miRNA display CGI


Results 1 - 20 of 50 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
19553 5' -52.7 NC_004685.1 + 40360 0.66 0.884991
Target:  5'- gGUGAGAUUGCCGaUCAucggccccAGCC-CACGg -3'
miRNA:   3'- gCGUUCUAACGGUcAGU--------UCGGcGUGU- -5'
19553 5' -52.7 NC_004685.1 + 34272 0.66 0.884991
Target:  5'- cCGcCGAGucgaucaccgUGCCGGUCGGGCCGgugaucCGCGa -3'
miRNA:   3'- -GC-GUUCua--------ACGGUCAGUUCGGC------GUGU- -5'
19553 5' -52.7 NC_004685.1 + 66248 0.66 0.884991
Target:  5'- cCGCAAcGAUcgcaGCgGGUC-AGCCGCAgGg -3'
miRNA:   3'- -GCGUU-CUAa---CGgUCAGuUCGGCGUgU- -5'
19553 5' -52.7 NC_004685.1 + 32360 0.66 0.884991
Target:  5'- gCGCAgAGGUgGCCGG-CAucaCCGCGCAg -3'
miRNA:   3'- -GCGU-UCUAaCGGUCaGUuc-GGCGUGU- -5'
19553 5' -52.7 NC_004685.1 + 53614 0.66 0.877305
Target:  5'- uGCAGGAUcucGUCGGugacguUCAGGCCGC-CGa -3'
miRNA:   3'- gCGUUCUAa--CGGUC------AGUUCGGCGuGU- -5'
19553 5' -52.7 NC_004685.1 + 8164 0.66 0.877305
Target:  5'- cCGCuGAGAUUGCC------GCCGCGCAc -3'
miRNA:   3'- -GCG-UUCUAACGGucaguuCGGCGUGU- -5'
19553 5' -52.7 NC_004685.1 + 57055 0.66 0.877305
Target:  5'- gGCGAGca-GCCGGUCGauuuccugcccGGCCuuGCGCAc -3'
miRNA:   3'- gCGUUCuaaCGGUCAGU-----------UCGG--CGUGU- -5'
19553 5' -52.7 NC_004685.1 + 10219 0.66 0.877305
Target:  5'- gGCGGcug-GCCGGUCuGGCCGC-CGg -3'
miRNA:   3'- gCGUUcuaaCGGUCAGuUCGGCGuGU- -5'
19553 5' -52.7 NC_004685.1 + 17506 0.66 0.872568
Target:  5'- gGCAguGGccUGCgGGUCAucaacaacuucgccgGGCCGCGCGc -3'
miRNA:   3'- gCGU--UCuaACGgUCAGU---------------UCGGCGUGU- -5'
19553 5' -52.7 NC_004685.1 + 7017 0.66 0.869359
Target:  5'- gCGCGAGGagaaucgGCuCGGUCugcucGCCGCGCu -3'
miRNA:   3'- -GCGUUCUaa-----CG-GUCAGuu---CGGCGUGu -5'
19553 5' -52.7 NC_004685.1 + 13191 0.66 0.861159
Target:  5'- aGgGAGAUggcacGCCGG-CAGGCCGgACu -3'
miRNA:   3'- gCgUUCUAa----CGGUCaGUUCGGCgUGu -5'
19553 5' -52.7 NC_004685.1 + 26510 0.67 0.835116
Target:  5'- cCGCAAGGacggugUGCUcGUCucgccGCCGCACu -3'
miRNA:   3'- -GCGUUCUa-----ACGGuCAGuu---CGGCGUGu -5'
19553 5' -52.7 NC_004685.1 + 25998 0.67 0.835116
Target:  5'- gGCAGGGUgcgcaGCCGGUC--GCCgaGCGCGg -3'
miRNA:   3'- gCGUUCUAa----CGGUCAGuuCGG--CGUGU- -5'
19553 5' -52.7 NC_004685.1 + 34382 0.67 0.825983
Target:  5'- gGCuGGA---CCcGUCAAGCCGUACAg -3'
miRNA:   3'- gCGuUCUaacGGuCAGUUCGGCGUGU- -5'
19553 5' -52.7 NC_004685.1 + 39477 0.67 0.825983
Target:  5'- gGCAAGAggugGUCGGUgaggucaucagCGAGCCGgACGa -3'
miRNA:   3'- gCGUUCUaa--CGGUCA-----------GUUCGGCgUGU- -5'
19553 5' -52.7 NC_004685.1 + 57689 0.67 0.823202
Target:  5'- gGCGAGAgcaucUGCCccacGUCGAgcgccuucgagcacGCCGCGCGg -3'
miRNA:   3'- gCGUUCUa----ACGGu---CAGUU--------------CGGCGUGU- -5'
19553 5' -52.7 NC_004685.1 + 32896 0.67 0.820402
Target:  5'- aCGCAccagcccugcggcucGGGccGCCAGUCGaaGGgCGCGCAg -3'
miRNA:   3'- -GCGU---------------UCUaaCGGUCAGU--UCgGCGUGU- -5'
19553 5' -52.7 NC_004685.1 + 11586 0.67 0.81664
Target:  5'- gGCAGGucgcgGCgAGccgcgCAGGCCGCACc -3'
miRNA:   3'- gCGUUCuaa--CGgUCa----GUUCGGCGUGu -5'
19553 5' -52.7 NC_004685.1 + 47988 0.67 0.81664
Target:  5'- uGC-AGcgUGCCAGU-GAGCaCGCGCc -3'
miRNA:   3'- gCGuUCuaACGGUCAgUUCG-GCGUGu -5'
19553 5' -52.7 NC_004685.1 + 6925 0.67 0.813797
Target:  5'- aCGCAGGugccucagcccaccGUggcccccgaGCCGGUCAAGCC-CGCAg -3'
miRNA:   3'- -GCGUUC--------------UAa--------CGGUCAGUUCGGcGUGU- -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.