miRNA display CGI


Results 1 - 20 of 21 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
23863 3' -59.7 NC_005262.1 + 46892 0.66 0.503181
Target:  5'- uGCGguGCGGUGCgGgcggugcGGUGUGGuGCGg -3'
miRNA:   3'- -UGCuuCGUCGCGgCa------CCGCACCuCGU- -5'
23863 3' -59.7 NC_005262.1 + 15442 0.66 0.493134
Target:  5'- cCGGccgccAGCAGCGCCGggucGGuCGUGccGAGCu -3'
miRNA:   3'- uGCU-----UCGUCGCGGCa---CC-GCAC--CUCGu -5'
23863 3' -59.7 NC_005262.1 + 56508 0.66 0.492134
Target:  5'- aGCGAggAGCAucuggacGCGCCGUGGUucccggcauccGUcGAGCAg -3'
miRNA:   3'- -UGCU--UCGU-------CGCGGCACCG-----------CAcCUCGU- -5'
23863 3' -59.7 NC_005262.1 + 59601 0.66 0.48318
Target:  5'- uACGAu-CAG-GCCGUGGuCGUGG-GCGa -3'
miRNA:   3'- -UGCUucGUCgCGGCACC-GCACCuCGU- -5'
23863 3' -59.7 NC_005262.1 + 52720 0.67 0.454881
Target:  5'- gACGAGGCcGCGCUGcugacgaaguucacgGGC-UGGGGCGc -3'
miRNA:   3'- -UGCUUCGuCGCGGCa--------------CCGcACCUCGU- -5'
23863 3' -59.7 NC_005262.1 + 59219 0.67 0.434958
Target:  5'- cACGcccGAGCAGCGCCGccgcUGGCGcGaGAuGCGc -3'
miRNA:   3'- -UGC---UUCGUCGCGGC----ACCGCaC-CU-CGU- -5'
23863 3' -59.7 NC_005262.1 + 10584 0.68 0.398455
Target:  5'- cGCGGAGCAGCGC---GGCGc-GAGCGg -3'
miRNA:   3'- -UGCUUCGUCGCGgcaCCGCacCUCGU- -5'
23863 3' -59.7 NC_005262.1 + 4573 0.68 0.38964
Target:  5'- cGCGccagcGGCGGCGCUGcucgGGCGU-GAGCGc -3'
miRNA:   3'- -UGCu----UCGUCGCGGCa---CCGCAcCUCGU- -5'
23863 3' -59.7 NC_005262.1 + 52155 0.68 0.372398
Target:  5'- cGCGAcGcCGGCGCCGccgagccgaUGGUGcagGGGGCAg -3'
miRNA:   3'- -UGCUuC-GUCGCGGC---------ACCGCa--CCUCGU- -5'
23863 3' -59.7 NC_005262.1 + 62377 0.68 0.372398
Target:  5'- gACGAAGCGGCcgcgGUCGUGGCGgaucaucAGCGc -3'
miRNA:   3'- -UGCUUCGUCG----CGGCACCGCacc----UCGU- -5'
23863 3' -59.7 NC_005262.1 + 52616 0.68 0.363974
Target:  5'- cACGAucacGGCGGCGUCGUcGGCGuUGucGCAg -3'
miRNA:   3'- -UGCU----UCGUCGCGGCA-CCGC-ACcuCGU- -5'
23863 3' -59.7 NC_005262.1 + 14037 0.69 0.355683
Target:  5'- cCGGAGCcucgggcgcgGGCGCCGccGGCGUcGGuGCGg -3'
miRNA:   3'- uGCUUCG----------UCGCGGCa-CCGCA-CCuCGU- -5'
23863 3' -59.7 NC_005262.1 + 17554 0.69 0.339503
Target:  5'- cGCGAGGCGGCaGCCGcGGCGgcgcGCGa -3'
miRNA:   3'- -UGCUUCGUCG-CGGCaCCGCaccuCGU- -5'
23863 3' -59.7 NC_005262.1 + 17598 0.69 0.339503
Target:  5'- gGCGgcGCAGCGCgCG-GaGC-UGGAGCGc -3'
miRNA:   3'- -UGCuuCGUCGCG-GCaC-CGcACCUCGU- -5'
23863 3' -59.7 NC_005262.1 + 14519 0.69 0.338708
Target:  5'- gGCGAucggcaacagcauGGCAGUGCCGUGcauGCGcUGGAucgGCAg -3'
miRNA:   3'- -UGCU-------------UCGUCGCGGCAC---CGC-ACCU---CGU- -5'
23863 3' -59.7 NC_005262.1 + 42768 0.69 0.329276
Target:  5'- uCGAcGGCAGCGCUGUGGUGcgaaaaucguaucaUGGuucGGCAa -3'
miRNA:   3'- uGCU-UCGUCGCGGCACCGC--------------ACC---UCGU- -5'
23863 3' -59.7 NC_005262.1 + 4094 0.69 0.323864
Target:  5'- gGCGAcGUAGCGCCc--GCGUGGcGGCAc -3'
miRNA:   3'- -UGCUuCGUCGCGGcacCGCACC-UCGU- -5'
23863 3' -59.7 NC_005262.1 + 17220 0.7 0.308027
Target:  5'- gACGgcGCuGGCGUCGUGGuCGUcgugggcgucgcgGGAGCGg -3'
miRNA:   3'- -UGCuuCG-UCGCGGCACC-GCA-------------CCUCGU- -5'
23863 3' -59.7 NC_005262.1 + 10486 0.71 0.267384
Target:  5'- gGCGAccagcAGCAGCGCCagcaUGGCGgccagcagcagcgcgGGGGCGg -3'
miRNA:   3'- -UGCU-----UCGUCGCGGc---ACCGCa--------------CCUCGU- -5'
23863 3' -59.7 NC_005262.1 + 52393 0.75 0.125099
Target:  5'- cCGgcGCGGCGCgGcuucGGCGUGGAGCc -3'
miRNA:   3'- uGCuuCGUCGCGgCa---CCGCACCUCGu -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.