miRNA display CGI


Results 1 - 20 of 35 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
28054 3' -54 NC_005887.1 + 3937 0.66 0.732606
Target:  5'- uACaGCGUugccuaacGCAGCGcacUGACCGAACcgGa -3'
miRNA:   3'- -UGcCGUA--------CGUCGC---ACUGGCUUGuaCc -5'
28054 3' -54 NC_005887.1 + 32421 0.66 0.721717
Target:  5'- gUGGCcgGCGGCGaugUGGCCGGcgGCGa-- -3'
miRNA:   3'- uGCCGuaCGUCGC---ACUGGCU--UGUacc -5'
28054 3' -54 NC_005887.1 + 26204 0.66 0.721717
Target:  5'- aACGGg--GCGGCgGUGGCCGGccuGCAgcUGGc -3'
miRNA:   3'- -UGCCguaCGUCG-CACUGGCU---UGU--ACC- -5'
28054 3' -54 NC_005887.1 + 7904 0.66 0.721717
Target:  5'- cCGGCGacgaucUGCAGUaacgGACUGAcACAUGGc -3'
miRNA:   3'- uGCCGU------ACGUCGca--CUGGCU-UGUACC- -5'
28054 3' -54 NC_005887.1 + 2015 0.66 0.721717
Target:  5'- cGCGGCAUGCAGgGcaagaaguucGACUGGAuCAaGGu -3'
miRNA:   3'- -UGCCGUACGUCgCa---------CUGGCUU-GUaCC- -5'
28054 3' -54 NC_005887.1 + 24110 0.66 0.710733
Target:  5'- gACGGUGccCGGCGUGGCCGAGgCGa-- -3'
miRNA:   3'- -UGCCGUacGUCGCACUGGCUU-GUacc -5'
28054 3' -54 NC_005887.1 + 1932 0.66 0.710733
Target:  5'- gGCGGCGU-CAuGCGUGACgGcGAUcgGUGGg -3'
miRNA:   3'- -UGCCGUAcGU-CGCACUGgC-UUG--UACC- -5'
28054 3' -54 NC_005887.1 + 24618 0.66 0.699668
Target:  5'- uGCGGCc-GCAcGCGUGGUCGAACAg-- -3'
miRNA:   3'- -UGCCGuaCGU-CGCACUGGCUUGUacc -5'
28054 3' -54 NC_005887.1 + 963 0.66 0.688534
Target:  5'- -aGGCGUGCAGCacgagGUGAUCGccGACAc-- -3'
miRNA:   3'- ugCCGUACGUCG-----CACUGGC--UUGUacc -5'
28054 3' -54 NC_005887.1 + 42027 0.67 0.677343
Target:  5'- cGCGGCGcGCGauGCGUacaaGgCGGACAUGGa -3'
miRNA:   3'- -UGCCGUaCGU--CGCAc---UgGCUUGUACC- -5'
28054 3' -54 NC_005887.1 + 39279 0.67 0.673976
Target:  5'- uCGGCGuucagcgccUGCAggaucuucGCGUcgucguucgucauuGGCCGAGCAUGGc -3'
miRNA:   3'- uGCCGU---------ACGU--------CGCA--------------CUGGCUUGUACC- -5'
28054 3' -54 NC_005887.1 + 14696 0.67 0.654836
Target:  5'- -gGGCucgucGCGGCGggcgGGCCGGGCGcGGc -3'
miRNA:   3'- ugCCGua---CGUCGCa---CUGGCUUGUaCC- -5'
28054 3' -54 NC_005887.1 + 25289 0.67 0.654836
Target:  5'- aGCGGCAUGaCGGCGUccGcCCaAGCGUGc -3'
miRNA:   3'- -UGCCGUAC-GUCGCA--CuGGcUUGUACc -5'
28054 3' -54 NC_005887.1 + 21035 0.67 0.632241
Target:  5'- uGCGGUcgGCgcggugGGCGUGcCCguGAAUGUGGg -3'
miRNA:   3'- -UGCCGuaCG------UCGCACuGG--CUUGUACC- -5'
28054 3' -54 NC_005887.1 + 38642 0.67 0.620937
Target:  5'- cGCGGUcgGC-GCGcGGCuCGAcgGCGUGGu -3'
miRNA:   3'- -UGCCGuaCGuCGCaCUG-GCU--UGUACC- -5'
28054 3' -54 NC_005887.1 + 38032 0.68 0.609644
Target:  5'- uGCGGCAUguccgGCAGC-UGGCCGGccucgGCGaGGa -3'
miRNA:   3'- -UGCCGUA-----CGUCGcACUGGCU-----UGUaCC- -5'
28054 3' -54 NC_005887.1 + 29021 0.68 0.609644
Target:  5'- cGCGGCGagauccgcgaUGCggccGGCGUuGCCGAACGccUGGc -3'
miRNA:   3'- -UGCCGU----------ACG----UCGCAcUGGCUUGU--ACC- -5'
28054 3' -54 NC_005887.1 + 7188 0.68 0.596121
Target:  5'- -aGGCcgagaucGUGCAGCGUGAcggccgcCCGucCGUGGc -3'
miRNA:   3'- ugCCG-------UACGUCGCACU-------GGCuuGUACC- -5'
28054 3' -54 NC_005887.1 + 7446 0.68 0.58713
Target:  5'- cUGGCGUGCGcGuCGUGAUCG-GCAUGc -3'
miRNA:   3'- uGCCGUACGU-C-GCACUGGCuUGUACc -5'
28054 3' -54 NC_005887.1 + 13623 0.68 0.575928
Target:  5'- cGCGGCGcGCGGCGgccgcacucaGCCGAGCAg-- -3'
miRNA:   3'- -UGCCGUaCGUCGCac--------UGGCUUGUacc -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.