miRNA display CGI


Results 1 - 20 of 107 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
23572 3' -53.9 NC_005261.1 + 70819 0.66 0.953316
Target:  5'- gCGGGCGcUGCUGgcgGCGCuGGU--CCUGg -3'
miRNA:   3'- -GCUCGC-ACGAC---UGCGuCCAuuGGAUg -5'
23572 3' -53.9 NC_005261.1 + 55780 0.66 0.953316
Target:  5'- gGGGCGgcaacgGC-GGCGCGGGgccGGCCggggGCg -3'
miRNA:   3'- gCUCGCa-----CGaCUGCGUCCa--UUGGa---UG- -5'
23572 3' -53.9 NC_005261.1 + 11705 0.66 0.953316
Target:  5'- cCGAgGCGcgGCgGGCGCGGGcGcccaggcagaccGCCUGCg -3'
miRNA:   3'- -GCU-CGCa-CGaCUGCGUCCaU------------UGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 105565 0.66 0.953316
Target:  5'- gCGGGCGgcgGCguuagcGGCGCGGGggGCUgGCc -3'
miRNA:   3'- -GCUCGCa--CGa-----CUGCGUCCauUGGaUG- -5'
23572 3' -53.9 NC_005261.1 + 31447 0.66 0.953316
Target:  5'- gCGGGCGcagacggcGCUGGCGCuGGccGCCgGCa -3'
miRNA:   3'- -GCUCGCa-------CGACUGCGuCCauUGGaUG- -5'
23572 3' -53.9 NC_005261.1 + 1047 0.66 0.953316
Target:  5'- gCGGGCGgcgGCguuagcGGCGCGGGggGCUgGCc -3'
miRNA:   3'- -GCUCGCa--CGa-----CUGCGUCCauUGGaUG- -5'
23572 3' -53.9 NC_005261.1 + 110901 0.66 0.953316
Target:  5'- uGGGCGacUGC-GACGCGacGGUGuuCCUGCc -3'
miRNA:   3'- gCUCGC--ACGaCUGCGU--CCAUu-GGAUG- -5'
23572 3' -53.9 NC_005261.1 + 124181 0.66 0.953316
Target:  5'- aGAGCGUcGCgugggggGACGCGuccGGUGGCgugaaCUGCg -3'
miRNA:   3'- gCUCGCA-CGa------CUGCGU---CCAUUG-----GAUG- -5'
23572 3' -53.9 NC_005261.1 + 116483 0.66 0.953316
Target:  5'- gCGGGCGggGCgGGCGCGcGGUAuaaagagcgccGCCgcgGCg -3'
miRNA:   3'- -GCUCGCa-CGaCUGCGU-CCAU-----------UGGa--UG- -5'
23572 3' -53.9 NC_005261.1 + 38945 0.66 0.949545
Target:  5'- cCGGGCGggccgcggcgcgcggGCUG-CGCAGcaacaagAGCCUGCa -3'
miRNA:   3'- -GCUCGCa--------------CGACuGCGUCca-----UUGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 80281 0.66 0.949114
Target:  5'- -cGGCGUGCgcacacgGGCGCuGGU-GCCggGCa -3'
miRNA:   3'- gcUCGCACGa------CUGCGuCCAuUGGa-UG- -5'
23572 3' -53.9 NC_005261.1 + 27200 0.66 0.949114
Target:  5'- uGuAGCGcucGCUG-CgGCAGGUGACCcGCg -3'
miRNA:   3'- gC-UCGCa--CGACuG-CGUCCAUUGGaUG- -5'
23572 3' -53.9 NC_005261.1 + 30916 0.66 0.949114
Target:  5'- uGGGCGaGCUGcACGC-GGcGGCCUGg -3'
miRNA:   3'- gCUCGCaCGAC-UGCGuCCaUUGGAUg -5'
23572 3' -53.9 NC_005261.1 + 2346 0.66 0.949114
Target:  5'- aCGu-CGUGCUGcCGCAGG---CCUGCu -3'
miRNA:   3'- -GCucGCACGACuGCGUCCauuGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 14379 0.66 0.949114
Target:  5'- aCGAGCG-GCUGcCGCuAGGcagcgcGACgCUGCa -3'
miRNA:   3'- -GCUCGCaCGACuGCG-UCCa-----UUG-GAUG- -5'
23572 3' -53.9 NC_005261.1 + 101615 0.66 0.949114
Target:  5'- cCGuuUGUGCgccggGGCGCAGG-AGCgCUGCc -3'
miRNA:   3'- -GCucGCACGa----CUGCGUCCaUUG-GAUG- -5'
23572 3' -53.9 NC_005261.1 + 108995 0.66 0.944668
Target:  5'- uCGcGCG-GCgc-CGCGGcGUAGCCUGCg -3'
miRNA:   3'- -GCuCGCaCGacuGCGUC-CAUUGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 64867 0.66 0.944668
Target:  5'- --cGCGUGCUGGCGCcgccugAGCCgGCg -3'
miRNA:   3'- gcuCGCACGACUGCGucca--UUGGaUG- -5'
23572 3' -53.9 NC_005261.1 + 14609 0.66 0.944668
Target:  5'- gCGcAGCG-GCUGAUggGCAGccugAACCUGCu -3'
miRNA:   3'- -GC-UCGCaCGACUG--CGUCca--UUGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 4478 0.66 0.944668
Target:  5'- uCGcGCG-GCgc-CGCGGcGUAGCCUGCg -3'
miRNA:   3'- -GCuCGCaCGacuGCGUC-CAUUGGAUG- -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.