miRNA display CGI


Results 1 - 20 of 41 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
15946 3' -57.3 NC_004065.1 + 131162 0.66 0.932837
Target:  5'- aCGACGACCCccguuccGGCAGCgcaCCCacgcauccugcuugcGUCAa -3'
miRNA:   3'- aGCUGCUGGGa------CCGUUGa--GGG---------------CAGUa -5'
15946 3' -57.3 NC_004065.1 + 155201 0.66 0.930868
Target:  5'- cUCGGuccCGACCCgGGCGuCUCCacgcuCGUCAg -3'
miRNA:   3'- -AGCU---GCUGGGaCCGUuGAGG-----GCAGUa -5'
15946 3' -57.3 NC_004065.1 + 83431 0.66 0.914959
Target:  5'- cCGACGGCCCcgaUGGCcAC-CCCGaUCc- -3'
miRNA:   3'- aGCUGCUGGG---ACCGuUGaGGGC-AGua -5'
15946 3' -57.3 NC_004065.1 + 65439 0.66 0.914959
Target:  5'- gCGGCGGCCgUGGUGGCUCUgGa--- -3'
miRNA:   3'- aGCUGCUGGgACCGUUGAGGgCagua -5'
15946 3' -57.3 NC_004065.1 + 60681 0.66 0.914394
Target:  5'- -aGACGGCCCaccagGGCGagacggugauggcGCUgcgCCCGUCAc -3'
miRNA:   3'- agCUGCUGGGa----CCGU-------------UGA---GGGCAGUa -5'
15946 3' -57.3 NC_004065.1 + 151156 0.66 0.909211
Target:  5'- cUCcGCGACaCCUGGUcgUUCCCGUa-- -3'
miRNA:   3'- -AGcUGCUG-GGACCGuuGAGGGCAgua -5'
15946 3' -57.3 NC_004065.1 + 198705 0.66 0.909211
Target:  5'- -aGGCGGCCCUGGCucugUCCCa---- -3'
miRNA:   3'- agCUGCUGGGACCGuug-AGGGcagua -5'
15946 3' -57.3 NC_004065.1 + 104773 0.67 0.903242
Target:  5'- aCGGCGACCC-GGCGGC-CUCGa--- -3'
miRNA:   3'- aGCUGCUGGGaCCGUUGaGGGCagua -5'
15946 3' -57.3 NC_004065.1 + 196407 0.67 0.897055
Target:  5'- gCGAUGGCCUUGGCcauGCcggCCCG-CAg -3'
miRNA:   3'- aGCUGCUGGGACCGu--UGa--GGGCaGUa -5'
15946 3' -57.3 NC_004065.1 + 96883 0.67 0.890652
Target:  5'- cCGugGACCgUGGUggAGCUCaCgGUCGa -3'
miRNA:   3'- aGCugCUGGgACCG--UUGAG-GgCAGUa -5'
15946 3' -57.3 NC_004065.1 + 171021 0.67 0.890652
Target:  5'- cCGcCGACCCUGGCcuuucgcCUCaaGUCGUa -3'
miRNA:   3'- aGCuGCUGGGACCGuu-----GAGggCAGUA- -5'
15946 3' -57.3 NC_004065.1 + 138367 0.67 0.884037
Target:  5'- -aGACGGCCgggGGCAACUucuugCUCGUCAc -3'
miRNA:   3'- agCUGCUGGga-CCGUUGA-----GGGCAGUa -5'
15946 3' -57.3 NC_004065.1 + 188510 0.67 0.883364
Target:  5'- cCG-CGACUCUGGCGggaccgcccgcgcGCUCcCCGUCc- -3'
miRNA:   3'- aGCuGCUGGGACCGU-------------UGAG-GGCAGua -5'
15946 3' -57.3 NC_004065.1 + 137037 0.67 0.877214
Target:  5'- cCGA--GCCCUGGCAGCUCuuGa--- -3'
miRNA:   3'- aGCUgcUGGGACCGUUGAGggCagua -5'
15946 3' -57.3 NC_004065.1 + 68375 0.67 0.877214
Target:  5'- aCGACGACCgaGGCGAagaUCgCCGcguUCGUg -3'
miRNA:   3'- aGCUGCUGGgaCCGUUg--AG-GGC---AGUA- -5'
15946 3' -57.3 NC_004065.1 + 208040 0.67 0.877214
Target:  5'- gUCGGCGugGCCgUGGCGGCccUCaCCGUCc- -3'
miRNA:   3'- -AGCUGC--UGGgACCGUUG--AG-GGCAGua -5'
15946 3' -57.3 NC_004065.1 + 37497 0.68 0.855536
Target:  5'- --uGCGGacCCCUGGCGGCUCuCCGcCAa -3'
miRNA:   3'- agcUGCU--GGGACCGUUGAG-GGCaGUa -5'
15946 3' -57.3 NC_004065.1 + 1571 0.68 0.840131
Target:  5'- aCGGCGugCCUGcgaGCGACcUCCGUCu- -3'
miRNA:   3'- aGCUGCugGGAC---CGUUGaGGGCAGua -5'
15946 3' -57.3 NC_004065.1 + 164380 0.68 0.840131
Target:  5'- gCGGCGGCagcGGCAGCgggUCCGUCAg -3'
miRNA:   3'- aGCUGCUGggaCCGUUGa--GGGCAGUa -5'
15946 3' -57.3 NC_004065.1 + 18557 0.68 0.83216
Target:  5'- cCGACGACCuCUccGGCGACUCCUc---- -3'
miRNA:   3'- aGCUGCUGG-GA--CCGUUGAGGGcagua -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.