miRNA display CGI


Results 1 - 19 of 19 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
7250 3' -56.1 NC_001900.1 + 6683 0.66 0.698893
Target:  5'- aGCGGAuggUCGcucGAGCGAUCGaCGCgGGc -3'
miRNA:   3'- cCGCCU---AGCc--UUUGCUAGC-GCGgCCu -5'
7250 3' -56.1 NC_001900.1 + 22233 0.66 0.677444
Target:  5'- gGGUGGAUCaaGAACGAcCGCcCCGGc -3'
miRNA:   3'- -CCGCCUAGccUUUGCUaGCGcGGCCu -5'
7250 3' -56.1 NC_001900.1 + 32130 0.66 0.677444
Target:  5'- uGGUaGGuGUUGGGAGCGAUCuC-CCGGAg -3'
miRNA:   3'- -CCG-CC-UAGCCUUUGCUAGcGcGGCCU- -5'
7250 3' -56.1 NC_001900.1 + 34411 0.66 0.666651
Target:  5'- cGGCGGAuguugaucaUCGGGAacucACGGaagUCGaUGUCGGGa -3'
miRNA:   3'- -CCGCCU---------AGCCUU----UGCU---AGC-GCGGCCU- -5'
7250 3' -56.1 NC_001900.1 + 30004 0.66 0.666651
Target:  5'- aGuCGGAcgCGGGcAGCGucUGCGCCGGGa -3'
miRNA:   3'- cC-GCCUa-GCCU-UUGCuaGCGCGGCCU- -5'
7250 3' -56.1 NC_001900.1 + 23097 0.66 0.666651
Target:  5'- aGCuGGuGUCGGAGAacc-CGUGCCGGAu -3'
miRNA:   3'- cCG-CC-UAGCCUUUgcuaGCGCGGCCU- -5'
7250 3' -56.1 NC_001900.1 + 5691 0.67 0.644982
Target:  5'- cGCGaccUC-GAAACGGUcaCGCGCCGGAu -3'
miRNA:   3'- cCGCcu-AGcCUUUGCUA--GCGCGGCCU- -5'
7250 3' -56.1 NC_001900.1 + 41481 0.67 0.623266
Target:  5'- uGGUaGAagucgUCGGAGACGuUCGCGCCu-- -3'
miRNA:   3'- -CCGcCU-----AGCCUUUGCuAGCGCGGccu -5'
7250 3' -56.1 NC_001900.1 + 45773 0.67 0.612415
Target:  5'- uGGgGGAUCGaccAGCGGaagUCGCGgCCGGu -3'
miRNA:   3'- -CCgCCUAGCcu-UUGCU---AGCGC-GGCCu -5'
7250 3' -56.1 NC_001900.1 + 17616 0.67 0.600499
Target:  5'- uGGCcGAUCGGAuccagguAGUGAUCGCGCUGc- -3'
miRNA:   3'- -CCGcCUAGCCU-------UUGCUAGCGCGGCcu -5'
7250 3' -56.1 NC_001900.1 + 27788 0.67 0.590772
Target:  5'- aGCGGGggcaGGu--CGAUCGCGCCa-- -3'
miRNA:   3'- cCGCCUag--CCuuuGCUAGCGCGGccu -5'
7250 3' -56.1 NC_001900.1 + 18849 0.68 0.53109
Target:  5'- aGGUGGAcaagggguucuacgCGGAcAUGAUCGCuGCgGGAg -3'
miRNA:   3'- -CCGCCUa-------------GCCUuUGCUAGCG-CGgCCU- -5'
7250 3' -56.1 NC_001900.1 + 23287 0.69 0.51649
Target:  5'- cGUGGAUgaCGGcgAGACGAUgaagcuccgcgUGCGCCGGGg -3'
miRNA:   3'- cCGCCUA--GCC--UUUGCUA-----------GCGCGGCCU- -5'
7250 3' -56.1 NC_001900.1 + 5466 0.69 0.485777
Target:  5'- cGGCGGuccugCGGAuGCac-CGCGUCGGAu -3'
miRNA:   3'- -CCGCCua---GCCUuUGcuaGCGCGGCCU- -5'
7250 3' -56.1 NC_001900.1 + 35679 0.71 0.381643
Target:  5'- uGGCGGGguacUUGGucuCG-UCGCGCUGGAc -3'
miRNA:   3'- -CCGCCU----AGCCuuuGCuAGCGCGGCCU- -5'
7250 3' -56.1 NC_001900.1 + 21266 0.71 0.372937
Target:  5'- cGGCGcGGUCGGuggcGCGAUCGaccugccccCGCUGGGc -3'
miRNA:   3'- -CCGC-CUAGCCuu--UGCUAGC---------GCGGCCU- -5'
7250 3' -56.1 NC_001900.1 + 1160 0.72 0.346815
Target:  5'- gGGUGGAcUUGGAGGCGG-CGguggagcCGCCGGAa -3'
miRNA:   3'- -CCGCCU-AGCCUUUGCUaGC-------GCGGCCU- -5'
7250 3' -56.1 NC_001900.1 + 21606 0.73 0.300801
Target:  5'- uGCuGGAUCGGA---GAUCGCGUCGGc -3'
miRNA:   3'- cCG-CCUAGCCUuugCUAGCGCGGCCu -5'
7250 3' -56.1 NC_001900.1 + 647 1.11 0.000665
Target:  5'- aGGCGGAUCGGAAACGAUCGCGCCGGAu -3'
miRNA:   3'- -CCGCCUAGCCUUUGCUAGCGCGGCCU- -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.