miRNA display CGI


Results 1 - 20 of 40 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
16396 3' -53 NC_004084.1 + 8188 0.66 0.875737
Target:  5'- cGCaGAGGACUCGuUCGAGaaucagaacGACGg-- -3'
miRNA:   3'- -CG-CUCCUGAGCuAGCUCga-------CUGCaug -5'
16396 3' -53 NC_004084.1 + 39884 0.66 0.875737
Target:  5'- uGCGGuGGGCUCGAagucgcCGAGUUGGCc--- -3'
miRNA:   3'- -CGCU-CCUGAGCUa-----GCUCGACUGcaug -5'
16396 3' -53 NC_004084.1 + 30975 0.66 0.867828
Target:  5'- aGCGAgcGGugUCGAagUCGAuucCUGACGUc- -3'
miRNA:   3'- -CGCU--CCugAGCU--AGCUc--GACUGCAug -5'
16396 3' -53 NC_004084.1 + 23597 0.66 0.867828
Target:  5'- cGCGAcgauGGACUCgcuGAUCGgauccaAGCUGugG-ACg -3'
miRNA:   3'- -CGCU----CCUGAG---CUAGC------UCGACugCaUG- -5'
16396 3' -53 NC_004084.1 + 21645 0.66 0.859671
Target:  5'- aGCGGGGcgaacccgACUCGAacuaUCGAGCccGAC-UGCa -3'
miRNA:   3'- -CGCUCC--------UGAGCU----AGCUCGa-CUGcAUG- -5'
16396 3' -53 NC_004084.1 + 56213 0.66 0.859671
Target:  5'- gGCGAGGACaUCGAUgCGcuaCUGGCGc-- -3'
miRNA:   3'- -CGCUCCUG-AGCUA-GCuc-GACUGCaug -5'
16396 3' -53 NC_004084.1 + 28415 0.66 0.859671
Target:  5'- cGCGAgaagaaGGACggCGG-CGAGCUcGAgGUGCu -3'
miRNA:   3'- -CGCU------CCUGa-GCUaGCUCGA-CUgCAUG- -5'
16396 3' -53 NC_004084.1 + 5357 0.66 0.851276
Target:  5'- gGCGAGGACUgGGaCGAuCUcGACGUc- -3'
miRNA:   3'- -CGCUCCUGAgCUaGCUcGA-CUGCAug -5'
16396 3' -53 NC_004084.1 + 51453 0.66 0.842648
Target:  5'- gGCGAGGGCcgCGG-CG-GCUGuACGgGCg -3'
miRNA:   3'- -CGCUCCUGa-GCUaGCuCGAC-UGCaUG- -5'
16396 3' -53 NC_004084.1 + 39285 0.66 0.840016
Target:  5'- cGCGucgcGGACUCGAUCGucgagcaccgagagGGCgagGAC-UACg -3'
miRNA:   3'- -CGCu---CCUGAGCUAGC--------------UCGa--CUGcAUG- -5'
16396 3' -53 NC_004084.1 + 37334 0.66 0.833798
Target:  5'- aGCGAGucCUCGA-CGAGCgccggGACGc-- -3'
miRNA:   3'- -CGCUCcuGAGCUaGCUCGa----CUGCaug -5'
16396 3' -53 NC_004084.1 + 39466 0.66 0.833798
Target:  5'- cGCGAGcGC-CGAUCGAGgaGGCcaACa -3'
miRNA:   3'- -CGCUCcUGaGCUAGCUCgaCUGcaUG- -5'
16396 3' -53 NC_004084.1 + 9112 0.66 0.833798
Target:  5'- aGCGAgcaggucaaGGACUCGAUCG-GCguccgucgGGCGg-- -3'
miRNA:   3'- -CGCU---------CCUGAGCUAGCuCGa-------CUGCaug -5'
16396 3' -53 NC_004084.1 + 44282 0.67 0.824735
Target:  5'- gGCGAGGugUCGGUaugaaCGAcGCUGAg--ACg -3'
miRNA:   3'- -CGCUCCugAGCUA-----GCU-CGACUgcaUG- -5'
16396 3' -53 NC_004084.1 + 5626 0.67 0.824735
Target:  5'- cCGAGGACgaaaUUGAagcacUCGAgGCUGGCGaGCg -3'
miRNA:   3'- cGCUCCUG----AGCU-----AGCU-CGACUGCaUG- -5'
16396 3' -53 NC_004084.1 + 52699 0.67 0.806005
Target:  5'- uCGAGGAcCUCGGccCGAGC-GACGUc- -3'
miRNA:   3'- cGCUCCU-GAGCUa-GCUCGaCUGCAug -5'
16396 3' -53 NC_004084.1 + 12068 0.67 0.796359
Target:  5'- cGCuGGGGaACUCG-UCGAGUUGACu--- -3'
miRNA:   3'- -CG-CUCC-UGAGCuAGCUCGACUGcaug -5'
16396 3' -53 NC_004084.1 + 3062 0.67 0.796359
Target:  5'- uCGAGGaACUCG-UCGAcgggccGCUcgucGACGUGCg -3'
miRNA:   3'- cGCUCC-UGAGCuAGCU------CGA----CUGCAUG- -5'
16396 3' -53 NC_004084.1 + 40187 0.67 0.786541
Target:  5'- uCGuAGGACUCGAagccGCUGGCGUGg -3'
miRNA:   3'- cGC-UCCUGAGCUagcuCGACUGCAUg -5'
16396 3' -53 NC_004084.1 + 8623 0.67 0.786541
Target:  5'- gGUGAGGACgUCGAucUCGAGgUcGgGUACa -3'
miRNA:   3'- -CGCUCCUG-AGCU--AGCUCgAcUgCAUG- -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.