miRNA display CGI


Results 1 - 20 of 25 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
28022 3' -48.9 NC_005887.1 + 35542 0.66 0.957244
Target:  5'- aCGUaGCGccaGUCGcgcaGCGUGagGCCGAUGUCc- -3'
miRNA:   3'- -GCA-CGU---UAGC----UGCAU--UGGCUACAGcu -5'
28022 3' -48.9 NC_005887.1 + 36729 0.66 0.952861
Target:  5'- uCGUGCGAaaCGAUGUuaaucguGCCGAUGcCGc -3'
miRNA:   3'- -GCACGUUa-GCUGCAu------UGGCUACaGCu -5'
28022 3' -48.9 NC_005887.1 + 15222 0.66 0.952861
Target:  5'- gCGUGaucgccgacgAGUCGACGaAGCUGAaGUCGAc -3'
miRNA:   3'- -GCACg---------UUAGCUGCaUUGGCUaCAGCU- -5'
28022 3' -48.9 NC_005887.1 + 13961 0.66 0.948185
Target:  5'- aCGUGCGcgUGACGacAGCCGcgaagccGUCGAc -3'
miRNA:   3'- -GCACGUuaGCUGCa-UUGGCua-----CAGCU- -5'
28022 3' -48.9 NC_005887.1 + 1415 0.66 0.948185
Target:  5'- -aUGCGcUCGGCGUuGCCGAacUCGGu -3'
miRNA:   3'- gcACGUuAGCUGCAuUGGCUacAGCU- -5'
28022 3' -48.9 NC_005887.1 + 40843 0.67 0.937937
Target:  5'- uCGUGCAGUCGgauccaccgGCGaAGCCGccgcgcgcGUCGAa -3'
miRNA:   3'- -GCACGUUAGC---------UGCaUUGGCua------CAGCU- -5'
28022 3' -48.9 NC_005887.1 + 26405 0.67 0.926476
Target:  5'- gCGUGCGG-CG-CGUGGCCGgcGcaUCGAu -3'
miRNA:   3'- -GCACGUUaGCuGCAUUGGCuaC--AGCU- -5'
28022 3' -48.9 NC_005887.1 + 10370 0.67 0.926476
Target:  5'- aCGUaCAA-CGGCGU-GCCGAcGUCGAc -3'
miRNA:   3'- -GCAcGUUaGCUGCAuUGGCUaCAGCU- -5'
28022 3' -48.9 NC_005887.1 + 38220 0.67 0.913794
Target:  5'- gCGcGCAGccUUGcGCGUGGCCGGgaugGUCGAg -3'
miRNA:   3'- -GCaCGUU--AGC-UGCAUUGGCUa---CAGCU- -5'
28022 3' -48.9 NC_005887.1 + 35075 0.68 0.906997
Target:  5'- --aGCGggCGGCcggGGCCGAUGUCGc -3'
miRNA:   3'- gcaCGUuaGCUGca-UUGGCUACAGCu -5'
28022 3' -48.9 NC_005887.1 + 11079 0.68 0.906997
Target:  5'- aCGagGCGAUCGACGcGGCCGA---CGAg -3'
miRNA:   3'- -GCa-CGUUAGCUGCaUUGGCUacaGCU- -5'
28022 3' -48.9 NC_005887.1 + 25358 0.68 0.88482
Target:  5'- gCGUgGCgGAUCGgcACGUAGCCGuaGUCGAg -3'
miRNA:   3'- -GCA-CG-UUAGC--UGCAUUGGCuaCAGCU- -5'
28022 3' -48.9 NC_005887.1 + 19131 0.69 0.868598
Target:  5'- gCGUGCcGUCGGCGUGGCCc---UUGAa -3'
miRNA:   3'- -GCACGuUAGCUGCAUUGGcuacAGCU- -5'
28022 3' -48.9 NC_005887.1 + 13898 0.69 0.867758
Target:  5'- uCGUGCGcGUCGGCauucGUGGCacguacgCGGUGUCGAc -3'
miRNA:   3'- -GCACGU-UAGCUG----CAUUG-------GCUACAGCU- -5'
28022 3' -48.9 NC_005887.1 + 14449 0.69 0.860076
Target:  5'- --cGCGAUCGACcaGACCGugcaaggcgucGUGUCGGg -3'
miRNA:   3'- gcaCGUUAGCUGcaUUGGC-----------UACAGCU- -5'
28022 3' -48.9 NC_005887.1 + 1080 0.69 0.832969
Target:  5'- cCGUGCGcagGUCGACGgcGCCauUGcCGAc -3'
miRNA:   3'- -GCACGU---UAGCUGCauUGGcuACaGCU- -5'
28022 3' -48.9 NC_005887.1 + 6274 0.69 0.832028
Target:  5'- aCGUGCAgcuguacAUCGACGgcguGCgCGAgcgcGUCGAg -3'
miRNA:   3'- -GCACGU-------UAGCUGCau--UG-GCUa---CAGCU- -5'
28022 3' -48.9 NC_005887.1 + 8401 0.7 0.793616
Target:  5'- --cGCAcgCGACGUGcucGCCGAgcgccGUCGGc -3'
miRNA:   3'- gcaCGUuaGCUGCAU---UGGCUa----CAGCU- -5'
28022 3' -48.9 NC_005887.1 + 32640 0.71 0.762106
Target:  5'- aCGaUGUGAUCGAcCGUGugcagcucACCGGUGUCGc -3'
miRNA:   3'- -GC-ACGUUAGCU-GCAU--------UGGCUACAGCu -5'
28022 3' -48.9 NC_005887.1 + 24113 0.71 0.751291
Target:  5'- gGUGCc--CGGCGUGGCCGAgg-CGAu -3'
miRNA:   3'- gCACGuuaGCUGCAUUGGCUacaGCU- -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.