miRNA display CGI


Results 21 - 39 of 39 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
23808 3' -54.4 NC_005261.1 + 104174 0.69 0.826686
Target:  5'- cGGGCGCCGcgcgCGGGUcgUCGGGCggGACg- -3'
miRNA:   3'- -CUUGCGGCa---GCUCA--AGCUCGa-CUGgu -5'
23808 3' -54.4 NC_005261.1 + 105377 0.69 0.818018
Target:  5'- cGGCGCgCG-CGGGUgCGcGCUGACCAc -3'
miRNA:   3'- cUUGCG-GCaGCUCAaGCuCGACUGGU- -5'
23808 3' -54.4 NC_005261.1 + 34298 0.69 0.818018
Target:  5'- gGGACGCCGggagCGAGaccgaCGGGgaGGCCGa -3'
miRNA:   3'- -CUUGCGGCa---GCUCaa---GCUCgaCUGGU- -5'
23808 3' -54.4 NC_005261.1 + 31651 0.69 0.809175
Target:  5'- cGGCGCgGUCGAGUaccucugccugCG-GCUGGCCGc -3'
miRNA:   3'- cUUGCGgCAGCUCAa----------GCuCGACUGGU- -5'
23808 3' -54.4 NC_005261.1 + 16294 0.69 0.809175
Target:  5'- gGGGCGCCGUCGGGcccagCG-GC-GGCCGg -3'
miRNA:   3'- -CUUGCGGCAGCUCaa---GCuCGaCUGGU- -5'
23808 3' -54.4 NC_005261.1 + 71676 0.69 0.809175
Target:  5'- -uGCGCaCGUCGGcGUcugCGGGCgUGACCAu -3'
miRNA:   3'- cuUGCG-GCAGCU-CAa--GCUCG-ACUGGU- -5'
23808 3' -54.4 NC_005261.1 + 23556 0.69 0.809175
Target:  5'- ---aGCCGUCGcaGGUggggcaGGGCUGGCCGu -3'
miRNA:   3'- cuugCGGCAGC--UCAag----CUCGACUGGU- -5'
23808 3' -54.4 NC_005261.1 + 28588 0.7 0.800167
Target:  5'- cGAGCGCCGgCGGGccgcccgcgcCGAGCUGGCgGa -3'
miRNA:   3'- -CUUGCGGCaGCUCaa--------GCUCGACUGgU- -5'
23808 3' -54.4 NC_005261.1 + 90243 0.7 0.791002
Target:  5'- -cGCGCCGUCGGGUaUCaGGGC--GCCAa -3'
miRNA:   3'- cuUGCGGCAGCUCA-AG-CUCGacUGGU- -5'
23808 3' -54.4 NC_005261.1 + 121646 0.71 0.743154
Target:  5'- --cCGCCGgCGAGcgCGGGCUGuCCGc -3'
miRNA:   3'- cuuGCGGCaGCUCaaGCUCGACuGGU- -5'
23808 3' -54.4 NC_005261.1 + 89450 0.71 0.727257
Target:  5'- --cCGCCGUgcuggaguuugacagCGAGUUCGAGCUGcuGCUg -3'
miRNA:   3'- cuuGCGGCA---------------GCUCAAGCUCGAC--UGGu -5'
23808 3' -54.4 NC_005261.1 + 35303 0.71 0.703017
Target:  5'- aGAGCGCCGggcCGGGcugcUCGGGgaGGCCGg -3'
miRNA:   3'- -CUUGCGGCa--GCUCa---AGCUCgaCUGGU- -5'
23808 3' -54.4 NC_005261.1 + 53881 0.72 0.692805
Target:  5'- -cGCGCUGUCGAG-UCGAaGCgGGCCc -3'
miRNA:   3'- cuUGCGGCAGCUCaAGCU-CGaCUGGu -5'
23808 3' -54.4 NC_005261.1 + 40676 0.72 0.682541
Target:  5'- cGACGCCGUCGGGgagcCGGcGCcGGCCGg -3'
miRNA:   3'- cUUGCGGCAGCUCaa--GCU-CGaCUGGU- -5'
23808 3' -54.4 NC_005261.1 + 68898 0.72 0.682541
Target:  5'- cGGACGCCGUCGuccugaaGAGC-GACCAc -3'
miRNA:   3'- -CUUGCGGCAGCucaag--CUCGaCUGGU- -5'
23808 3' -54.4 NC_005261.1 + 72464 0.72 0.672234
Target:  5'- cGAGCGCgG-CGAGcgCGAGCgcGGCCAg -3'
miRNA:   3'- -CUUGCGgCaGCUCaaGCUCGa-CUGGU- -5'
23808 3' -54.4 NC_005261.1 + 27795 0.72 0.672234
Target:  5'- --uUGCCGUCGAG--CGAGCUaGCCAg -3'
miRNA:   3'- cuuGCGGCAGCUCaaGCUCGAcUGGU- -5'
23808 3' -54.4 NC_005261.1 + 85804 0.73 0.62037
Target:  5'- aGACgGCCGUCGAGUaCGGGUccaGGCCAg -3'
miRNA:   3'- cUUG-CGGCAGCUCAaGCUCGa--CUGGU- -5'
23808 3' -54.4 NC_005261.1 + 133212 0.82 0.199898
Target:  5'- cGACGCCGUCGAGgcCGAGCUGggGCCc -3'
miRNA:   3'- cUUGCGGCAGCUCaaGCUCGAC--UGGu -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.