miRNA display CGI


Results 1 - 20 of 39 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
24807 3' -56.6 NC_005284.1 + 915 0.66 0.698561
Target:  5'- gGGCGUugGCaUCGGCAUguucgugcuggacgaCGAGUUCGg -3'
miRNA:   3'- gCCGCAugUGgAGCCGUG---------------GCUUGAGC- -5'
24807 3' -56.6 NC_005284.1 + 5912 0.66 0.683662
Target:  5'- gGGCGUgu-CCaCGGCGCCGAcuuCUCc -3'
miRNA:   3'- gCCGCAuguGGaGCCGUGGCUu--GAGc -5'
24807 3' -56.6 NC_005284.1 + 44959 0.66 0.683662
Target:  5'- gGGCGUGC-CCgugaugCGcGCGCCGAuUUCc -3'
miRNA:   3'- gCCGCAUGuGGa-----GC-CGUGGCUuGAGc -5'
24807 3' -56.6 NC_005284.1 + 34845 0.66 0.683662
Target:  5'- uGGCGUcGCACa--GGCGCaCGAuugggaucgGCUCGa -3'
miRNA:   3'- gCCGCA-UGUGgagCCGUG-GCU---------UGAGC- -5'
24807 3' -56.6 NC_005284.1 + 54322 0.66 0.672961
Target:  5'- uCGGCuuUGCGCCgaccaGGCGCUGccGGCUCGc -3'
miRNA:   3'- -GCCGc-AUGUGGag---CCGUGGC--UUGAGC- -5'
24807 3' -56.6 NC_005284.1 + 21613 0.66 0.672961
Target:  5'- gGGCa-AgAUCUCGcGCGCCGcGCUCGa -3'
miRNA:   3'- gCCGcaUgUGGAGC-CGUGGCuUGAGC- -5'
24807 3' -56.6 NC_005284.1 + 4482 0.66 0.672961
Target:  5'- uGGCucGCGgCggCGGUagcGCCGAACUCGa -3'
miRNA:   3'- gCCGcaUGUgGa-GCCG---UGGCUUGAGC- -5'
24807 3' -56.6 NC_005284.1 + 10589 0.66 0.651459
Target:  5'- gCGcGCGUugACgCUCuggacGCACCGGACUUc -3'
miRNA:   3'- -GC-CGCAugUG-GAGc----CGUGGCUUGAGc -5'
24807 3' -56.6 NC_005284.1 + 38720 0.66 0.651459
Target:  5'- cCGGCucaaUGCGCUgcaUGGCGCCGGacggcaugaGCUCGa -3'
miRNA:   3'- -GCCGc---AUGUGGa--GCCGUGGCU---------UGAGC- -5'
24807 3' -56.6 NC_005284.1 + 49089 0.66 0.651459
Target:  5'- gCGGUaaGCAaCUCGGCAUCGAGCagcgCGa -3'
miRNA:   3'- -GCCGcaUGUgGAGCCGUGGCUUGa---GC- -5'
24807 3' -56.6 NC_005284.1 + 31432 0.66 0.651459
Target:  5'- gGGCGacgUGCGCCgcugCGGCgcGCCGGGCc-- -3'
miRNA:   3'- gCCGC---AUGUGGa---GCCG--UGGCUUGagc -5'
24807 3' -56.6 NC_005284.1 + 6622 0.66 0.650381
Target:  5'- gGGCGU-CACUUCGccagcgcGCGCCGGaauggGCUCu -3'
miRNA:   3'- gCCGCAuGUGGAGC-------CGUGGCU-----UGAGc -5'
24807 3' -56.6 NC_005284.1 + 47074 0.66 0.640677
Target:  5'- gCGGCGgcacgaGCUUCGGCGCaccGCUCa -3'
miRNA:   3'- -GCCGCaug---UGGAGCCGUGgcuUGAGc -5'
24807 3' -56.6 NC_005284.1 + 48761 0.67 0.6191
Target:  5'- gCGGCGUGCGCCgcgaguugCGuuGCAUggCGAACUgCGa -3'
miRNA:   3'- -GCCGCAUGUGGa-------GC--CGUG--GCUUGA-GC- -5'
24807 3' -56.6 NC_005284.1 + 11892 0.67 0.6191
Target:  5'- gGGUGcGCGCCucUCGGCAUCGuccaUCGa -3'
miRNA:   3'- gCCGCaUGUGG--AGCCGUGGCuug-AGC- -5'
24807 3' -56.6 NC_005284.1 + 40162 0.67 0.6191
Target:  5'- aCGGCGUcgagguagcGCGCgagcgUUCGGCGCCGGAacacuUUCGc -3'
miRNA:   3'- -GCCGCA---------UGUG-----GAGCCGUGGCUU-----GAGC- -5'
24807 3' -56.6 NC_005284.1 + 16205 0.67 0.6191
Target:  5'- -cGCGUGCG-CUCGGCcgaacgGCCGucucGCUCGg -3'
miRNA:   3'- gcCGCAUGUgGAGCCG------UGGCu---UGAGC- -5'
24807 3' -56.6 NC_005284.1 + 16081 0.68 0.533896
Target:  5'- gGGCucuucaACACgauuCUCGGCGCCGcACUCGu -3'
miRNA:   3'- gCCGca----UGUG----GAGCCGUGGCuUGAGC- -5'
24807 3' -56.6 NC_005284.1 + 47806 0.68 0.523497
Target:  5'- gGGCGaGCGCUuggCGGCGCUGcgauggguGCUCGg -3'
miRNA:   3'- gCCGCaUGUGGa--GCCGUGGCu-------UGAGC- -5'
24807 3' -56.6 NC_005284.1 + 16762 0.69 0.502942
Target:  5'- uGcGCGUGCGCUUCGGUguGCCGGcGCUa- -3'
miRNA:   3'- gC-CGCAUGUGGAGCCG--UGGCU-UGAgc -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.