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
25517 5' -55.1 NC_005337.1 + 59164 0.66 0.921121
Target:  5'- -aCGACGuuccUCCCCCAGGCCgugcgUCGgggcACCg -3'
miRNA:   3'- gaGUUGU----AGGGGGUCUGGa----GGU----UGGa -5'
25517 5' -55.1 NC_005337.1 + 133267 0.66 0.915325
Target:  5'- uUCGACggCCUCCAGGcgacgcccgcCCUCCGccgcGCCg -3'
miRNA:   3'- gAGUUGuaGGGGGUCU----------GGAGGU----UGGa -5'
25517 5' -55.1 NC_005337.1 + 133267 0.66 0.915325
Target:  5'- uUCGACggCCUCCAGGcgacgcccgcCCUCCGccgcGCCg -3'
miRNA:   3'- gAGUUGuaGGGGGUCU----------GGAGGU----UGGa -5'
25517 5' -55.1 NC_005337.1 + 53828 0.66 0.915325
Target:  5'- -aCAGCGUCuCCUCGGACCggCUGGCgCUg -3'
miRNA:   3'- gaGUUGUAG-GGGGUCUGGa-GGUUG-GA- -5'
25517 5' -55.1 NC_005337.1 + 53746 0.66 0.913538
Target:  5'- gUgGACAUCuccgcgCCCCGGGCCUcggcgugcccgcccCCGGCCg -3'
miRNA:   3'- gAgUUGUAG------GGGGUCUGGA--------------GGUUGGa -5'
25517 5' -55.1 NC_005337.1 + 102249 0.66 0.909282
Target:  5'- uUCGugAUCUCCUccgcgaAGACCUUCAucACCg -3'
miRNA:   3'- gAGUugUAGGGGG------UCUGGAGGU--UGGa -5'
25517 5' -55.1 NC_005337.1 + 32753 0.66 0.909282
Target:  5'- gUC-ACGUCCa-CGG-CCUCCAGCCg -3'
miRNA:   3'- gAGuUGUAGGggGUCuGGAGGUUGGa -5'
25517 5' -55.1 NC_005337.1 + 56603 0.66 0.909282
Target:  5'- gUCGACcgCUUCCuGGCCUucgCCGGCCg -3'
miRNA:   3'- gAGUUGuaGGGGGuCUGGA---GGUUGGa -5'
25517 5' -55.1 NC_005337.1 + 123548 0.66 0.89713
Target:  5'- cCUCGACAUCCUCCGGcGCCggucggaggacgagcCCGAgCUc -3'
miRNA:   3'- -GAGUUGUAGGGGGUC-UGGa--------------GGUUgGA- -5'
25517 5' -55.1 NC_005337.1 + 124679 0.66 0.896467
Target:  5'- gUCAGgAUCCCCguGcUCUUCGACCc -3'
miRNA:   3'- gAGUUgUAGGGGguCuGGAGGUUGGa -5'
25517 5' -55.1 NC_005337.1 + 112739 0.66 0.896467
Target:  5'- uUCAACGUCgugaaCCCCuccGGCUuucgUCCGGCCUg -3'
miRNA:   3'- gAGUUGUAG-----GGGGu--CUGG----AGGUUGGA- -5'
25517 5' -55.1 NC_005337.1 + 29496 0.66 0.889699
Target:  5'- uUCAGCcggaaGUCCUCCAGGagcuUCUCCAGCa- -3'
miRNA:   3'- gAGUUG-----UAGGGGGUCU----GGAGGUUGga -5'
25517 5' -55.1 NC_005337.1 + 123935 0.66 0.889699
Target:  5'- -aCGACGUUCCCCAcGCC-CCGcgaGCCg -3'
miRNA:   3'- gaGUUGUAGGGGGUcUGGaGGU---UGGa -5'
25517 5' -55.1 NC_005337.1 + 45975 0.67 0.882697
Target:  5'- --uGACGUCCCCgAGcuugauguccGCCUCC-ACCg -3'
miRNA:   3'- gagUUGUAGGGGgUC----------UGGAGGuUGGa -5'
25517 5' -55.1 NC_005337.1 + 72057 0.67 0.875464
Target:  5'- aUCGGCAUCCCCguGuCCcgCCGgaaacugaACCUg -3'
miRNA:   3'- gAGUUGUAGGGGguCuGGa-GGU--------UGGA- -5'
25517 5' -55.1 NC_005337.1 + 1773 0.67 0.868007
Target:  5'- -gCGGCAUCCCgccggccgCCAGucCCUCCuGCCg -3'
miRNA:   3'- gaGUUGUAGGG--------GGUCu-GGAGGuUGGa -5'
25517 5' -55.1 NC_005337.1 + 121546 0.67 0.852438
Target:  5'- --gGACAUCCUCCGGcACCUCCucgAGCg- -3'
miRNA:   3'- gagUUGUAGGGGGUC-UGGAGG---UUGga -5'
25517 5' -55.1 NC_005337.1 + 89085 0.67 0.852438
Target:  5'- -gCGACAgCgCCCCGGGCacggCCAGCCg -3'
miRNA:   3'- gaGUUGUaG-GGGGUCUGga--GGUUGGa -5'
25517 5' -55.1 NC_005337.1 + 85426 0.68 0.844341
Target:  5'- -gCAGCAUCUCCCGGuacuCCUUgAGCUUc -3'
miRNA:   3'- gaGUUGUAGGGGGUCu---GGAGgUUGGA- -5'
25517 5' -55.1 NC_005337.1 + 33752 0.68 0.844341
Target:  5'- --aGACAUCCCCC--ACCUCCGcGCUg -3'
miRNA:   3'- gagUUGUAGGGGGucUGGAGGU-UGGa -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.