miRNA display CGI


Results 1 - 20 of 34 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
1538 3' -55.9 NC_001347.2 + 99686 0.66 0.971907
Target:  5'- aCCGCGGcuuACgggucgGUCCuCCGUC-CCAugGg -3'
miRNA:   3'- -GGCGUU---UGa-----CAGG-GGCAGgGGUugCa -5'
1538 3' -55.9 NC_001347.2 + 29286 0.66 0.96615
Target:  5'- gUCGCAAaacgcuACUGgCUCCGggacuaucguguUCCCCAACGc -3'
miRNA:   3'- -GGCGUU------UGACaGGGGC------------AGGGGUUGCa -5'
1538 3' -55.9 NC_001347.2 + 100909 0.66 0.962979
Target:  5'- gUCGCGcuGCUuUCCCCGagCUCCGACGc -3'
miRNA:   3'- -GGCGUu-UGAcAGGGGCa-GGGGUUGCa -5'
1538 3' -55.9 NC_001347.2 + 118201 0.66 0.962979
Target:  5'- gCCGCGcAUUGUCaCCgccgCGUCCuCCAGCa- -3'
miRNA:   3'- -GGCGUuUGACAG-GG----GCAGG-GGUUGca -5'
1538 3' -55.9 NC_001347.2 + 203560 0.66 0.962979
Target:  5'- aCCGCGuc----CCCCGUCCCCAccccAUGa -3'
miRNA:   3'- -GGCGUuugacaGGGGCAGGGGU----UGCa -5'
1538 3' -55.9 NC_001347.2 + 62597 0.66 0.959606
Target:  5'- aCGCAucuGCaaGUCCCUGgCCCCGGCc- -3'
miRNA:   3'- gGCGUu--UGa-CAGGGGCaGGGGUUGca -5'
1538 3' -55.9 NC_001347.2 + 156485 0.66 0.959258
Target:  5'- aCCGUAAGCaGUCacagcggcagcggUCCGUCCCUGugGc -3'
miRNA:   3'- -GGCGUUUGaCAG-------------GGGCAGGGGUugCa -5'
1538 3' -55.9 NC_001347.2 + 175290 0.67 0.952241
Target:  5'- aCCGCGGACgccGUCgguaCCGUCUCCAccACa- -3'
miRNA:   3'- -GGCGUUUGa--CAGg---GGCAGGGGU--UGca -5'
1538 3' -55.9 NC_001347.2 + 27153 0.67 0.952241
Target:  5'- gCCGUuuuGCUGUCCUCGUCCgggUCuACGc -3'
miRNA:   3'- -GGCGuu-UGACAGGGGCAGG---GGuUGCa -5'
1538 3' -55.9 NC_001347.2 + 199900 0.67 0.950667
Target:  5'- cCCGCGugcucgugaaaacGCUGUCCuCCGccuccucaUCCgCCGGCGUg -3'
miRNA:   3'- -GGCGUu------------UGACAGG-GGC--------AGG-GGUUGCA- -5'
1538 3' -55.9 NC_001347.2 + 226208 0.67 0.948241
Target:  5'- uCCGCAAgGgUGUUCCUGcCCCCucGACGc -3'
miRNA:   3'- -GGCGUU-UgACAGGGGCaGGGG--UUGCa -5'
1538 3' -55.9 NC_001347.2 + 182918 0.67 0.944025
Target:  5'- cCUGCu--CUucGUCCUCGUCCCCGAa-- -3'
miRNA:   3'- -GGCGuuuGA--CAGGGGCAGGGGUUgca -5'
1538 3' -55.9 NC_001347.2 + 157371 0.67 0.934936
Target:  5'- aUCGCGAGCUGggcgaCCGUCUcuaCCAACGc -3'
miRNA:   3'- -GGCGUUUGACagg--GGCAGG---GGUUGCa -5'
1538 3' -55.9 NC_001347.2 + 97658 0.67 0.934936
Target:  5'- gUCGUAcAGCUcGUCCCUGcugucgucgucUCCCCGGCGc -3'
miRNA:   3'- -GGCGU-UUGA-CAGGGGC-----------AGGGGUUGCa -5'
1538 3' -55.9 NC_001347.2 + 183900 0.68 0.919643
Target:  5'- -aGCAGGCgccgGUgCUCGUCCCCAAa-- -3'
miRNA:   3'- ggCGUUUGa---CAgGGGCAGGGGUUgca -5'
1538 3' -55.9 NC_001347.2 + 158550 0.68 0.914102
Target:  5'- aCGCGacguGACgGUCCCgCGUCUCCuGCGc -3'
miRNA:   3'- gGCGU----UUGaCAGGG-GCAGGGGuUGCa -5'
1538 3' -55.9 NC_001347.2 + 118860 0.68 0.908341
Target:  5'- uCCGCAGAgcGuUCCCCGUCgaaUCAGCGUc -3'
miRNA:   3'- -GGCGUUUgaC-AGGGGCAGg--GGUUGCA- -5'
1538 3' -55.9 NC_001347.2 + 229221 0.68 0.908341
Target:  5'- -nGCAAcccCcGUCCCCGgCCCCAACa- -3'
miRNA:   3'- ggCGUUu--GaCAGGGGCaGGGGUUGca -5'
1538 3' -55.9 NC_001347.2 + 135551 0.69 0.896166
Target:  5'- gCCGuCGAGCcggggcGUCgCCCGUCCCCAccacCGUc -3'
miRNA:   3'- -GGC-GUUUGa-----CAG-GGGCAGGGGUu---GCA- -5'
1538 3' -55.9 NC_001347.2 + 105489 0.69 0.889756
Target:  5'- aCGCAcgGACUGcUCUacaCCGUCCUCAACa- -3'
miRNA:   3'- gGCGU--UUGAC-AGG---GGCAGGGGUUGca -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.