miRNA display CGI


Results 1 - 18 of 18 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
31733 3' -60.8 NC_006938.1 + 55962 0.65 0.473707
Target:  5'- cGCGGCGaacuucacucggccCGAgacGCCCUCGGCCa- -3'
miRNA:   3'- uCGCCGUaca-----------GCUa--CGGGAGCCGGgu -5'
31733 3' -60.8 NC_006938.1 + 60838 0.66 0.466924
Target:  5'- uGGCGGCGgagugGUCG-UGaCCCUUGuuuacacgagcGCCCGg -3'
miRNA:   3'- -UCGCCGUa----CAGCuAC-GGGAGC-----------CGGGU- -5'
31733 3' -60.8 NC_006938.1 + 22868 0.66 0.466924
Target:  5'- cGCGGCgggccagcGUGcugaucuuguucUCGAuggcauucuUGUCCUUGGCCCAc -3'
miRNA:   3'- uCGCCG--------UAC------------AGCU---------ACGGGAGCCGGGU- -5'
31733 3' -60.8 NC_006938.1 + 56796 0.66 0.447829
Target:  5'- cAGCGacCAUGUCaugGAaGCCCU-GGCCCAu -3'
miRNA:   3'- -UCGCc-GUACAG---CUaCGGGAgCCGGGU- -5'
31733 3' -60.8 NC_006938.1 + 58283 0.66 0.438445
Target:  5'- aGGCGGUGUGgucaacUCGc--CCCUCGGCCa- -3'
miRNA:   3'- -UCGCCGUAC------AGCuacGGGAGCCGGgu -5'
31733 3' -60.8 NC_006938.1 + 52326 0.66 0.420021
Target:  5'- gGGCGGCA--UCGAcaacaacuUGCUCUCgaucaacaaccGGCCCGu -3'
miRNA:   3'- -UCGCCGUacAGCU--------ACGGGAG-----------CCGGGU- -5'
31733 3' -60.8 NC_006938.1 + 45305 0.67 0.402073
Target:  5'- gGGCGGCGgucaccUCGcagugGCCCUCGuGCCUc -3'
miRNA:   3'- -UCGCCGUac----AGCua---CGGGAGC-CGGGu -5'
31733 3' -60.8 NC_006938.1 + 62127 0.67 0.393283
Target:  5'- cGGUGGCAgGUa-GUGCaCC-CGGCCCGu -3'
miRNA:   3'- -UCGCCGUaCAgcUACG-GGaGCCGGGU- -5'
31733 3' -60.8 NC_006938.1 + 9742 0.67 0.376083
Target:  5'- cGCGGCc--UCGGUGCCCagGGUgCCAg -3'
miRNA:   3'- uCGCCGuacAGCUACGGGagCCG-GGU- -5'
31733 3' -60.8 NC_006938.1 + 59372 0.67 0.375237
Target:  5'- cGGCGGUcagcagggucucgAUGUCGGaGCCgUCcGCCCGg -3'
miRNA:   3'- -UCGCCG-------------UACAGCUaCGGgAGcCGGGU- -5'
31733 3' -60.8 NC_006938.1 + 54409 0.68 0.343237
Target:  5'- cGCGGCcggaGUCGAggccaccacUGUCCUCgcGGCCCu -3'
miRNA:   3'- uCGCCGua--CAGCU---------ACGGGAG--CCGGGu -5'
31733 3' -60.8 NC_006938.1 + 53132 0.68 0.335355
Target:  5'- cGGCGGCccgucuccAUGUCGAUGUagcacgCCUC-GCCCu -3'
miRNA:   3'- -UCGCCG--------UACAGCUACG------GGAGcCGGGu -5'
31733 3' -60.8 NC_006938.1 + 12634 0.68 0.335355
Target:  5'- cGUGGCGaagucucgGUCcagGCCCUCGGCCg- -3'
miRNA:   3'- uCGCCGUa-------CAGcuaCGGGAGCCGGgu -5'
31733 3' -60.8 NC_006938.1 + 54122 0.71 0.2272
Target:  5'- uGCGGUugaucugGUCGAugaacagggUGCCgggCUCGGCCCAg -3'
miRNA:   3'- uCGCCGua-----CAGCU---------ACGG---GAGCCGGGU- -5'
31733 3' -60.8 NC_006938.1 + 39072 0.71 0.221528
Target:  5'- cGCuGGCAUGUaCGAgaccugGCuCUUCGGCCCc -3'
miRNA:   3'- uCG-CCGUACA-GCUa-----CG-GGAGCCGGGu -5'
31733 3' -60.8 NC_006938.1 + 23698 0.74 0.146149
Target:  5'- gGGCGGCAUGgccgaGAUGCUCgagCGcGCCCu -3'
miRNA:   3'- -UCGCCGUACag---CUACGGGa--GC-CGGGu -5'
31733 3' -60.8 NC_006938.1 + 31516 0.76 0.10298
Target:  5'- gAGUGGCAgGUCGAUGUCCUCGaCCUu -3'
miRNA:   3'- -UCGCCGUaCAGCUACGGGAGCcGGGu -5'
31733 3' -60.8 NC_006938.1 + 45888 0.97 0.002429
Target:  5'- aAGCGGCAUGUCGAUGCCCUCgcccaGGCCCAg -3'
miRNA:   3'- -UCGCCGUACAGCUACGGGAG-----CCGGGU- -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.