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
23330 5' -54.8 NC_005259.1 + 6619 1.11 0.001144
Target:  5'- uCGAUCAAGAUUGCCAGCGGGUCCGCCc -3'
miRNA:   3'- -GCUAGUUCUAACGGUCGCCCAGGCGG- -5'
23330 5' -54.8 NC_005259.1 + 9983 0.78 0.215758
Target:  5'- cCGGUCGAGGUgGCCAGcCGGGgacugaUCCGCg -3'
miRNA:   3'- -GCUAGUUCUAaCGGUC-GCCC------AGGCGg -5'
23330 5' -54.8 NC_005259.1 + 58283 0.77 0.251729
Target:  5'- aGAUCAGGuucgcgagGCCAGCGGauaCCGCCa -3'
miRNA:   3'- gCUAGUUCuaa-----CGGUCGCCca-GGCGG- -5'
23330 5' -54.8 NC_005259.1 + 66491 0.75 0.299773
Target:  5'- uCGAUCAugGGAUuuccuuccUGUCGGCGGGgcggucCCGCCu -3'
miRNA:   3'- -GCUAGU--UCUA--------ACGGUCGCCCa-----GGCGG- -5'
23330 5' -54.8 NC_005259.1 + 46276 0.75 0.330272
Target:  5'- uGcgCGAGGUucUGCaaCAGCGGGgCCGCCg -3'
miRNA:   3'- gCuaGUUCUA--ACG--GUCGCCCaGGCGG- -5'
23330 5' -54.8 NC_005259.1 + 57691 0.74 0.343909
Target:  5'- cCGuggCcAGGUUGCCGggcuugcccgacucGCGGGUCUGCCa -3'
miRNA:   3'- -GCua-GuUCUAACGGU--------------CGCCCAGGCGG- -5'
23330 5' -54.8 NC_005259.1 + 58790 0.73 0.416146
Target:  5'- cCGGUCGAGGcggugaUUGCCucGGCGGGcUCgCGCUg -3'
miRNA:   3'- -GCUAGUUCU------AACGG--UCGCCC-AG-GCGG- -5'
23330 5' -54.8 NC_005259.1 + 23345 0.72 0.473793
Target:  5'- uCGGgcUCGAGGcUGCCuGCGaGG-CCGCCg -3'
miRNA:   3'- -GCU--AGUUCUaACGGuCGC-CCaGGCGG- -5'
23330 5' -54.8 NC_005259.1 + 8661 0.72 0.483791
Target:  5'- uGGUCGGGc-UGCCAcGCGGGcaacggggCCGCCu -3'
miRNA:   3'- gCUAGUUCuaACGGU-CGCCCa-------GGCGG- -5'
23330 5' -54.8 NC_005259.1 + 5059 0.7 0.556279
Target:  5'- aCGGUCGAGAUcGUgGGcCGGGUCgacggGCCg -3'
miRNA:   3'- -GCUAGUUCUAaCGgUC-GCCCAGg----CGG- -5'
23330 5' -54.8 NC_005259.1 + 26017 0.7 0.577614
Target:  5'- ---gCGGGAUgGCCgcaAGCGGGUUgGCCa -3'
miRNA:   3'- gcuaGUUCUAaCGG---UCGCCCAGgCGG- -5'
23330 5' -54.8 NC_005259.1 + 48589 0.69 0.620741
Target:  5'- aCGAUUGAGcUUGUCGagcGCGGGcgcuaCCGCCg -3'
miRNA:   3'- -GCUAGUUCuAACGGU---CGCCCa----GGCGG- -5'
23330 5' -54.8 NC_005259.1 + 12539 0.68 0.674789
Target:  5'- cCGAgCGAGccccacggcAUUGCCGGgGuGGcCCGCCa -3'
miRNA:   3'- -GCUaGUUC---------UAACGGUCgC-CCaGGCGG- -5'
23330 5' -54.8 NC_005259.1 + 2133 0.68 0.716329
Target:  5'- aGGUCAcgcagacccgcacGGugcugGCCAGCGGcGUcgagCCGCCg -3'
miRNA:   3'- gCUAGU-------------UCuaa--CGGUCGCC-CA----GGCGG- -5'
23330 5' -54.8 NC_005259.1 + 4222 0.68 0.706828
Target:  5'- aGAUCGAGcagGCCaAGCaGGccCCGCCc -3'
miRNA:   3'- gCUAGUUCuaaCGG-UCGcCCa-GGCGG- -5'
23330 5' -54.8 NC_005259.1 + 6194 0.67 0.73823
Target:  5'- uGAUCuGAGcAgcGUgAGCGGGgugagCCGCCg -3'
miRNA:   3'- gCUAG-UUC-UaaCGgUCGCCCa----GGCGG- -5'
23330 5' -54.8 NC_005259.1 + 60574 0.67 0.747482
Target:  5'- aCGGUCAGGcg-GCCcacggcgAGuCGGGUgCCGUCa -3'
miRNA:   3'- -GCUAGUUCuaaCGG-------UC-GCCCA-GGCGG- -5'
23330 5' -54.8 NC_005259.1 + 37282 0.67 0.748505
Target:  5'- cCGG-CAGGAcUUGCaUGGCGGuGcCCGCCg -3'
miRNA:   3'- -GCUaGUUCU-AACG-GUCGCC-CaGGCGG- -5'
23330 5' -54.8 NC_005259.1 + 19247 0.67 0.758665
Target:  5'- uGAUCGAuGGccGCCuGcCGGG-CCGCCc -3'
miRNA:   3'- gCUAGUU-CUaaCGGuC-GCCCaGGCGG- -5'
23330 5' -54.8 NC_005259.1 + 28894 0.66 0.778599
Target:  5'- -cGUCAagcAGAUUGUCGGCGacgaGGaacgCCGCCu -3'
miRNA:   3'- gcUAGU---UCUAACGGUCGC----CCa---GGCGG- -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.