miRNA display CGI


Results 1 - 12 of 12 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
28563 3' -47 NC_005946.1 + 102298 0.66 0.998973
Target:  5'- ---cGUGCAGGGccccGCacGCCAgGGCGUCa -3'
miRNA:   3'- uguuCAUGUUUU----UGa-CGGUgUCGCAG- -5'
28563 3' -47 NC_005946.1 + 34820 0.66 0.998906
Target:  5'- cACAGGacguacuuguagccUGCAAu--CUGCUcCGGCGUCa -3'
miRNA:   3'- -UGUUC--------------AUGUUuuuGACGGuGUCGCAG- -5'
28563 3' -47 NC_005946.1 + 94305 0.66 0.998115
Target:  5'- gGCAGGUACAGgccGGACgGCguuCACGGCcuGUCu -3'
miRNA:   3'- -UGUUCAUGUU---UUUGaCG---GUGUCG--CAG- -5'
28563 3' -47 NC_005946.1 + 20355 0.67 0.995381
Target:  5'- aGCAGGcUGgAGAAGgUGuCCGCGGCGgUCg -3'
miRNA:   3'- -UGUUC-AUgUUUUUgAC-GGUGUCGC-AG- -5'
28563 3' -47 NC_005946.1 + 45885 0.67 0.995381
Target:  5'- gACAGGUACAGcgcGACgGCCACAcCGg- -3'
miRNA:   3'- -UGUUCAUGUUu--UUGaCGGUGUcGCag -5'
28563 3' -47 NC_005946.1 + 20852 0.69 0.986884
Target:  5'- -uGAGgGCAAAGGCUGCgGCAGaCGcCg -3'
miRNA:   3'- ugUUCaUGUUUUUGACGgUGUC-GCaG- -5'
28563 3' -47 NC_005946.1 + 61217 0.69 0.98504
Target:  5'- gACAGGUACuuuGAGCagUGCCugGGCa-- -3'
miRNA:   3'- -UGUUCAUGuu-UUUG--ACGGugUCGcag -5'
28563 3' -47 NC_005946.1 + 45530 0.7 0.980767
Target:  5'- cCGAGUAUugag---GCCACGGUGUCg -3'
miRNA:   3'- uGUUCAUGuuuuugaCGGUGUCGCAG- -5'
28563 3' -47 NC_005946.1 + 19624 0.7 0.980055
Target:  5'- gACAuGUcugaGCAGAccGGCUGCCccgaccugucugccGCAGCGUCu -3'
miRNA:   3'- -UGUuCA----UGUUU--UUGACGG--------------UGUCGCAG- -5'
28563 3' -47 NC_005946.1 + 21266 0.72 0.943157
Target:  5'- uACAGGUGCAuggccaccgucuuuGAGACgGCagacucuCACGGCGUCa -3'
miRNA:   3'- -UGUUCAUGU--------------UUUUGaCG-------GUGUCGCAG- -5'
28563 3' -47 NC_005946.1 + 71332 0.73 0.903636
Target:  5'- gGCuGGUAUA--GACUGCUgggACAGCGUCc -3'
miRNA:   3'- -UGuUCAUGUuuUUGACGG---UGUCGCAG- -5'
28563 3' -47 NC_005946.1 + 7329 0.74 0.889169
Target:  5'- uGCGAGUGCAccgcGACUGCCGUGGUGUa -3'
miRNA:   3'- -UGUUCAUGUuu--UUGACGGUGUCGCAg -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.