miRNA display CGI


Results 1 - 20 of 64 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
1537 3' -62.9 NC_001347.2 + 229225 0.66 0.747804
Target:  5'- -aCCCCCGUCcCCGgcccCAACACCguCCcGCa -3'
miRNA:   3'- ugGGGGGCAGaGGC----GUUGUGG--GGcCG- -5'
1537 3' -62.9 NC_001347.2 + 21642 0.66 0.746911
Target:  5'- -gCCUuuGUCggCGCGGCucuucucGCCCUGGCg -3'
miRNA:   3'- ugGGGggCAGagGCGUUG-------UGGGGCCG- -5'
1537 3' -62.9 NC_001347.2 + 128410 0.66 0.738839
Target:  5'- cGCCCCaCGUcCUCCucuuuCAGC-CCCaCGGCg -3'
miRNA:   3'- -UGGGGgGCA-GAGGc----GUUGuGGG-GCCG- -5'
1537 3' -62.9 NC_001347.2 + 132670 0.66 0.738839
Target:  5'- uCUUgCCGUCgUCCGU--CACCCgGGCg -3'
miRNA:   3'- uGGGgGGCAG-AGGCGuuGUGGGgCCG- -5'
1537 3' -62.9 NC_001347.2 + 204633 0.66 0.736133
Target:  5'- -aCCCCCGaUggcugugcgaguaaCUCCGUug-GCCCCGGUa -3'
miRNA:   3'- ugGGGGGC-A--------------GAGGCGuugUGGGGCCG- -5'
1537 3' -62.9 NC_001347.2 + 20343 0.66 0.729794
Target:  5'- cGCCCCaguuCGUCUCCuaauCGACGuguCCgCGGCg -3'
miRNA:   3'- -UGGGGg---GCAGAGGc---GUUGU---GGgGCCG- -5'
1537 3' -62.9 NC_001347.2 + 222080 0.66 0.728886
Target:  5'- cCCCCCCaaaucauGUCUCUa-GAUGCCgCCGGCc -3'
miRNA:   3'- uGGGGGG-------CAGAGGcgUUGUGG-GGCCG- -5'
1537 3' -62.9 NC_001347.2 + 143709 0.66 0.720678
Target:  5'- aGCUCUCCGUCgccuaUGCGGCAUCucgCCGGUg -3'
miRNA:   3'- -UGGGGGGCAGag---GCGUUGUGG---GGCCG- -5'
1537 3' -62.9 NC_001347.2 + 127148 0.66 0.720678
Target:  5'- cGCUgCCCGUCUaCCGCGuACACCugcccaaugaCCaGCa -3'
miRNA:   3'- -UGGgGGGCAGA-GGCGU-UGUGG----------GGcCG- -5'
1537 3' -62.9 NC_001347.2 + 174090 0.66 0.720678
Target:  5'- aACUaa-CGUgUCCGCgGACACCCgCGGCc -3'
miRNA:   3'- -UGGgggGCAgAGGCG-UUGUGGG-GCCG- -5'
1537 3' -62.9 NC_001347.2 + 2394 0.66 0.711496
Target:  5'- cGCCCgCCGcCgaggCCGCGcggcggcuGCugCCCGaGCu -3'
miRNA:   3'- -UGGGgGGCaGa---GGCGU--------UGugGGGC-CG- -5'
1537 3' -62.9 NC_001347.2 + 23266 0.66 0.711496
Target:  5'- cGCCCCCaccC-CCGCGAC-CCUCGcGCg -3'
miRNA:   3'- -UGGGGGgcaGaGGCGUUGuGGGGC-CG- -5'
1537 3' -62.9 NC_001347.2 + 174249 0.66 0.710575
Target:  5'- gACCUCCgCGUCggucgccgccUCCGCGGC-CCguuucgacgaaauCCGGCg -3'
miRNA:   3'- -UGGGGG-GCAG----------AGGCGUUGuGG-------------GGCCG- -5'
1537 3' -62.9 NC_001347.2 + 180470 0.66 0.702258
Target:  5'- --gCUCCGUUcgCGCAGCGCCCUGGg -3'
miRNA:   3'- uggGGGGCAGagGCGUUGUGGGGCCg -5'
1537 3' -62.9 NC_001347.2 + 51568 0.66 0.702258
Target:  5'- gGCCCCgCGgggUCUCCuucgcGCAACAuUCCUGGUc -3'
miRNA:   3'- -UGGGGgGC---AGAGG-----CGUUGU-GGGGCCG- -5'
1537 3' -62.9 NC_001347.2 + 135123 0.66 0.702258
Target:  5'- gGCCCaCCGUCgaccCCG-AGCGCuUCCGGCc -3'
miRNA:   3'- -UGGGgGGCAGa---GGCgUUGUG-GGGCCG- -5'
1537 3' -62.9 NC_001347.2 + 74025 0.67 0.683636
Target:  5'- aACCaaaggacgaCCCGUCUCCccccGCACCCgGGUu -3'
miRNA:   3'- -UGGg--------GGGCAGAGGcgu-UGUGGGgCCG- -5'
1537 3' -62.9 NC_001347.2 + 225497 0.67 0.683636
Target:  5'- uGCUgCCCCGgcguUCUCCagaa-GCCCCGGCg -3'
miRNA:   3'- -UGG-GGGGC----AGAGGcguugUGGGGCCG- -5'
1537 3' -62.9 NC_001347.2 + 114435 0.67 0.683636
Target:  5'- cGCCgCCCGUCUCaGcCAGCGCcugugucaCCCGcGCu -3'
miRNA:   3'- -UGGgGGGCAGAGgC-GUUGUG--------GGGC-CG- -5'
1537 3' -62.9 NC_001347.2 + 135786 0.67 0.683636
Target:  5'- gACCCcggguCCCGUCcauUCCGCGGCggguggACCgggaagCCGGCg -3'
miRNA:   3'- -UGGG-----GGGCAG---AGGCGUUG------UGG------GGCCG- -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.