miRNA display CGI


Results 21 - 39 of 39 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
1897 3' -62.2 NC_001347.2 + 222427 0.67 0.670735
Target:  5'- cGCCGCgUCUCGUUCGuCgagGCCGAUc -3'
miRNA:   3'- -UGGCGgAGGGCGAGCcGaa-CGGCUGu -5'
1897 3' -62.2 NC_001347.2 + 75566 0.67 0.670735
Target:  5'- gGCCGCCUgCUCGCagGGCgUGCguuCGAUAa -3'
miRNA:   3'- -UGGCGGA-GGGCGagCCGaACG---GCUGU- -5'
1897 3' -62.2 NC_001347.2 + 157399 0.67 0.66118
Target:  5'- -aCGCUUCCUGCgcgaaUGGCUggugUGUCGGCAa -3'
miRNA:   3'- ugGCGGAGGGCGa----GCCGA----ACGGCUGU- -5'
1897 3' -62.2 NC_001347.2 + 2398 0.67 0.66118
Target:  5'- cGCCGCCgaggCCgCGCggCGGCUgcUGcCCGAg- -3'
miRNA:   3'- -UGGCGGa---GG-GCGa-GCCGA--AC-GGCUgu -5'
1897 3' -62.2 NC_001347.2 + 38308 0.67 0.651605
Target:  5'- -gCGCC-CCCGC-CGGCggcGCCGuACGg -3'
miRNA:   3'- ugGCGGaGGGCGaGCCGaa-CGGC-UGU- -5'
1897 3' -62.2 NC_001347.2 + 196141 0.67 0.651605
Target:  5'- gGCCGCUgCCUGC-CGGCggcccugUGCCG-CGg -3'
miRNA:   3'- -UGGCGGaGGGCGaGCCGa------ACGGCuGU- -5'
1897 3' -62.2 NC_001347.2 + 168298 0.68 0.622822
Target:  5'- aACCGCCcuUCuuGCcgCGGCgcucgGUCGACGc -3'
miRNA:   3'- -UGGCGG--AGggCGa-GCCGaa---CGGCUGU- -5'
1897 3' -62.2 NC_001347.2 + 172697 0.68 0.594096
Target:  5'- aGCCGCCgacgCUgGCgcugCGGCUgaaGCCGuACAa -3'
miRNA:   3'- -UGGCGGa---GGgCGa---GCCGAa--CGGC-UGU- -5'
1897 3' -62.2 NC_001347.2 + 124878 0.68 0.594096
Target:  5'- cACCGCCUCCCGa--GGCacGUCGGg- -3'
miRNA:   3'- -UGGCGGAGGGCgagCCGaaCGGCUgu -5'
1897 3' -62.2 NC_001347.2 + 5804 0.68 0.584561
Target:  5'- gGCgGCCcUCCGUUCGGCUcggGUCGugGg -3'
miRNA:   3'- -UGgCGGaGGGCGAGCCGAa--CGGCugU- -5'
1897 3' -62.2 NC_001347.2 + 175851 0.68 0.584561
Target:  5'- cACCGCCaacagCaCCGC-CGGCUacGUCGACAu -3'
miRNA:   3'- -UGGCGGa----G-GGCGaGCCGAa-CGGCUGU- -5'
1897 3' -62.2 NC_001347.2 + 176195 0.69 0.565588
Target:  5'- cACCGCCUCCgaaCGCUCGugaGCaacaGUCGGCAg -3'
miRNA:   3'- -UGGCGGAGG---GCGAGC---CGaa--CGGCUGU- -5'
1897 3' -62.2 NC_001347.2 + 188909 0.69 0.55616
Target:  5'- cACgGCC-CCCGCUcCGGCc--CCGACAc -3'
miRNA:   3'- -UGgCGGaGGGCGA-GCCGaacGGCUGU- -5'
1897 3' -62.2 NC_001347.2 + 170097 0.69 0.537448
Target:  5'- cGCCGUCUCCCGa-CGGCacGCCGuCu -3'
miRNA:   3'- -UGGCGGAGGGCgaGCCGaaCGGCuGu -5'
1897 3' -62.2 NC_001347.2 + 226771 0.7 0.518957
Target:  5'- uGCCGCUgaucgcaguggCCCcacCUCGGCaUGCCGGCGc -3'
miRNA:   3'- -UGGCGGa----------GGGc--GAGCCGaACGGCUGU- -5'
1897 3' -62.2 NC_001347.2 + 188357 0.7 0.490816
Target:  5'- -gCGCCUCCCGgaggcucUUUGGCUccagUGCCGAUg -3'
miRNA:   3'- ugGCGGAGGGC-------GAGCCGA----ACGGCUGu -5'
1897 3' -62.2 NC_001347.2 + 222766 0.71 0.44786
Target:  5'- uGCCGCCg-CCGCccauaccaUCGGCaugucgGCCGACAa -3'
miRNA:   3'- -UGGCGGagGGCG--------AGCCGaa----CGGCUGU- -5'
1897 3' -62.2 NC_001347.2 + 188163 0.72 0.371729
Target:  5'- gGCCGCCgaagcccacgcugCCCGUUCGGCggccGUCGGCu -3'
miRNA:   3'- -UGGCGGa------------GGGCGAGCCGaa--CGGCUGu -5'
1897 3' -62.2 NC_001347.2 + 30597 0.73 0.337823
Target:  5'- gGCgGCUUCCUGCggcCGGCcgcggUGCCGGCGg -3'
miRNA:   3'- -UGgCGGAGGGCGa--GCCGa----ACGGCUGU- -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.