miRNA display CGI


Results 1 - 20 of 31 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
2656 3' -57.7 NC_001491.2 + 136256 0.66 0.872592
Target:  5'- cCCUCCGgaaaacccagcucgcCUUGUAGCCgcugGUAuAGCGCg -3'
miRNA:   3'- -GGAGGCa--------------GAGCGUCGGag--CGU-UCGCG- -5'
2656 3' -57.7 NC_001491.2 + 35436 0.66 0.871874
Target:  5'- gCCUacaCGguggacaCUCGC-GCCg-GCGAGCGCa -3'
miRNA:   3'- -GGAg--GCa------GAGCGuCGGagCGUUCGCG- -5'
2656 3' -57.7 NC_001491.2 + 61171 0.66 0.871874
Target:  5'- uCUUCCaa-UUGCAGCCUCu--GGCGCc -3'
miRNA:   3'- -GGAGGcagAGCGUCGGAGcguUCGCG- -5'
2656 3' -57.7 NC_001491.2 + 4783 0.66 0.871874
Target:  5'- gCCUCCuccCggGCGGCUgggaGCGGGCGCc -3'
miRNA:   3'- -GGAGGca-GagCGUCGGag--CGUUCGCG- -5'
2656 3' -57.7 NC_001491.2 + 3510 0.66 0.86752
Target:  5'- gCCgCCGUCUC-CAGCCcggccggguuggaGCAcAGCGCc -3'
miRNA:   3'- -GGaGGCAGAGcGUCGGag-----------CGU-UCGCG- -5'
2656 3' -57.7 NC_001491.2 + 56596 0.66 0.864577
Target:  5'- --aCCGgccCUCGCAGUUUUGguGGCGa -3'
miRNA:   3'- ggaGGCa--GAGCGUCGGAGCguUCGCg -5'
2656 3' -57.7 NC_001491.2 + 1758 0.66 0.864577
Target:  5'- aCUCC--CUCGgAGCCaggggaaCGCGGGUGCg -3'
miRNA:   3'- gGAGGcaGAGCgUCGGa------GCGUUCGCG- -5'
2656 3' -57.7 NC_001491.2 + 99344 0.66 0.857078
Target:  5'- gCUUCGUCUCuugGCGGCCgauccacaucgaUCGCGaugaacgccccgAGUGCu -3'
miRNA:   3'- gGAGGCAGAG---CGUCGG------------AGCGU------------UCGCG- -5'
2656 3' -57.7 NC_001491.2 + 35644 0.66 0.857078
Target:  5'- gCC-CCGUguacCUCGCcugcGGCCggCGC-GGCGCu -3'
miRNA:   3'- -GGaGGCA----GAGCG----UCGGa-GCGuUCGCG- -5'
2656 3' -57.7 NC_001491.2 + 40926 0.66 0.854789
Target:  5'- uCCUCC-UCUagaucgaagcccccCGCAGCCUUGCucguccuGgGCa -3'
miRNA:   3'- -GGAGGcAGA--------------GCGUCGGAGCGuu-----CgCG- -5'
2656 3' -57.7 NC_001491.2 + 90042 0.66 0.841497
Target:  5'- uCCUCCGugccggcgcUCUUGCcguuguGuCCUUGCAcGCGCc -3'
miRNA:   3'- -GGAGGC---------AGAGCGu-----C-GGAGCGUuCGCG- -5'
2656 3' -57.7 NC_001491.2 + 79331 0.66 0.833428
Target:  5'- aCUCagGUUgCGCAGCUUUaGCAucAGCGCg -3'
miRNA:   3'- gGAGg-CAGaGCGUCGGAG-CGU--UCGCG- -5'
2656 3' -57.7 NC_001491.2 + 120828 0.67 0.825182
Target:  5'- uCC-CCGggagugCGCGcGCCU-GCAGGCGCu -3'
miRNA:   3'- -GGaGGCaga---GCGU-CGGAgCGUUCGCG- -5'
2656 3' -57.7 NC_001491.2 + 32949 0.67 0.825182
Target:  5'- uCCUggCCGcCUCGC-GCUaCGCcgAGGCGCa -3'
miRNA:   3'- -GGA--GGCaGAGCGuCGGaGCG--UUCGCG- -5'
2656 3' -57.7 NC_001491.2 + 3889 0.67 0.816767
Target:  5'- uCC-CCGcCUCGUcucucggguaGGCCauguccgCGUAGGCGCg -3'
miRNA:   3'- -GGaGGCaGAGCG----------UCGGa------GCGUUCGCG- -5'
2656 3' -57.7 NC_001491.2 + 60970 0.67 0.781569
Target:  5'- gCCUCCa-CUCGCug---CGCGAGCGCu -3'
miRNA:   3'- -GGAGGcaGAGCGucggaGCGUUCGCG- -5'
2656 3' -57.7 NC_001491.2 + 28645 0.68 0.76316
Target:  5'- uCCgagCCGcCggGgAGCCUCGCGGGCacGCg -3'
miRNA:   3'- -GGa--GGCaGagCgUCGGAGCGUUCG--CG- -5'
2656 3' -57.7 NC_001491.2 + 110772 0.68 0.76316
Target:  5'- aCUCUGg--CGCGGCUUCGCGAGa-- -3'
miRNA:   3'- gGAGGCagaGCGUCGGAGCGUUCgcg -5'
2656 3' -57.7 NC_001491.2 + 35140 0.68 0.734728
Target:  5'- aCCUCUGcCUgCGCcugGGCUcCGCcAGGCGCa -3'
miRNA:   3'- -GGAGGCaGA-GCG---UCGGaGCG-UUCGCG- -5'
2656 3' -57.7 NC_001491.2 + 108993 0.68 0.725067
Target:  5'- gCUCCGagcggCUUcggcuugaguaGCAGCCUCGC--GCGCc -3'
miRNA:   3'- gGAGGCa----GAG-----------CGUCGGAGCGuuCGCG- -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.