miRNA display CGI


Results 1 - 20 of 24 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
20551 3' -58.3 NC_004688.1 + 21396 0.66 0.730518
Target:  5'- cCugCUGGUCGUCguccaaaaGGCCGGGgUUGggGa -3'
miRNA:   3'- -GugGAUCGGCGG--------CCGGUUCgAGCuuC- -5'
20551 3' -58.3 NC_004688.1 + 71837 0.66 0.720526
Target:  5'- -uCCUGGCCGUgGGUgAAGUacCGAAGc -3'
miRNA:   3'- guGGAUCGGCGgCCGgUUCGa-GCUUC- -5'
20551 3' -58.3 NC_004688.1 + 73046 0.67 0.690121
Target:  5'- -cCCUGGCgCGCCGcagaUAAGCUCGAu- -3'
miRNA:   3'- guGGAUCG-GCGGCcg--GUUCGAGCUuc -5'
20551 3' -58.3 NC_004688.1 + 73939 0.67 0.679875
Target:  5'- cCGCCcAGCCcUCGGCCGcgaGGCguUCGGAGu -3'
miRNA:   3'- -GUGGaUCGGcGGCCGGU---UCG--AGCUUC- -5'
20551 3' -58.3 NC_004688.1 + 33633 0.67 0.679875
Target:  5'- cCGCCcacGCCGCCaGcGCCcGGgUCGAGGg -3'
miRNA:   3'- -GUGGau-CGGCGG-C-CGGuUCgAGCUUC- -5'
20551 3' -58.3 NC_004688.1 + 23962 0.67 0.669589
Target:  5'- cCGCCccGGCCuuCUGcGCCAGGCUCGGGa -3'
miRNA:   3'- -GUGGa-UCGGc-GGC-CGGUUCGAGCUUc -5'
20551 3' -58.3 NC_004688.1 + 101053 0.67 0.665465
Target:  5'- gUACCggaggacgucucgGGCCuGCUGGCgAAGCUgGAGGc -3'
miRNA:   3'- -GUGGa------------UCGG-CGGCCGgUUCGAgCUUC- -5'
20551 3' -58.3 NC_004688.1 + 45203 0.67 0.656171
Target:  5'- uGCCcGGCCcgcaacucuuugauGCCGGCCAcgAGUUCGucGAGg -3'
miRNA:   3'- gUGGaUCGG--------------CGGCCGGU--UCGAGC--UUC- -5'
20551 3' -58.3 NC_004688.1 + 90521 0.67 0.648931
Target:  5'- cCACCggaAGuCCGUCGGCCGcaAGCUCc--- -3'
miRNA:   3'- -GUGGa--UC-GGCGGCCGGU--UCGAGcuuc -5'
20551 3' -58.3 NC_004688.1 + 1714 0.68 0.628219
Target:  5'- uGCCUGgguGCCGCgaaGGCUGAGaUCGAGGa -3'
miRNA:   3'- gUGGAU---CGGCGg--CCGGUUCgAGCUUC- -5'
20551 3' -58.3 NC_004688.1 + 9207 0.68 0.628219
Target:  5'- gGCCUuGCCGUCGGCgAcguggauauGCUCGAu- -3'
miRNA:   3'- gUGGAuCGGCGGCCGgUu--------CGAGCUuc -5'
20551 3' -58.3 NC_004688.1 + 56484 0.68 0.617863
Target:  5'- gCGCUgcagggucagGGCgCGCCGGCgAAGCUCuaGAAGc -3'
miRNA:   3'- -GUGGa---------UCG-GCGGCCGgUUCGAG--CUUC- -5'
20551 3' -58.3 NC_004688.1 + 59296 0.68 0.597192
Target:  5'- gGCC--GCCGCCGGCUAcGGC-CGGAa -3'
miRNA:   3'- gUGGauCGGCGGCCGGU-UCGaGCUUc -5'
20551 3' -58.3 NC_004688.1 + 23908 0.69 0.556223
Target:  5'- uGCCgAGuCCGCCGGCgAGGC-CGgcGa -3'
miRNA:   3'- gUGGaUC-GGCGGCCGgUUCGaGCuuC- -5'
20551 3' -58.3 NC_004688.1 + 15844 0.69 0.526034
Target:  5'- aACUU-GCCGCCgGGCCAGGCcagacUCGAc- -3'
miRNA:   3'- gUGGAuCGGCGG-CCGGUUCG-----AGCUuc -5'
20551 3' -58.3 NC_004688.1 + 25731 0.7 0.496483
Target:  5'- cCGCCUugggGGCCGCCGGagCGAGUggggUCGAGu -3'
miRNA:   3'- -GUGGA----UCGGCGGCCg-GUUCG----AGCUUc -5'
20551 3' -58.3 NC_004688.1 + 21632 0.7 0.477204
Target:  5'- gCGCCc-GCCGCCGGCCuugaaccGCUCGu-- -3'
miRNA:   3'- -GUGGauCGGCGGCCGGuu-----CGAGCuuc -5'
20551 3' -58.3 NC_004688.1 + 18647 0.71 0.439808
Target:  5'- uCACCUugaaaGGCUuGCCGGCgAAGUUCGGGa -3'
miRNA:   3'- -GUGGA-----UCGG-CGGCCGgUUCGAGCUUc -5'
20551 3' -58.3 NC_004688.1 + 14874 0.72 0.378616
Target:  5'- gACUU-GCCGCCgGGCCAgaggaGGCUCGAc- -3'
miRNA:   3'- gUGGAuCGGCGG-CCGGU-----UCGAGCUuc -5'
20551 3' -58.3 NC_004688.1 + 57931 0.73 0.354198
Target:  5'- gCACCUcggGGCUGCUGGCCuguGGCgguguaggCGAAGu -3'
miRNA:   3'- -GUGGA---UCGGCGGCCGGu--UCGa-------GCUUC- -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.