miRNA display CGI


Results 1 - 20 of 35 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
22897 3' -59.2 NC_005137.2 + 385 0.69 0.600818
Target:  5'- uGCUGGCuuUGUCGGCGcgcGUGUcCGCGc -3'
miRNA:   3'- gCGGCCGc-ACAGCCGCu--UACGuGCGC- -5'
22897 3' -59.2 NC_005137.2 + 2692 0.68 0.670882
Target:  5'- uGCCGGUGg--CGGCGAAUuaaGCACa-- -3'
miRNA:   3'- gCGGCCGCacaGCCGCUUA---CGUGcgc -5'
22897 3' -59.2 NC_005137.2 + 10935 0.67 0.694698
Target:  5'- cCGCCGGCGaguucaccaucacgUcaauaggcacuucgGUCGcGUGAAUaGCGCGCGa -3'
miRNA:   3'- -GCGGCCGC--------------A--------------CAGC-CGCUUA-CGUGCGC- -5'
22897 3' -59.2 NC_005137.2 + 20195 0.68 0.650898
Target:  5'- gCGUCGGCGgg-CGGCGucgauUGCgaaaGCGCGu -3'
miRNA:   3'- -GCGGCCGCacaGCCGCuu---ACG----UGCGC- -5'
22897 3' -59.2 NC_005137.2 + 20564 0.68 0.620833
Target:  5'- gCGCCGGCcg--CGGUG--UGCACGCu -3'
miRNA:   3'- -GCGGCCGcacaGCCGCuuACGUGCGc -5'
22897 3' -59.2 NC_005137.2 + 26564 0.66 0.785881
Target:  5'- gCGCugCGGCGUGUCGacuGCcaaGAUGUacACGCGg -3'
miRNA:   3'- -GCG--GCCGCACAGC---CGc--UUACG--UGCGC- -5'
22897 3' -59.2 NC_005137.2 + 32901 0.66 0.747992
Target:  5'- aGCCGGCGg--CGGUGAcaaaacucgcaacAUGCagACGUGc -3'
miRNA:   3'- gCGGCCGCacaGCCGCU-------------UACG--UGCGC- -5'
22897 3' -59.2 NC_005137.2 + 34601 0.66 0.777734
Target:  5'- uCGCCGcGCGgguagcgGUCGGCGcggcuccauauuuuuAUGUugGCc -3'
miRNA:   3'- -GCGGC-CGCa------CAGCCGCu--------------UACGugCGc -5'
22897 3' -59.2 NC_005137.2 + 34709 1.08 0.001648
Target:  5'- gCGCCGGCGUGUCGGCGAAUGCACGCGu -3'
miRNA:   3'- -GCGGCCGCACAGCCGCUUACGUGCGC- -5'
22897 3' -59.2 NC_005137.2 + 46439 0.66 0.77591
Target:  5'- cCGCUGGCGcacaugcUGU-GGCacAUGCACGCc -3'
miRNA:   3'- -GCGGCCGC-------ACAgCCGcuUACGUGCGc -5'
22897 3' -59.2 NC_005137.2 + 53100 0.66 0.767641
Target:  5'- gGUgGGUGUGUUuGCGGuUGCACGaCGc -3'
miRNA:   3'- gCGgCCGCACAGcCGCUuACGUGC-GC- -5'
22897 3' -59.2 NC_005137.2 + 63018 0.69 0.610818
Target:  5'- gCGCCGGCGUGUCGGC-AA-GCu---- -3'
miRNA:   3'- -GCGGCCGCACAGCCGcUUaCGugcgc -5'
22897 3' -59.2 NC_005137.2 + 70155 0.74 0.333335
Target:  5'- aGgUGGCgGUGUCGGUGAagGUGUugGCGu -3'
miRNA:   3'- gCgGCCG-CACAGCCGCU--UACGugCGC- -5'
22897 3' -59.2 NC_005137.2 + 70194 0.67 0.700611
Target:  5'- uGuuGGUGgaggcGUCGGUGAagGUGUugGUGa -3'
miRNA:   3'- gCggCCGCa----CAGCCGCU--UACGugCGC- -5'
22897 3' -59.2 NC_005137.2 + 70241 0.69 0.568013
Target:  5'- gCGUCGGUGaaggcGUCGGUGAaggcgucgguaaagGUGUugGCGg -3'
miRNA:   3'- -GCGGCCGCa----CAGCCGCU--------------UACGugCGC- -5'
22897 3' -59.2 NC_005137.2 + 70289 0.69 0.568013
Target:  5'- gCGUCGGUGaaggcGUCGGUGAaggcgucgguaaagGUGUugGCGg -3'
miRNA:   3'- -GCGGCCGCa----CAGCCGCU--------------UACGugCGC- -5'
22897 3' -59.2 NC_005137.2 + 70337 0.76 0.23618
Target:  5'- gCGUCGGCGaaggcGUCGGUGAagGUGUugGCGa -3'
miRNA:   3'- -GCGGCCGCa----CAGCCGCU--UACGugCGC- -5'
22897 3' -59.2 NC_005137.2 + 70413 0.72 0.421428
Target:  5'- uGuuGGCGaaggcGUCGGUGAagGUGUugGCGg -3'
miRNA:   3'- gCggCCGCa----CAGCCGCU--UACGugCGC- -5'
22897 3' -59.2 NC_005137.2 + 75125 0.71 0.475018
Target:  5'- aGUCGGCGUcGUCGGCGcgauuguUGgACGCc -3'
miRNA:   3'- gCGGCCGCA-CAGCCGCuu-----ACgUGCGc -5'
22897 3' -59.2 NC_005137.2 + 80395 0.66 0.758343
Target:  5'- uGCCGGCGUGUauGa----GUACGCGu -3'
miRNA:   3'- gCGGCCGCACAgcCgcuuaCGUGCGC- -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.