miRNA display CGI


Results 1 - 20 of 20 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
28140 3' -60.3 NC_005887.1 + 5560 0.66 0.380614
Target:  5'- -cGGCCGGUgCUgCGGCCGGugcugcgccaucgGCCUGCGu -3'
miRNA:   3'- cuUCGGCUA-GA-GCUGGCC-------------CGGGCGUu -5'
28140 3' -60.3 NC_005887.1 + 8755 0.66 0.372709
Target:  5'- -cGGCgGAUC---GCCGGGCCCuGCAc -3'
miRNA:   3'- cuUCGgCUAGagcUGGCCCGGG-CGUu -5'
28140 3' -60.3 NC_005887.1 + 34478 0.66 0.364058
Target:  5'- cGAGGaCGAgCUCGacugauugcagGCCGGGCCuCGCGc -3'
miRNA:   3'- -CUUCgGCUaGAGC-----------UGGCCCGG-GCGUu -5'
28140 3' -60.3 NC_005887.1 + 34392 0.66 0.355547
Target:  5'- -cGGCCGggCgcgaGGCCcGGCCUGCAAu -3'
miRNA:   3'- cuUCGGCuaGag--CUGGcCCGGGCGUU- -5'
28140 3' -60.3 NC_005887.1 + 10077 0.66 0.355547
Target:  5'- aGGAGCCGcAUUccgUCGugUGggcGGCCCGCGc -3'
miRNA:   3'- -CUUCGGC-UAG---AGCugGC---CCGGGCGUu -5'
28140 3' -60.3 NC_005887.1 + 8110 0.66 0.330863
Target:  5'- --cGCCGcgCUCG-CCGaGGCgCCGCu- -3'
miRNA:   3'- cuuCGGCuaGAGCuGGC-CCG-GGCGuu -5'
28140 3' -60.3 NC_005887.1 + 16016 0.67 0.32292
Target:  5'- cGAGCCGGUgaCGuAUCGGGagCCGCAGg -3'
miRNA:   3'- cUUCGGCUAgaGC-UGGCCCg-GGCGUU- -5'
28140 3' -60.3 NC_005887.1 + 14602 0.67 0.319784
Target:  5'- --uGCCGAUCgacgcgccgccgaCGGCCGcGCCUGCAAg -3'
miRNA:   3'- cuuCGGCUAGa------------GCUGGCcCGGGCGUU- -5'
28140 3' -60.3 NC_005887.1 + 40711 0.67 0.299951
Target:  5'- aGGAGCCGAUCgaagaCGACUucgaGGucgccGCCCGCGu -3'
miRNA:   3'- -CUUCGGCUAGa----GCUGG----CC-----CGGGCGUu -5'
28140 3' -60.3 NC_005887.1 + 13599 0.67 0.285352
Target:  5'- --cGCCGAUCgcauucgCGAUCGuGGCgCGCAu -3'
miRNA:   3'- cuuCGGCUAGa------GCUGGC-CCGgGCGUu -5'
28140 3' -60.3 NC_005887.1 + 26337 0.68 0.278265
Target:  5'- -uGGCCGGcgCU-GGCCGGGUgCGCGAa -3'
miRNA:   3'- cuUCGGCUa-GAgCUGGCCCGgGCGUU- -5'
28140 3' -60.3 NC_005887.1 + 35806 0.68 0.27132
Target:  5'- aGAAGCCGAg--CGAgUGGGCcacgaCCGCGAc -3'
miRNA:   3'- -CUUCGGCUagaGCUgGCCCG-----GGCGUU- -5'
28140 3' -60.3 NC_005887.1 + 16199 0.68 0.264514
Target:  5'- aGAGGCCGcgCUgCGACCGGaCaCGCAGg -3'
miRNA:   3'- -CUUCGGCuaGA-GCUGGCCcGgGCGUU- -5'
28140 3' -60.3 NC_005887.1 + 5743 0.69 0.232549
Target:  5'- cGAGGCCGGgauUC-CGGCCGaGGC-CGCGAa -3'
miRNA:   3'- -CUUCGGCU---AGaGCUGGC-CCGgGCGUU- -5'
28140 3' -60.3 NC_005887.1 + 957 0.69 0.207717
Target:  5'- cGAAGCCGAggccgccugacucgUCcggCGGCgCGGGCCaCGCGu -3'
miRNA:   3'- -CUUCGGCU--------------AGa--GCUG-GCCCGG-GCGUu -5'
28140 3' -60.3 NC_005887.1 + 12658 0.7 0.203898
Target:  5'- --cGCCGAgcgUCgCGGCCGGGUCgGCGGa -3'
miRNA:   3'- cuuCGGCU---AGaGCUGGCCCGGgCGUU- -5'
28140 3' -60.3 NC_005887.1 + 16481 0.71 0.173605
Target:  5'- --cGUCGAUCUCGGCCGcgugagcuuccGGCCgGCGg -3'
miRNA:   3'- cuuCGGCUAGAGCUGGC-----------CCGGgCGUu -5'
28140 3' -60.3 NC_005887.1 + 26800 0.71 0.163987
Target:  5'- cGAGCCGAUCgugCGcCCGGucuaugucgagcuGCCCGCGg -3'
miRNA:   3'- cUUCGGCUAGa--GCuGGCC-------------CGGGCGUu -5'
28140 3' -60.3 NC_005887.1 + 27329 0.72 0.147389
Target:  5'- --uGCCGAUCauuggCGACgCGGGCCgGCGc -3'
miRNA:   3'- cuuCGGCUAGa----GCUG-GCCCGGgCGUu -5'
28140 3' -60.3 NC_005887.1 + 16568 1.06 0.000343
Target:  5'- cGAAGCCGAUCUCGACCGGGCCCGCAAg -3'
miRNA:   3'- -CUUCGGCUAGAGCUGGCCCGGGCGUU- -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.