miRNA display CGI


Results 1 - 12 of 12 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
8421 3' -59.9 NC_002166.1 + 10058 0.66 0.40926
Target:  5'- aCUCAGCCUUUCCCucagccuuucacgcuGcuugUCAccgaGUCCGGCCc -3'
miRNA:   3'- cGGGUCGGAGGGGG---------------U----AGU----UAGGCCGG- -5'
8421 3' -59.9 NC_002166.1 + 23364 0.66 0.396507
Target:  5'- uUCCAGCCUCUCaCCucugCAAUagCGGCa -3'
miRNA:   3'- cGGGUCGGAGGG-GGua--GUUAg-GCCGg -5'
8421 3' -59.9 NC_002166.1 + 29925 0.66 0.387555
Target:  5'- uGUCCAGCUUCaagcaCCUgGUCGAUuCCGGgCu -3'
miRNA:   3'- -CGGGUCGGAG-----GGGgUAGUUA-GGCCgG- -5'
8421 3' -59.9 NC_002166.1 + 2480 0.66 0.370056
Target:  5'- -aUCAGCCUUCuCCCGcuUCAGUCU-GCCa -3'
miRNA:   3'- cgGGUCGGAGG-GGGU--AGUUAGGcCGG- -5'
8421 3' -59.9 NC_002166.1 + 18372 0.67 0.361512
Target:  5'- -aCCAGCUUCCCgC-UCgAAUCCcagauGGCCa -3'
miRNA:   3'- cgGGUCGGAGGGgGuAG-UUAGG-----CCGG- -5'
8421 3' -59.9 NC_002166.1 + 16520 0.68 0.290904
Target:  5'- uGCCCAGCCUUaaggCCCAUCugcugauAUuuGcGCUg -3'
miRNA:   3'- -CGGGUCGGAGg---GGGUAGu------UAggC-CGG- -5'
8421 3' -59.9 NC_002166.1 + 18496 0.69 0.248214
Target:  5'- cCCCAGCCUugauggagccacugCCCaugaaCCAUCAagcGUCUGGUCa -3'
miRNA:   3'- cGGGUCGGA--------------GGG-----GGUAGU---UAGGCCGG- -5'
8421 3' -59.9 NC_002166.1 + 3231 0.71 0.182758
Target:  5'- aGCCCuGCCUCUCCCAUUgccuUCauaaaGGCa -3'
miRNA:   3'- -CGGGuCGGAGGGGGUAGuu--AGg----CCGg -5'
8421 3' -59.9 NC_002166.1 + 966 0.73 0.139404
Target:  5'- cGCaCGGCCuuUCCCCCAU---UCUGGCCa -3'
miRNA:   3'- -CGgGUCGG--AGGGGGUAguuAGGCCGG- -5'
8421 3' -59.9 NC_002166.1 + 27078 0.73 0.124862
Target:  5'- cUCagaGGCCUUCCCCggGUUAAUCCGGCa -3'
miRNA:   3'- cGGg--UCGGAGGGGG--UAGUUAGGCCGg -5'
8421 3' -59.9 NC_002166.1 + 1748 0.75 0.091828
Target:  5'- gGCUgAGCCUCCCgCugGUCgAGUUCGGCCa -3'
miRNA:   3'- -CGGgUCGGAGGGgG--UAG-UUAGGCCGG- -5'
8421 3' -59.9 NC_002166.1 + 10657 1.12 0.000152
Target:  5'- gGCCCAGCCUCCCCCAUCAAUCCGGCCc -3'
miRNA:   3'- -CGGGUCGGAGGGGGUAGUUAGGCCGG- -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.