miRNA display CGI


Results 1 - 20 of 60 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
8675 3' -39.6 NC_002229.2 + 53201 1.19 0.047139
Target:  5'- uGGCAUAUAAAACAACACACCAUUUGCu -3'
miRNA:   3'- -CCGUAUAUUUUGUUGUGUGGUAAACG- -5'
8675 3' -39.6 NC_002229.2 + 56786 0.69 1
Target:  5'- cGGCAUu----GCuuuuACuuCACCGUUUGCu -3'
miRNA:   3'- -CCGUAuauuuUGu---UGu-GUGGUAAACG- -5'
8675 3' -39.6 NC_002229.2 + 90025 0.68 1
Target:  5'- uGGCAg--AAAAUGuguCACGCCAUgucaauucuacUUGCa -3'
miRNA:   3'- -CCGUauaUUUUGUu--GUGUGGUA-----------AACG- -5'
8675 3' -39.6 NC_002229.2 + 57815 0.66 1
Target:  5'- cGGCAgAUGAGACuuuuuuGGCACAUg--UUGCu -3'
miRNA:   3'- -CCGUaUAUUUUG------UUGUGUGguaAACG- -5'
8675 3' -39.6 NC_002229.2 + 122042 0.75 0.999974
Target:  5'- uGCAUAUGAAAUAAUAUGCCAca-GCc -3'
miRNA:   3'- cCGUAUAUUUUGUUGUGUGGUaaaCG- -5'
8675 3' -39.6 NC_002229.2 + 35216 0.74 0.999994
Target:  5'- cGGUGUGUAAAAUu-CAUACCGgcUGCu -3'
miRNA:   3'- -CCGUAUAUUUUGuuGUGUGGUaaACG- -5'
8675 3' -39.6 NC_002229.2 + 145470 0.72 1
Target:  5'- gGGCugcuaAUGUuacGGCAGCACGCCAgucGCa -3'
miRNA:   3'- -CCG-----UAUAuu-UUGUUGUGUGGUaaaCG- -5'
8675 3' -39.6 NC_002229.2 + 94482 0.72 1
Target:  5'- uGCAgu---GAUAGgGCACCAUUUGUg -3'
miRNA:   3'- cCGUauauuUUGUUgUGUGGUAAACG- -5'
8675 3' -39.6 NC_002229.2 + 54152 0.7 1
Target:  5'- cGuCAUGUAGAuCGACAauCACCAagUUGCa -3'
miRNA:   3'- cC-GUAUAUUUuGUUGU--GUGGUa-AACG- -5'
8675 3' -39.6 NC_002229.2 + 135778 0.69 1
Target:  5'- gGGCGUAUAuAGCGcaaGCGCGCagg--GCu -3'
miRNA:   3'- -CCGUAUAUuUUGU---UGUGUGguaaaCG- -5'
8675 3' -39.6 NC_002229.2 + 38704 0.69 1
Target:  5'- uGGCAgucacAGAAUAuGCACGuguuCCAUUUGCg -3'
miRNA:   3'- -CCGUaua--UUUUGU-UGUGU----GGUAAACG- -5'
8675 3' -39.6 NC_002229.2 + 67580 0.7 1
Target:  5'- aGCAUA--AAugGGCAgCACCAcgUGCa -3'
miRNA:   3'- cCGUAUauUUugUUGU-GUGGUaaACG- -5'
8675 3' -39.6 NC_002229.2 + 129939 0.79 0.998357
Target:  5'- uGCAUGUGGAACAcgAUugGCCGUUguaGCa -3'
miRNA:   3'- cCGUAUAUUUUGU--UGugUGGUAAa--CG- -5'
8675 3' -39.6 NC_002229.2 + 95430 0.69 1
Target:  5'- aGCAgagAUGAAGCAAUACACguagaagCAUcUUGCu -3'
miRNA:   3'- cCGUa--UAUUUUGUUGUGUG-------GUA-AACG- -5'
8675 3' -39.6 NC_002229.2 + 72788 0.79 0.999123
Target:  5'- cGCAUGUAGGACAACAucCACCAa---- -3'
miRNA:   3'- cCGUAUAUUUUGUUGU--GUGGUaaacg -5'
8675 3' -39.6 NC_002229.2 + 97992 0.71 1
Target:  5'- cGGacugAUGAuACAGgGCACgGUUUGCg -3'
miRNA:   3'- -CCgua-UAUUuUGUUgUGUGgUAAACG- -5'
8675 3' -39.6 NC_002229.2 + 144463 0.69 1
Target:  5'- cGGCGg--GAGACAGCuucCCGUggUGCa -3'
miRNA:   3'- -CCGUauaUUUUGUUGuguGGUAa-ACG- -5'
8675 3' -39.6 NC_002229.2 + 119062 0.69 1
Target:  5'- aGGCAguu--GACuAACAUGCCAUgcGCu -3'
miRNA:   3'- -CCGUauauuUUG-UUGUGUGGUAaaCG- -5'
8675 3' -39.6 NC_002229.2 + 121548 0.77 0.999842
Target:  5'- uGCAUAUAAAAUAAUAUGCCAUa--- -3'
miRNA:   3'- cCGUAUAUUUUGUUGUGUGGUAaacg -5'
8675 3' -39.6 NC_002229.2 + 66390 0.72 1
Target:  5'- aGGCAUAUGGuucuacugccAGCGACAgggUAUgAUUUGCa -3'
miRNA:   3'- -CCGUAUAUU----------UUGUUGU---GUGgUAAACG- -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.