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 + 4439 0.66 0.848836
Target:  5'- uGCGUGCGCugaGUCGGGAuuCCCGcagggguaucACCa -3'
miRNA:   3'- -UGCGCGCGuuaCGGCUUUu-GGGC----------UGG- -5'
20804 3' -54.1 NC_004689.1 + 57646 0.66 0.840298
Target:  5'- uAUGC-CGgGAaucUGuuGAAAACCCGGCa -3'
miRNA:   3'- -UGCGcGCgUU---ACggCUUUUGGGCUGg -5'
20804 3' -54.1 NC_004689.1 + 42192 0.66 0.840298
Target:  5'- uGCGuCGUGCAgcAUGUCuuGGACCgGAUCg -3'
miRNA:   3'- -UGC-GCGCGU--UACGGcuUUUGGgCUGG- -5'
20804 3' -54.1 NC_004689.1 + 43482 0.66 0.831547
Target:  5'- cACGCGUggcccaguGUGAUGCCcuccaacGGACCCuGACCg -3'
miRNA:   3'- -UGCGCG--------CGUUACGGcu-----UUUGGG-CUGG- -5'
20804 3' -54.1 NC_004689.1 + 26989 0.66 0.831547
Target:  5'- cGCGCuguugcuuGCGCAucAUGCCGGAgauauAGCCCacGGCg -3'
miRNA:   3'- -UGCG--------CGCGU--UACGGCUU-----UUGGG--CUGg -5'
20804 3' -54.1 NC_004689.1 + 22115 0.66 0.831547
Target:  5'- -aGCG-GCGAagucauUGCCGAcuGCCaGACCg -3'
miRNA:   3'- ugCGCgCGUU------ACGGCUuuUGGgCUGG- -5'
20804 3' -54.1 NC_004689.1 + 19152 0.66 0.831547
Target:  5'- gAC-CGgGCAGUGCgaGGAACCCG-CCa -3'
miRNA:   3'- -UGcGCgCGUUACGgcUUUUGGGCuGG- -5'
20804 3' -54.1 NC_004689.1 + 5116 0.66 0.831547
Target:  5'- -aGCGUcCAAUGCgUGAGuucagaacuGAUCCGACCa -3'
miRNA:   3'- ugCGCGcGUUACG-GCUU---------UUGGGCUGG- -5'
20804 3' -54.1 NC_004689.1 + 1848 0.66 0.831547
Target:  5'- gGCGCGCugaucCGAUGCUGc-GGCCuCGGCUg -3'
miRNA:   3'- -UGCGCGc----GUUACGGCuuUUGG-GCUGG- -5'
20804 3' -54.1 NC_004689.1 + 7198 0.67 0.813442
Target:  5'- uGCGCcuuaCGCAAUGCUGcgcggcGCuuGGCCg -3'
miRNA:   3'- -UGCGc---GCGUUACGGCuuu---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'
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 + 32866 0.68 0.755012
Target:  5'- cACGCuccaaGCGCcGU-CCGAuuucaacggcAGGCCCGACCc -3'
miRNA:   3'- -UGCG-----CGCGuUAcGGCU----------UUUGGGCUGG- -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 + 13813 0.68 0.755012
Target:  5'- uCGuCGgGCAcUGCCGGAGGCUgCGugCg -3'
miRNA:   3'- uGC-GCgCGUuACGGCUUUUGG-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 + 61389 0.68 0.734444
Target:  5'- uCGCGUGCAGccauUGUCGA--ACCaCGACa -3'
miRNA:   3'- uGCGCGCGUU----ACGGCUuuUGG-GCUGg -5'
20804 3' -54.1 NC_004689.1 + 62185 0.69 0.692196
Target:  5'- aGCGCGCGaAGUGCCuccGAAuACgaGGCCa -3'
miRNA:   3'- -UGCGCGCgUUACGG---CUUuUGggCUGG- -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.