miRNA display CGI


Results 1 - 20 of 42 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
17165 3' -54.1 NC_004333.2 + 25221 0.77 0.220698
Target:  5'- cGCCcGCGACGcugcCGUUCGGGUUCGaaaUGCc -3'
miRNA:   3'- -UGGcUGCUGCu---GCAAGCCCAAGC---ACG- -5'
17165 3' -54.1 NC_004333.2 + 26313 0.67 0.755011
Target:  5'- aGCCGGuCGACGACa---GGaUUUGUGCg -3'
miRNA:   3'- -UGGCU-GCUGCUGcaagCCcAAGCACG- -5'
17165 3' -54.1 NC_004333.2 + 19751 0.66 0.769273
Target:  5'- uGCCGucaACGACGcgaucggccgcuccaACGcaCGGGaUCGUGCc -3'
miRNA:   3'- -UGGC---UGCUGC---------------UGCaaGCCCaAGCACG- -5'
17165 3' -54.1 NC_004333.2 + 13549 0.66 0.794037
Target:  5'- cGCCGGCGGCcaggccgGAUGUgUCGGcuuucucuUUCGUGCc -3'
miRNA:   3'- -UGGCUGCUG-------CUGCA-AGCCc-------AAGCACG- -5'
17165 3' -54.1 NC_004333.2 + 18169 0.72 0.466678
Target:  5'- aGCCGAuUGcCGGCGUgcCGGGUgaugcgcucgUCGUGCg -3'
miRNA:   3'- -UGGCU-GCuGCUGCAa-GCCCA----------AGCACG- -5'
17165 3' -54.1 NC_004333.2 + 10908 0.71 0.486894
Target:  5'- cGCCGACGACaguGCGUUCucGGUUCucaugccgGUGCg -3'
miRNA:   3'- -UGGCUGCUGc--UGCAAGc-CCAAG--------CACG- -5'
17165 3' -54.1 NC_004333.2 + 42697 0.69 0.614974
Target:  5'- cGCCGGcCGACGAgCGggCGGcGUUCGa-- -3'
miRNA:   3'- -UGGCU-GCUGCU-GCaaGCC-CAAGCacg -5'
17165 3' -54.1 NC_004333.2 + 31541 0.69 0.636914
Target:  5'- uUCGuCGACGAUGUUUGcGUUCGcgGCg -3'
miRNA:   3'- uGGCuGCUGCUGCAAGCcCAAGCa-CG- -5'
17165 3' -54.1 NC_004333.2 + 5544 0.68 0.658836
Target:  5'- gGCCGGCGACGGC--UUGGcGcgaGUGCa -3'
miRNA:   3'- -UGGCUGCUGCUGcaAGCC-CaagCACG- -5'
17165 3' -54.1 NC_004333.2 + 26072 0.67 0.713022
Target:  5'- cGCCGcaGCGGCGGCGcUUCcGGaUUCGgGCa -3'
miRNA:   3'- -UGGC--UGCUGCUGC-AAGcCC-AAGCaCG- -5'
17165 3' -54.1 NC_004333.2 + 27426 0.68 0.699068
Target:  5'- uGCgCGGCGACGGCuGUcgaccaggcgccauUCGGGUaguUCG-GCu -3'
miRNA:   3'- -UG-GCUGCUGCUG-CA--------------AGCCCA---AGCaCG- -5'
17165 3' -54.1 NC_004333.2 + 18560 0.68 0.647882
Target:  5'- aGCCGgcGCGGCGGCGaaucCGaacccGUUCGUGCa -3'
miRNA:   3'- -UGGC--UGCUGCUGCaa--GCc----CAAGCACG- -5'
17165 3' -54.1 NC_004333.2 + 22176 0.73 0.390539
Target:  5'- cGCCGGCGGCGGCcggCGgcGGUUCG-GCg -3'
miRNA:   3'- -UGGCUGCUGCUGcaaGC--CCAAGCaCG- -5'
17165 3' -54.1 NC_004333.2 + 22591 0.68 0.702299
Target:  5'- cAUCGGCGcuCGuguuguucGCGUccgUCGGGUUCGUcGCg -3'
miRNA:   3'- -UGGCUGCu-GC--------UGCA---AGCCCAAGCA-CG- -5'
17165 3' -54.1 NC_004333.2 + 8999 0.73 0.418144
Target:  5'- gACCGACG-CGGCGUUCGcGGcUUGccagGCg -3'
miRNA:   3'- -UGGCUGCuGCUGCAAGC-CCaAGCa---CG- -5'
17165 3' -54.1 NC_004333.2 + 43137 0.69 0.636914
Target:  5'- gGCCGACGGaa--GUugUCGGGaUCGUGUc -3'
miRNA:   3'- -UGGCUGCUgcugCA--AGCCCaAGCACG- -5'
17165 3' -54.1 NC_004333.2 + 25474 0.68 0.702299
Target:  5'- gAUCGucGCGGCGACagcCGGGUUgCGUGUc -3'
miRNA:   3'- -UGGC--UGCUGCUGcaaGCCCAA-GCACG- -5'
17165 3' -54.1 NC_004333.2 + 40958 0.66 0.765225
Target:  5'- cGCaCGGCaGGCGAaaCGuUUCGGGccguucgacUUCGUGCu -3'
miRNA:   3'- -UG-GCUG-CUGCU--GC-AAGCCC---------AAGCACG- -5'
17165 3' -54.1 NC_004333.2 + 25425 0.72 0.446905
Target:  5'- uGCCGGCGGCGGcCGUcacgcCGGG--CGUGCc -3'
miRNA:   3'- -UGGCUGCUGCU-GCAa----GCCCaaGCACG- -5'
17165 3' -54.1 NC_004333.2 + 2694 0.7 0.542306
Target:  5'- cGCCGGCGGCGGCcgacaggccgaucucG-UCGGcgaaguuGUUCGUGCc -3'
miRNA:   3'- -UGGCUGCUGCUG---------------CaAGCC-------CAAGCACG- -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.