miRNA display CGI


Results 1 - 20 of 30 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
20804 3' -54.1 NC_004689.1 + 37459 1.11 0.001494
Target:  5'- uACGCGCGCAAUGCCGAAAACCCGACCc -3'
miRNA:   3'- -UGCGCGCGUUACGGCUUUUGGGCUGG- -5'
20804 3' -54.1 NC_004689.1 + 25976 0.76 0.326587
Target:  5'- cCGUGCGCucaucaucuUGCCGggGAgCCaCGACCg -3'
miRNA:   3'- uGCGCGCGuu-------ACGGCuuUU-GG-GCUGG- -5'
20804 3' -54.1 NC_004689.1 + 13003 0.73 0.479522
Target:  5'- cCGCGCugGCgAAUGCCcgugccGCCCGACCa -3'
miRNA:   3'- uGCGCG--CG-UUACGGcuuu--UGGGCUGG- -5'
20804 3' -54.1 NC_004689.1 + 31640 0.71 0.540312
Target:  5'- gGCGUGCcagGCAAUGCCGAcaccacagacgguGAACa-GACCg -3'
miRNA:   3'- -UGCGCG---CGUUACGGCU-------------UUUGggCUGG- -5'
20804 3' -54.1 NC_004689.1 + 35016 0.7 0.616485
Target:  5'- uCGCGCGCcAUGCCacc-GCCUuGGCCg -3'
miRNA:   3'- uGCGCGCGuUACGGcuuuUGGG-CUGG- -5'
20804 3' -54.1 NC_004689.1 + 12892 0.7 0.627337
Target:  5'- gUGCGCGCAG-GCCGAccggguugcGAAggucgaaCCGGCCa -3'
miRNA:   3'- uGCGCGCGUUaCGGCU---------UUUg------GGCUGG- -5'
20804 3' -54.1 NC_004689.1 + 8180 0.7 0.636022
Target:  5'- uGCGCGgggaguuCGCAGagguUGCCGGGAcgacgacACCCGGCg -3'
miRNA:   3'- -UGCGC-------GCGUU----ACGGCUUU-------UGGGCUGg -5'
20804 3' -54.1 NC_004689.1 + 39353 0.69 0.656632
Target:  5'- aACGCGCGCAacucgcgcagcAUGUCGucggggucgcucauGAAuccucCCCGGCCu -3'
miRNA:   3'- -UGCGCGCGU-----------UACGGC--------------UUUu----GGGCUGG- -5'
20804 3' -54.1 NC_004689.1 + 13438 0.69 0.656632
Target:  5'- aACGCGCGacCAGUGUCGuaguccagcgugguACCCGGCa -3'
miRNA:   3'- -UGCGCGC--GUUACGGCuuu-----------UGGGCUGg -5'
20804 3' -54.1 NC_004689.1 + 41956 0.69 0.656632
Target:  5'- -gGCGCGgGAcuugGCCGGugccuucguggucgGAGCaCCGACCg -3'
miRNA:   3'- ugCGCGCgUUa---CGGCU--------------UUUG-GGCUGG- -5'
20804 3' -54.1 NC_004689.1 + 62185 0.69 0.692196
Target:  5'- aGCGCGCGaAGUGCCuccGAAuACgaGGCCa -3'
miRNA:   3'- -UGCGCGCgUUACGG---CUUuUGggCUGG- -5'
20804 3' -54.1 NC_004689.1 + 61389 0.68 0.734444
Target:  5'- uCGCGUGCAGccauUGUCGA--ACCaCGACa -3'
miRNA:   3'- uGCGCGCGUU----ACGGCUuuUGG-GCUGg -5'
20804 3' -54.1 NC_004689.1 + 11113 0.68 0.744784
Target:  5'- -aGC-CGgAGgcuUGCCGGAGGgCCGACCg -3'
miRNA:   3'- ugCGcGCgUU---ACGGCUUUUgGGCUGG- -5'
20804 3' -54.1 NC_004689.1 + 21673 0.68 0.744784
Target:  5'- cCGUGgcagGCGGUGCCGGAggUCC-ACCg -3'
miRNA:   3'- uGCGCg---CGUUACGGCUUuuGGGcUGG- -5'
20804 3' -54.1 NC_004689.1 + 12515 0.68 0.744784
Target:  5'- ---aGCGCGGUGUU----GCCCGACCg -3'
miRNA:   3'- ugcgCGCGUUACGGcuuuUGGGCUGG- -5'
20804 3' -54.1 NC_004689.1 + 21554 0.68 0.755012
Target:  5'- gUGCGCGUggUgaaGUCGuccAGAACCgGGCCg -3'
miRNA:   3'- uGCGCGCGuuA---CGGC---UUUUGGgCUGG- -5'
20804 3' -54.1 NC_004689.1 + 32866 0.68 0.755012
Target:  5'- cACGCuccaaGCGCcGU-CCGAuuucaacggcAGGCCCGACCc -3'
miRNA:   3'- -UGCG-----CGCGuUAcGGCU----------UUUGGGCUGG- -5'
20804 3' -54.1 NC_004689.1 + 13813 0.68 0.755012
Target:  5'- uCGuCGgGCAcUGCCGGAGGCUgCGugCg -3'
miRNA:   3'- uGC-GCgCGUuACGGCUUUUGG-GCugG- -5'
20804 3' -54.1 NC_004689.1 + 11360 0.67 0.784922
Target:  5'- -aGCGCGgAAauUGCCGAcauACCCGuCg -3'
miRNA:   3'- ugCGCGCgUU--ACGGCUuu-UGGGCuGg -5'
20804 3' -54.1 NC_004689.1 + 38355 0.67 0.803164
Target:  5'- aGCGCaucauccGCGCugauuAUGcCCGAuucacGGACCuCGACCg -3'
miRNA:   3'- -UGCG-------CGCGu----UAC-GGCU-----UUUGG-GCUGG- -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.