miRNA display CGI


Results 1 - 20 of 25 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
28180 3' -51.5 NC_005887.1 + 30572 0.66 0.898485
Target:  5'- --cGCCGAgcagCGAGGACGcCgcCGAGa -3'
miRNA:   3'- ccuCGGCUa---GCUUCUGCuGaaGCUCc -5'
28180 3' -51.5 NC_005887.1 + 42095 0.66 0.898485
Target:  5'- uGGGGCgCGAUgccgCGucGACGAa--CGAGGa -3'
miRNA:   3'- -CCUCG-GCUA----GCuuCUGCUgaaGCUCC- -5'
28180 3' -51.5 NC_005887.1 + 13755 0.66 0.89124
Target:  5'- -cGGCUGGcgCGAGGACGAUUUCcAGa -3'
miRNA:   3'- ccUCGGCUa-GCUUCUGCUGAAGcUCc -5'
28180 3' -51.5 NC_005887.1 + 41819 0.66 0.88372
Target:  5'- -aAGCCGAUCGugaAGGGCGACgaccacgCGAu- -3'
miRNA:   3'- ccUCGGCUAGC---UUCUGCUGaa-----GCUcc -5'
28180 3' -51.5 NC_005887.1 + 35085 0.66 0.859567
Target:  5'- cGGGGCCGAugUCGcGGuCG-CUgcCGAGGu -3'
miRNA:   3'- -CCUCGGCU--AGCuUCuGCuGAa-GCUCC- -5'
28180 3' -51.5 NC_005887.1 + 35683 0.66 0.859567
Target:  5'- --cGCgCGAUCGgcGGcCGGCUUCGcGGu -3'
miRNA:   3'- ccuCG-GCUAGCuuCU-GCUGAAGCuCC- -5'
28180 3' -51.5 NC_005887.1 + 35428 0.67 0.841319
Target:  5'- cGAGUCGAUCaGGucgagcgacgcguAGAUGACgcCGAGGc -3'
miRNA:   3'- cCUCGGCUAG-CU-------------UCUGCUGaaGCUCC- -5'
28180 3' -51.5 NC_005887.1 + 25784 0.67 0.833182
Target:  5'- cGGGcCCGGUCG-AGAuCGGCUUCGuGc -3'
miRNA:   3'- cCUC-GGCUAGCuUCU-GCUGAAGCuCc -5'
28180 3' -51.5 NC_005887.1 + 2284 0.67 0.822996
Target:  5'- cGAGCUGAagcggcaccUCGccGAGAUcuacccgGGCUUCGAGGu -3'
miRNA:   3'- cCUCGGCU---------AGC--UUCUG-------CUGAAGCUCC- -5'
28180 3' -51.5 NC_005887.1 + 10778 0.67 0.814471
Target:  5'- uGGGGCuccCGGUCGAgugGGACGACUgcgCGccuacGGa -3'
miRNA:   3'- -CCUCG---GCUAGCU---UCUGCUGAa--GCu----CC- -5'
28180 3' -51.5 NC_005887.1 + 14713 0.67 0.814471
Target:  5'- cGGGCCGGgcgCGGcgaucgcgcAGGCGACgaUCGAGa -3'
miRNA:   3'- cCUCGGCUa--GCU---------UCUGCUGa-AGCUCc -5'
28180 3' -51.5 NC_005887.1 + 35079 0.67 0.814471
Target:  5'- cGGGCgCGAcuUCGAAGuCGuCUUCGGGcGg -3'
miRNA:   3'- cCUCG-GCU--AGCUUCuGCuGAAGCUC-C- -5'
28180 3' -51.5 NC_005887.1 + 20855 0.68 0.80481
Target:  5'- --cGCCGAUUGccGGCGGCgaugCGAGa -3'
miRNA:   3'- ccuCGGCUAGCuuCUGCUGaa--GCUCc -5'
28180 3' -51.5 NC_005887.1 + 15081 0.68 0.803833
Target:  5'- gGGAGCCGccggcguGUCGcAGAUGAUgccCGAGa -3'
miRNA:   3'- -CCUCGGC-------UAGCuUCUGCUGaa-GCUCc -5'
28180 3' -51.5 NC_005887.1 + 17148 0.68 0.774737
Target:  5'- aGGuGCUGGUCGgcGAaGAUcgCGAGGc -3'
miRNA:   3'- -CCuCGGCUAGCuuCUgCUGaaGCUCC- -5'
28180 3' -51.5 NC_005887.1 + 40590 0.68 0.774737
Target:  5'- cGAGCauGUCGAGGAuCGGCUUCGcGa -3'
miRNA:   3'- cCUCGgcUAGCUUCU-GCUGAAGCuCc -5'
28180 3' -51.5 NC_005887.1 + 7264 0.69 0.721696
Target:  5'- ---aCCGccCGAAGACGACUUCGAa- -3'
miRNA:   3'- ccucGGCuaGCUUCUGCUGAAGCUcc -5'
28180 3' -51.5 NC_005887.1 + 28970 0.7 0.699742
Target:  5'- cGAGCCGGaCGAAGugGACcaggUCGcuuuuGGc -3'
miRNA:   3'- cCUCGGCUaGCUUCugCUGa---AGCu----CC- -5'
28180 3' -51.5 NC_005887.1 + 28367 0.71 0.643862
Target:  5'- cGAGCaCGAacgCGucGACGGCUUCGcGGc -3'
miRNA:   3'- cCUCG-GCUa--GCuuCUGCUGAAGCuCC- -5'
28180 3' -51.5 NC_005887.1 + 18392 0.71 0.610107
Target:  5'- uGGGCCGAggucgUCGGugcgugcgcAGACGGCcgCGAGGc -3'
miRNA:   3'- cCUCGGCU-----AGCU---------UCUGCUGaaGCUCC- -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.