miRNA display CGI


Results 1 - 20 of 90 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
11941 5' -64.4 NC_003278.1 + 26 0.7 0.103681
Target:  5'- gCGCCGGCGaAUGaGCCgaugCGGCCaGgAaacGCCa -3'
miRNA:   3'- -GCGGCCGC-UAC-CGGa---GCCGG-CgU---CGG- -5'
11941 5' -64.4 NC_003278.1 + 1604 0.71 0.089346
Target:  5'- gGCCGGCGAgcUGGUCgucgCGGCUGauguucuugauugAGCCg -3'
miRNA:   3'- gCGGCCGCU--ACCGGa---GCCGGCg------------UCGG- -5'
11941 5' -64.4 NC_003278.1 + 1647 0.69 0.132469
Target:  5'- uCGCCGGCcuGcgGGUCUau-CCGCAGCUg -3'
miRNA:   3'- -GCGGCCG--CuaCCGGAgccGGCGUCGG- -5'
11941 5' -64.4 NC_003278.1 + 2032 0.68 0.164071
Target:  5'- uGCCgcGGCGcAUGuaCUUGGCCaGCGGCg -3'
miRNA:   3'- gCGG--CCGC-UACcgGAGCCGG-CGUCGg -5'
11941 5' -64.4 NC_003278.1 + 2339 0.66 0.22416
Target:  5'- gGCCgaacgGGCGGUGGUa-CGaGCCGCcGCUg -3'
miRNA:   3'- gCGG-----CCGCUACCGgaGC-CGGCGuCGG- -5'
11941 5' -64.4 NC_003278.1 + 2358 0.74 0.051632
Target:  5'- cCGaaGGUGAaGGCCUCGGCa-CGGCCa -3'
miRNA:   3'- -GCggCCGCUaCCGGAGCCGgcGUCGG- -5'
11941 5' -64.4 NC_003278.1 + 2580 0.69 0.137562
Target:  5'- gGCCGGCGGuauaggugaacUGGCgCccacCGGCCGUgauggucuugcggauAGCCa -3'
miRNA:   3'- gCGGCCGCU-----------ACCG-Ga---GCCGGCG---------------UCGG- -5'
11941 5' -64.4 NC_003278.1 + 2995 0.69 0.136089
Target:  5'- aGCCacaccuGGCGAUcaCCgaaCGGCCGCAGCg -3'
miRNA:   3'- gCGG------CCGCUAccGGa--GCCGGCGUCGg -5'
11941 5' -64.4 NC_003278.1 + 4796 0.76 0.034705
Target:  5'- aGUCGGUGAUGGCCa-GGCCGaccaaguaGGCCu -3'
miRNA:   3'- gCGGCCGCUACCGGagCCGGCg-------UCGG- -5'
11941 5' -64.4 NC_003278.1 + 5049 0.7 0.112555
Target:  5'- uGCuCGGCGAUcgcuucgacGGCCUCG-CCGaccuGGCCg -3'
miRNA:   3'- gCG-GCCGCUA---------CCGGAGCcGGCg---UCGG- -5'
11941 5' -64.4 NC_003278.1 + 5500 0.68 0.1398
Target:  5'- gGCUGGCGAUGGU----GCCGCugacGCCg -3'
miRNA:   3'- gCGGCCGCUACCGgagcCGGCGu---CGG- -5'
11941 5' -64.4 NC_003278.1 + 5909 0.76 0.035708
Target:  5'- gGCCuGGUGGUGauCCUCGGCCGCgAGCUg -3'
miRNA:   3'- gCGG-CCGCUACc-GGAGCCGGCG-UCGG- -5'
11941 5' -64.4 NC_003278.1 + 6194 0.7 0.106563
Target:  5'- aCGUCGuCGAggacuacGGCCUCGGCUGCcuGGUCg -3'
miRNA:   3'- -GCGGCcGCUa------CCGGAGCCGGCG--UCGG- -5'
11941 5' -64.4 NC_003278.1 + 6699 0.69 0.128938
Target:  5'- gGCCucGGCGAUcuCUUCGGCgaugaCGCAGCCg -3'
miRNA:   3'- gCGG--CCGCUAccGGAGCCG-----GCGUCGG- -5'
11941 5' -64.4 NC_003278.1 + 7020 0.67 0.177579
Target:  5'- aGCCGGCGG-GGCgcgggguacgCUCGGUCaaccgccagagGCGGUCa -3'
miRNA:   3'- gCGGCCGCUaCCG----------GAGCCGG-----------CGUCGG- -5'
11941 5' -64.4 NC_003278.1 + 7446 0.69 0.132469
Target:  5'- cCGCUGGUGGUGGUgUCGuaccaGCgGUAGCg -3'
miRNA:   3'- -GCGGCCGCUACCGgAGC-----CGgCGUCGg -5'
11941 5' -64.4 NC_003278.1 + 7511 0.66 0.212984
Target:  5'- uCGCCcaGCGcUGGUCgCGGCgGUAGUCg -3'
miRNA:   3'- -GCGGc-CGCuACCGGaGCCGgCGUCGG- -5'
11941 5' -64.4 NC_003278.1 + 7830 0.71 0.087874
Target:  5'- aCGCCGGCGGUGcGaCCguaGuGCCGcCAGCa -3'
miRNA:   3'- -GCGGCCGCUAC-C-GGag-C-CGGC-GUCGg -5'
11941 5' -64.4 NC_003278.1 + 7980 0.67 0.192065
Target:  5'- gGCCGcGCcaucaugGGCCUCGGCCugGGCg -3'
miRNA:   3'- gCGGC-CGcua----CCGGAGCCGGcgUCGg -5'
11941 5' -64.4 NC_003278.1 + 8039 0.68 0.147501
Target:  5'- gGCCgaGGCccauGAUGGCgC-CGGCCGUGGCg -3'
miRNA:   3'- gCGG--CCG----CUACCG-GaGCCGGCGUCGg -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.