 0.71 0.305844
Target:  5'- aGCCUGaucgaaGGCGAuAGcGGCGCAaCGGCa -3'
miRNA:   3'- gCGGAC------CCGCUuUC-UCGCGUaGCCGc -5'
24056 5' -58.6 NC_005262.1 + 52610 0.7 0.328482
Target:  5'- aGCC-GGGCGAGcuGaAGCGCAcCGGCu -3'
miRNA:   3'- gCGGaCCCGCUUu-C-UCGCGUaGCCGc -5'
24056 5' -58.6 NC_005262.1 + 15608 0.7 0.360555
Target:  5'- gCGCgUGcGGC--AGGAGCGCAUCgaGGCGc -3'
miRNA:   3'- -GCGgAC-CCGcuUUCUCGCGUAG--CCGC- -5'
24056 5' -58.6 NC_005262.1 + 29867 0.7 0.368907
Target:  5'- gGCCUGacCGAcgAGGAGCGCG-CGGCGc -3'
miRNA:   3'- gCGGACccGCU--UUCUCGCGUaGCCGC- -5'
24056 5' -58.6 NC_005262.1 + 63678 0.69 0.385137
Target:  5'- aCGCCggcggGGGCGgcGGAGCcagacacgcuaccGCcggCGGCGg -3'
miRNA:   3'- -GCGGa----CCCGCuuUCUCG-------------CGua-GCCGC- -5'
24056 5' -58.6 NC_005262.1 + 31159 0.69 0.386004
Target:  5'- uCGCCcuucaGGuCGGc-GAGCGCGUCGGCGu -3'
miRNA:   3'- -GCGGac---CC-GCUuuCUCGCGUAGCCGC- -5'
24056 5' -58.6 NC_005262.1 + 42184 0.69 0.394747
Target:  5'- aCGUgaUGGGCGAcGGcGCGCcgaagaugaucGUCGGCGg -3'
miRNA:   3'- -GCGg-ACCCGCUuUCuCGCG-----------UAGCCGC- -5'
24056 5' -58.6 NC_005262.1 + 44158 0.69 0.403617
Target:  5'- gCGCgCgaucGGGC--AGGAGCGCggCGGCGa -3'
miRNA:   3'- -GCG-Ga---CCCGcuUUCUCGCGuaGCCGC- -5'
24056 5' -58.6 NC_005262.1 + 56948 0.69 0.403617
Target:  5'- aCGCCgauccgcgcGGGCGAGuucgcGGGCGUgGUCGGCa -3'
miRNA:   3'- -GCGGa--------CCCGCUUu----CUCGCG-UAGCCGc -5'
24056 5' -58.6 NC_005262.1 + 29497 0.69 0.403617
Target:  5'- aGCCgcauGGCGAuccgcGAGgGCGUCGGUGc -3'
miRNA:   3'- gCGGac--CCGCUuu---CUCgCGUAGCCGC- -5'
24056 5' -58.6 NC_005262.1 + 31038 0.69 0.418981
Target:  5'- cCGCCUGcGG-GAAGuAGCGCGccgucaugccggaaUCGGCGa -3'
miRNA:   3'- -GCGGAC-CCgCUUUcUCGCGU--------------AGCCGC- -5'
24056 5' -58.6 NC_005262.1 + 10460 0.68 0.440323
Target:  5'- aGCC-GGGCGGAAGccGCGaCGacagCGGCGa -3'
miRNA:   3'- gCGGaCCCGCUUUCu-CGC-GUa---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.