miRNA display CGI


Results 1 - 20 of 82 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
31009 3' -55.6 NC_006560.1 + 149994 0.67 0.887325
Target:  5'- -aCCGGGGCCGcgcucGGGACcgCGGGCg--- -3'
miRNA:   3'- gaGGCCCCGGU-----CUUUGa-GCUCGaacc -5'
31009 3' -55.6 NC_006560.1 + 149763 0.68 0.842483
Target:  5'- -cCCGGGGCgCGGggGCgUCGAgGCg--- -3'
miRNA:   3'- gaGGCCCCG-GUCuuUG-AGCU-CGaacc -5'
31009 3' -55.6 NC_006560.1 + 148694 0.67 0.900531
Target:  5'- -cCCGGGGCCgccguccaauGGGAGCccCGAGCg--- -3'
miRNA:   3'- gaGGCCCCGG----------UCUUUGa-GCUCGaacc -5'
31009 3' -55.6 NC_006560.1 + 147272 0.7 0.734066
Target:  5'- cCUCUGGcGGCC-GggGC-CGGGCggGGg -3'
miRNA:   3'- -GAGGCC-CCGGuCuuUGaGCUCGaaCC- -5'
31009 3' -55.6 NC_006560.1 + 147020 0.66 0.924151
Target:  5'- -aCCGGGGCCacgGGggGCccCGAGaCggccgGGg -3'
miRNA:   3'- gaGGCCCCGG---UCuuUGa-GCUC-Gaa---CC- -5'
31009 3' -55.6 NC_006560.1 + 146957 0.71 0.684256
Target:  5'- -gUCaGGGCCGGggGC-CGGGCcUGGg -3'
miRNA:   3'- gaGGcCCCGGUCuuUGaGCUCGaACC- -5'
31009 3' -55.6 NC_006560.1 + 146894 0.67 0.894042
Target:  5'- -gCCuGGGCCAGGgccgccugGGCcCGGGCUUGa -3'
miRNA:   3'- gaGGcCCCGGUCU--------UUGaGCUCGAACc -5'
31009 3' -55.6 NC_006560.1 + 146598 0.66 0.924151
Target:  5'- -cCCGaGGCCGGgcGCUugCGGGCcUGGg -3'
miRNA:   3'- gaGGCcCCGGUCuuUGA--GCUCGaACC- -5'
31009 3' -55.6 NC_006560.1 + 146001 0.69 0.808706
Target:  5'- -aCCGGGGucauCCAGAGGCcgUGGGCggGGu -3'
miRNA:   3'- gaGGCCCC----GGUCUUUGa-GCUCGaaCC- -5'
31009 3' -55.6 NC_006560.1 + 145080 0.66 0.918601
Target:  5'- --gCGGGGCCGGGccuCcCGAGCcccUGGg -3'
miRNA:   3'- gagGCCCCGGUCUuu-GaGCUCGa--ACC- -5'
31009 3' -55.6 NC_006560.1 + 142361 0.71 0.714343
Target:  5'- cCUCgGGGGCCGGggGCggCG-GCcuccgGGa -3'
miRNA:   3'- -GAGgCCCCGGUCuuUGa-GCuCGaa---CC- -5'
31009 3' -55.6 NC_006560.1 + 139719 0.66 0.929463
Target:  5'- --gCGGGGUCGGGGcggaucgcGCUCuGGGCgUGGg -3'
miRNA:   3'- gagGCCCCGGUCUU--------UGAG-CUCGaACC- -5'
31009 3' -55.6 NC_006560.1 + 137092 0.69 0.799843
Target:  5'- -cCCGGGGCUGGAcGCggccaagCGGGCccGGg -3'
miRNA:   3'- gaGGCCCCGGUCUuUGa------GCUCGaaCC- -5'
31009 3' -55.6 NC_006560.1 + 133520 0.69 0.799843
Target:  5'- -gCCGGGGUCGGcgGCUucgUGGGCggGGa -3'
miRNA:   3'- gaGGCCCCGGUCuuUGA---GCUCGaaCC- -5'
31009 3' -55.6 NC_006560.1 + 129047 0.66 0.924151
Target:  5'- cCUCCGGGcCCAGcgGCcccuccgCGAGCUgcgcGGc -3'
miRNA:   3'- -GAGGCCCcGGUCuuUGa------GCUCGAa---CC- -5'
31009 3' -55.6 NC_006560.1 + 128323 0.71 0.684256
Target:  5'- -cCCGGGGCCGGGAcguuCUUcgggGAGCU-GGa -3'
miRNA:   3'- gaGGCCCCGGUCUUu---GAG----CUCGAaCC- -5'
31009 3' -55.6 NC_006560.1 + 123949 0.67 0.894042
Target:  5'- -gCCGGaGGCCGGGGACgaggGAGCggcgccGGg -3'
miRNA:   3'- gaGGCC-CCGGUCUUUGag--CUCGaa----CC- -5'
31009 3' -55.6 NC_006560.1 + 122779 0.7 0.734066
Target:  5'- -cCCGGGGCCcGGAGCUucggCGGGUccGGg -3'
miRNA:   3'- gaGGCCCCGGuCUUUGA----GCUCGaaCC- -5'
31009 3' -55.6 NC_006560.1 + 121501 1.1 0.002861
Target:  5'- gCUCCGGGGCCAGAAACUCGAGCUUGGu -3'
miRNA:   3'- -GAGGCCCCGGUCUUUGAGCUCGAACC- -5'
31009 3' -55.6 NC_006560.1 + 116037 0.71 0.684256
Target:  5'- -cCCGGGGCCgacAGAAACagucUCGAGgCggggUGGg -3'
miRNA:   3'- gaGGCCCCGG---UCUUUG----AGCUC-Ga---ACC- -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.