miRNA display CGI


Results 1 - 20 of 33 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
12508 3' -55.9 NC_003345.1 + 396 0.69 0.589249
Target:  5'- aCGGGCCgUACuUACCGaau--CCGCCg -3'
miRNA:   3'- aGCCCGG-AUGuAUGGCccuuuGGCGG- -5'
12508 3' -55.9 NC_003345.1 + 683 0.7 0.582925
Target:  5'- -gGGGCCgaccgccccgguuaACAUcaaACCGGGGcgGGCCGCUu -3'
miRNA:   3'- agCCCGGa-------------UGUA---UGGCCCU--UUGGCGG- -5'
12508 3' -55.9 NC_003345.1 + 727 0.69 0.631637
Target:  5'- cCGGGCCUuuuacGCCGGGGAGuauaucccCCgGCCc -3'
miRNA:   3'- aGCCCGGAugua-UGGCCCUUU--------GG-CGG- -5'
12508 3' -55.9 NC_003345.1 + 829 0.67 0.715821
Target:  5'- aCGGGCCg----ACCGGGGAgacggaACCGg- -3'
miRNA:   3'- aGCCCGGauguaUGGCCCUU------UGGCgg -5'
12508 3' -55.9 NC_003345.1 + 1153 0.74 0.335079
Target:  5'- aCGGGCCUAUGUgguuuaggGCCGGuucGGGCCGCUu -3'
miRNA:   3'- aGCCCGGAUGUA--------UGGCCc--UUUGGCGG- -5'
12508 3' -55.9 NC_003345.1 + 1369 0.74 0.35918
Target:  5'- uUCGGGCCguacuucaaACGUaacACCGGGAAACaCGUUc -3'
miRNA:   3'- -AGCCCGGa--------UGUA---UGGCCCUUUG-GCGG- -5'
12508 3' -55.9 NC_003345.1 + 1418 1.11 0.001036
Target:  5'- uUCGGGCCUACAUACCGGGAAACCGCCc -3'
miRNA:   3'- -AGCCCGGAUGUAUGGCCCUUUGGCGG- -5'
12508 3' -55.9 NC_003345.1 + 10560 0.71 0.486574
Target:  5'- aCGGGCCgACcgggAUUGGGAAGUCGCCc -3'
miRNA:   3'- aGCCCGGaUGua--UGGCCCUUUGGCGG- -5'
12508 3' -55.9 NC_003345.1 + 15317 0.68 0.657107
Target:  5'- -gGGGCCgACGUgguuGCCGGucuuaucgguguuGACCGCCa -3'
miRNA:   3'- agCCCGGaUGUA----UGGCCcu-----------UUGGCGG- -5'
12508 3' -55.9 NC_003345.1 + 17617 0.67 0.715821
Target:  5'- aCGGaGCCaGCGgGCCGuaGAACCGCUc -3'
miRNA:   3'- aGCC-CGGaUGUaUGGCccUUUGGCGG- -5'
12508 3' -55.9 NC_003345.1 + 21864 0.7 0.546357
Target:  5'- gUCGgcGGCCUGCGggacACCcucGGGAAgccccucgucgucACCGCCg -3'
miRNA:   3'- -AGC--CCGGAUGUa---UGG---CCCUU-------------UGGCGG- -5'
12508 3' -55.9 NC_003345.1 + 24582 0.67 0.715821
Target:  5'- cUC-GGCg-GCAggacGCCGGGAggUCGCCc -3'
miRNA:   3'- -AGcCCGgaUGUa---UGGCCCUuuGGCGG- -5'
12508 3' -55.9 NC_003345.1 + 25037 0.73 0.401967
Target:  5'- aCGGGCCUuCGUAgCGGGAGAUUagGUCu -3'
miRNA:   3'- aGCCCGGAuGUAUgGCCCUUUGG--CGG- -5'
12508 3' -55.9 NC_003345.1 + 29820 0.67 0.705462
Target:  5'- cUCGGucGUCUACuGUACCGGGugcGCC-CCg -3'
miRNA:   3'- -AGCC--CGGAUG-UAUGGCCCuu-UGGcGG- -5'
12508 3' -55.9 NC_003345.1 + 31411 0.67 0.726103
Target:  5'- gUCGGGUugCUACGUucccCCGG--AAUCGCCa -3'
miRNA:   3'- -AGCCCG--GAUGUAu---GGCCcuUUGGCGG- -5'
12508 3' -55.9 NC_003345.1 + 31952 0.69 0.599816
Target:  5'- uUCGGGCgaACcgaaGCCGGGAAGuCCGaCUc -3'
miRNA:   3'- -AGCCCGgaUGua--UGGCCCUUU-GGC-GG- -5'
12508 3' -55.9 NC_003345.1 + 32454 0.78 0.199536
Target:  5'- aCGGGCCUGucCGUACuCGGGGAAuccuUCGCCc -3'
miRNA:   3'- aGCCCGGAU--GUAUG-GCCCUUU----GGCGG- -5'
12508 3' -55.9 NC_003345.1 + 32803 0.67 0.705462
Target:  5'- gUCGGGCCgcCGUaGCCGGuGuagguGuuGCCg -3'
miRNA:   3'- -AGCCCGGauGUA-UGGCC-Cuu---UggCGG- -5'
12508 3' -55.9 NC_003345.1 + 33059 0.72 0.447855
Target:  5'- cCGaGGgCUAC--GCCGGGccGACCGCCa -3'
miRNA:   3'- aGC-CCgGAUGuaUGGCCCu-UUGGCGG- -5'
12508 3' -55.9 NC_003345.1 + 33115 0.71 0.486574
Target:  5'- -gGGGCCUACGUGuucCCGGcGuucAACgGCCu -3'
miRNA:   3'- agCCCGGAUGUAU---GGCC-Cu--UUGgCGG- -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.