miRNA display CGI


Results 1 - 20 of 57 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
5606 5' -56.2 NC_001806.1 + 151316 0.73 0.540905
Target:  5'- gGGCCuCUGG-CGCCG-GCUcgGGCGGg -3'
miRNA:   3'- gCUGG-GACCaGCGGCuCGAuuUCGCU- -5'
5606 5' -56.2 NC_001806.1 + 148080 0.68 0.815525
Target:  5'- uGGCCCgaugGG-CGCCGAGg-GGGGCGc -3'
miRNA:   3'- gCUGGGa---CCaGCGGCUCgaUUUCGCu -5'
5606 5' -56.2 NC_001806.1 + 137643 0.69 0.788919
Target:  5'- gGACCCUGGgguugGCCGAGggcgccCUGAcGCGGu -3'
miRNA:   3'- gCUGGGACCag---CGGCUC------GAUUuCGCU- -5'
5606 5' -56.2 NC_001806.1 + 135063 0.67 0.878681
Target:  5'- cCGGCCCcgcgGGgacgCGCCGGGCcgGAaaucGGCGc -3'
miRNA:   3'- -GCUGGGa---CCa---GCGGCUCGa-UU----UCGCu -5'
5606 5' -56.2 NC_001806.1 + 132907 0.68 0.832451
Target:  5'- gCGGCCCUGGcCGaccuCGGGg-GGAGCGGg -3'
miRNA:   3'- -GCUGGGACCaGCg---GCUCgaUUUCGCU- -5'
5606 5' -56.2 NC_001806.1 + 132141 0.67 0.868551
Target:  5'- uGGCCCUGGcggcgcgcgUUGCCGAGCaucccgacgcGCGGc -3'
miRNA:   3'- gCUGGGACC---------AGCGGCUCGauuu------CGCU- -5'
5606 5' -56.2 NC_001806.1 + 130493 0.73 0.550831
Target:  5'- cCGGCCCaGGcCGCCGAGaCggagGAGGUGGg -3'
miRNA:   3'- -GCUGGGaCCaGCGGCUC-Ga---UUUCGCU- -5'
5606 5' -56.2 NC_001806.1 + 121349 0.69 0.751531
Target:  5'- gGAgCCagUGGUCGgCGAGCUGGauGGCGc -3'
miRNA:   3'- gCUgGG--ACCAGCgGCUCGAUU--UCGCu -5'
5606 5' -56.2 NC_001806.1 + 120107 0.66 0.905854
Target:  5'- gGGCCCUGGgccaggccauccggGCCGcGCUucAGGGCGGc -3'
miRNA:   3'- gCUGGGACCag------------CGGCuCGA--UUUCGCU- -5'
5606 5' -56.2 NC_001806.1 + 113855 0.71 0.656108
Target:  5'- gCGGCCCUGGaccgccaucgcgacUGCCGGGUUAgcGCGGg -3'
miRNA:   3'- -GCUGGGACCa-------------GCGGCUCGAUuuCGCU- -5'
5606 5' -56.2 NC_001806.1 + 113749 0.67 0.872217
Target:  5'- cCGGCCCggagcugggcgggcaGGgcaaGCCGAGCUGAAucaccuaauGCGAg -3'
miRNA:   3'- -GCUGGGa--------------CCag--CGGCUCGAUUU---------CGCU- -5'
5606 5' -56.2 NC_001806.1 + 112270 1.09 0.002816
Target:  5'- gCGACCCUGGUCGCCGAGCUAAAGCGAa -3'
miRNA:   3'- -GCUGGGACCAGCGGCUCGAUUUCGCU- -5'
5606 5' -56.2 NC_001806.1 + 109404 0.72 0.57084
Target:  5'- cCGACCCggcgaugGGUCGUgGGGCgc-GGCGGc -3'
miRNA:   3'- -GCUGGGa------CCAGCGgCUCGauuUCGCU- -5'
5606 5' -56.2 NC_001806.1 + 108905 0.66 0.911303
Target:  5'- uCGGCCaagacugGGUCGUCGGGCc-GAGgGAc -3'
miRNA:   3'- -GCUGGga-----CCAGCGGCUCGauUUCgCU- -5'
5606 5' -56.2 NC_001806.1 + 107133 0.71 0.662203
Target:  5'- -aGCaCCUGGUgGCCGAGauuCUGGAGCGc -3'
miRNA:   3'- gcUG-GGACCAgCGGCUC---GAUUUCGCu -5'
5606 5' -56.2 NC_001806.1 + 93473 0.66 0.905236
Target:  5'- gCGGCCCUGGagguggCGCaCGAgGCcGAGGCc- -3'
miRNA:   3'- -GCUGGGACCa-----GCG-GCU-CGaUUUCGcu -5'
5606 5' -56.2 NC_001806.1 + 90263 0.67 0.878681
Target:  5'- gCGcCCCUGGUCG-UGGGCcugaccguggAGAGCGGc -3'
miRNA:   3'- -GCuGGGACCAGCgGCUCGa---------UUUCGCU- -5'
5606 5' -56.2 NC_001806.1 + 89184 0.66 0.883587
Target:  5'- uGGCCC-GGUCGgcuucuguugcgucCCGA-CUGGGGCGAg -3'
miRNA:   3'- gCUGGGaCCAGC--------------GGCUcGAUUUCGCU- -5'
5606 5' -56.2 NC_001806.1 + 79115 0.66 0.917135
Target:  5'- gGACCCcuuccUCGCgCGAGCUAuccucGGGCGGc -3'
miRNA:   3'- gCUGGGacc--AGCG-GCUCGAU-----UUCGCU- -5'
5606 5' -56.2 NC_001806.1 + 77104 0.66 0.905236
Target:  5'- gGGCguCCUGGgCGCCaaGAGCgccGAGCGGg -3'
miRNA:   3'- gCUG--GGACCaGCGG--CUCGau-UUCGCU- -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.