miRNA display CGI


Results 1 - 20 of 121 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
28068 3' -55.7 NC_005887.1 + 28324 0.66 0.621352
Target:  5'- uGGaaGCCuGUugucgGCGUCugcGCcgGCGCGGCAu -3'
miRNA:   3'- -CC--UGGuCG-----CGUAGu--UGuaCGCGCCGU- -5'
28068 3' -55.7 NC_005887.1 + 28803 0.66 0.621352
Target:  5'- cGGCUuucGCGaaaucCAUCAGCAgaucgGCGCGGUAc -3'
miRNA:   3'- cCUGGu--CGC-----GUAGUUGUa----CGCGCCGU- -5'
28068 3' -55.7 NC_005887.1 + 12371 0.66 0.621352
Target:  5'- uGGACCu-CGa--CAGCAUccGCGCGGCGg -3'
miRNA:   3'- -CCUGGucGCguaGUUGUA--CGCGCCGU- -5'
28068 3' -55.7 NC_005887.1 + 30143 0.66 0.621352
Target:  5'- --uCCGGCGCGc---CcgGCGCGGCGc -3'
miRNA:   3'- ccuGGUCGCGUaguuGuaCGCGCCGU- -5'
28068 3' -55.7 NC_005887.1 + 31967 0.66 0.621352
Target:  5'- aGGCCGGCGauaGUCGACGU---CGGCAc -3'
miRNA:   3'- cCUGGUCGCg--UAGUUGUAcgcGCCGU- -5'
28068 3' -55.7 NC_005887.1 + 36844 0.66 0.621352
Target:  5'- cGGCCGGUGCugCGGCcgGUGCuGCGGCn -3'
miRNA:   3'- cCUGGUCGCGuaGUUG--UACG-CGCCGu -5'
28068 3' -55.7 NC_005887.1 + 1473 0.66 0.621352
Target:  5'- -cACCGucGCGUuucuucuUCGACGcGCGCGGCGg -3'
miRNA:   3'- ccUGGU--CGCGu------AGUUGUaCGCGCCGU- -5'
28068 3' -55.7 NC_005887.1 + 19357 0.66 0.621352
Target:  5'- cGACCGGCGUcgAUCAGCGgcaacGCGCcauGCu -3'
miRNA:   3'- cCUGGUCGCG--UAGUUGUa----CGCGc--CGu -5'
28068 3' -55.7 NC_005887.1 + 28105 0.66 0.614603
Target:  5'- gGGGCguGCGUgacgGUCugguugguggucaagAACA-GCGCGGCGa -3'
miRNA:   3'- -CCUGguCGCG----UAG---------------UUGUaCGCGCCGU- -5'
28068 3' -55.7 NC_005887.1 + 15912 0.66 0.610107
Target:  5'- cGGAUCucGCGCGgcugCAGCGcgcguucccGCGCGGCc -3'
miRNA:   3'- -CCUGGu-CGCGUa---GUUGUa--------CGCGCCGu -5'
28068 3' -55.7 NC_005887.1 + 28802 0.66 0.610107
Target:  5'- cGGGCggCAGCGCAUCGccgaucgcauucGCGauCGUGGCGc -3'
miRNA:   3'- -CCUG--GUCGCGUAGU------------UGUacGCGCCGU- -5'
28068 3' -55.7 NC_005887.1 + 19184 0.66 0.610107
Target:  5'- uGAgCGGCGCGggcguggaGACAggcgGCGCGGUu -3'
miRNA:   3'- cCUgGUCGCGUag------UUGUa---CGCGCCGu -5'
28068 3' -55.7 NC_005887.1 + 30985 0.66 0.598881
Target:  5'- -cGCCcacuguucggGGUGCGUCucucGCGUgGCGCGGCGc -3'
miRNA:   3'- ccUGG----------UCGCGUAGu---UGUA-CGCGCCGU- -5'
28068 3' -55.7 NC_005887.1 + 40495 0.66 0.598881
Target:  5'- aGGCgUGGCGCGacgucguguUCGGCAUccaccacgcggcGCGCGGCAg -3'
miRNA:   3'- cCUG-GUCGCGU---------AGUUGUA------------CGCGCCGU- -5'
28068 3' -55.7 NC_005887.1 + 30936 0.66 0.587686
Target:  5'- -uGCCAGCGCGcUCGGCgGUGaUGuCGGCGc -3'
miRNA:   3'- ccUGGUCGCGU-AGUUG-UAC-GC-GCCGU- -5'
28068 3' -55.7 NC_005887.1 + 32650 0.66 0.587686
Target:  5'- cGACCGuGUGCAgcUCAccggugucgcGCGUGCGCgcuucGGCAa -3'
miRNA:   3'- cCUGGU-CGCGU--AGU----------UGUACGCG-----CCGU- -5'
28068 3' -55.7 NC_005887.1 + 32951 0.66 0.587686
Target:  5'- cGACC-GCGCGaauACGUucucGCGCGGCGc -3'
miRNA:   3'- cCUGGuCGCGUaguUGUA----CGCGCCGU- -5'
28068 3' -55.7 NC_005887.1 + 26084 0.66 0.587686
Target:  5'- cGAUCuGCuGCAUCAGCucgGCGaCGGUg -3'
miRNA:   3'- cCUGGuCG-CGUAGUUGua-CGC-GCCGu -5'
28068 3' -55.7 NC_005887.1 + 1947 0.66 0.587686
Target:  5'- cGACCGGCaCGUCGGcCGUGC-CGGgCAu -3'
miRNA:   3'- cCUGGUCGcGUAGUU-GUACGcGCC-GU- -5'
28068 3' -55.7 NC_005887.1 + 15307 0.66 0.587686
Target:  5'- --gUCGG-GCggCAGCGUGCGCGGUc -3'
miRNA:   3'- ccuGGUCgCGuaGUUGUACGCGCCGu -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.