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 + 57815 0.66 1
Target:  5'- cGGCAgAUGAGACuuuuuuGGCACAUg--UUGCu -3'
miRNA:   3'- -CCGUaUAUUUUG------UUGUGUGguaAACG- -5'
8675 3' -39.6 NC_002229.2 + 146244 0.68 1
Target:  5'- cGGCAUGU---GCAccccCACCAggUGCa -3'
miRNA:   3'- -CCGUAUAuuuUGUugu-GUGGUaaACG- -5'
8675 3' -39.6 NC_002229.2 + 21596 0.69 1
Target:  5'- aGGCcuuaguuUAGAACGAguaGCCAUUUGCu -3'
miRNA:   3'- -CCGuau----AUUUUGUUgugUGGUAAACG- -5'
8675 3' -39.6 NC_002229.2 + 49250 0.69 1
Target:  5'- aGCuuggGUAuuGCAGCucgucauugaACGCCAUUUGUg -3'
miRNA:   3'- cCGua--UAUuuUGUUG----------UGUGGUAAACG- -5'
8675 3' -39.6 NC_002229.2 + 2933 0.69 1
Target:  5'- gGGCGUAUAuAGCGcaaGCGCGCagg--GCu -3'
miRNA:   3'- -CCGUAUAUuUUGU---UGUGUGguaaaCG- -5'
8675 3' -39.6 NC_002229.2 + 156094 0.69 1
Target:  5'- gGGCGguaacgAUGAAACAauguuAUACugCAUUcGCa -3'
miRNA:   3'- -CCGUa-----UAUUUUGU-----UGUGugGUAAaCG- -5'
8675 3' -39.6 NC_002229.2 + 168151 0.69 1
Target:  5'- cGGCGg--GAGACAGCuucCCGUggUGCa -3'
miRNA:   3'- -CCGUauaUUUUGUUGuguGGUAa-ACG- -5'
8675 3' -39.6 NC_002229.2 + 173114 0.7 1
Target:  5'- aGGCGccaaAAAAUuGCGCGCCAUUguuugGCg -3'
miRNA:   3'- -CCGUaua-UUUUGuUGUGUGGUAAa----CG- -5'
8675 3' -39.6 NC_002229.2 + 167144 0.72 1
Target:  5'- gGGCugcuaAUGUuacGGCAGCACGCCAgucGCa -3'
miRNA:   3'- -CCG-----UAUAuu-UUGUUGUGUGGUaaaCG- -5'
8675 3' -39.6 NC_002229.2 + 15255 0.68 1
Target:  5'- uGGCAUuaGUGGGGCGAUAUGgCAg--GCa -3'
miRNA:   3'- -CCGUA--UAUUUUGUUGUGUgGUaaaCG- -5'
8675 3' -39.6 NC_002229.2 + 168900 0.68 1
Target:  5'- aGGCGUGUuuccauACGCGCCAUaaacagcUGCu -3'
miRNA:   3'- -CCGUAUAuuuuguUGUGUGGUAa------ACG- -5'
8675 3' -39.6 NC_002229.2 + 866 0.67 1
Target:  5'- cGCGUGUGGGA--GCgACGCCGUccGCg -3'
miRNA:   3'- cCGUAUAUUUUguUG-UGUGGUAaaCG- -5'
8675 3' -39.6 NC_002229.2 + 57973 0.66 1
Target:  5'- aGGCGUcgugAGGACAGCgAUACCGauggaagauaaUUUGUa -3'
miRNA:   3'- -CCGUAua--UUUUGUUG-UGUGGU-----------AAACG- -5'
8675 3' -39.6 NC_002229.2 + 103620 0.66 1
Target:  5'- gGGCGUuggcauACAACGCugCAUg--- -3'
miRNA:   3'- -CCGUAuauuu-UGUUGUGugGUAaacg -5'
8675 3' -39.6 NC_002229.2 + 170245 0.66 1
Target:  5'- gGGUgaGUAUAAAACAacgauagACACAUCAUcgGg -3'
miRNA:   3'- -CCG--UAUAUUUUGU-------UGUGUGGUAaaCg -5'
8675 3' -39.6 NC_002229.2 + 20479 0.66 1
Target:  5'- aGGCAcAUAAuaaAACACAUCua-UGCa -3'
miRNA:   3'- -CCGUaUAUUuugUUGUGUGGuaaACG- -5'
8675 3' -39.6 NC_002229.2 + 163121 0.66 1
Target:  5'- gGGCAUGUcuGAUccuucauGACugGCCAagagGCg -3'
miRNA:   3'- -CCGUAUAuuUUG-------UUGugUGGUaaa-CG- -5'
8675 3' -39.6 NC_002229.2 + 97050 0.67 1
Target:  5'- cGGCGc-UAAAGCGAUAgcgGCCAcUUGCa -3'
miRNA:   3'- -CCGUauAUUUUGUUGUg--UGGUaAACG- -5'
8675 3' -39.6 NC_002229.2 + 145023 0.67 1
Target:  5'- aGGCGUGgAGGAgGACGC-CCAcguggGCg -3'
miRNA:   3'- -CCGUAUaUUUUgUUGUGuGGUaaa--CG- -5'
8675 3' -39.6 NC_002229.2 + 20374 0.67 1
Target:  5'- aGGCAaGUAAuaaAACACAUCua-UGCa -3'
miRNA:   3'- -CCGUaUAUUuugUUGUGUGGuaaACG- -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.