miRNA display CGI


Results 1 - 20 of 22 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
31736 3' -57.8 NC_006938.1 + 1417 0.66 0.611043
Target:  5'- aUGCggCCAGugaacucCCUGCCgggaugagugCGCUCGCGu -3'
miRNA:   3'- -ACGa-GGUCuuc----GGACGGa---------GCGAGUGC- -5'
31736 3' -57.8 NC_006938.1 + 22271 0.66 0.600233
Target:  5'- gGCUUCGccugccAGGCCgucGCCgggagCGCUCACGa -3'
miRNA:   3'- aCGAGGUc-----UUCGGa--CGGa----GCGAGUGC- -5'
31736 3' -57.8 NC_006938.1 + 26602 0.66 0.600233
Target:  5'- cGCUCC-GAacAGcCCUGauCCUCGCUCuCGc -3'
miRNA:   3'- aCGAGGuCU--UC-GGAC--GGAGCGAGuGC- -5'
31736 3' -57.8 NC_006938.1 + 18032 0.66 0.600233
Target:  5'- cUGCU-CGGGAGCUggagGCUUCGCcuUCGCu -3'
miRNA:   3'- -ACGAgGUCUUCGGa---CGGAGCG--AGUGc -5'
31736 3' -57.8 NC_006938.1 + 30023 0.66 0.589451
Target:  5'- aGCUCau-GAGCCagGCCUCGC-CAUa -3'
miRNA:   3'- aCGAGgucUUCGGa-CGGAGCGaGUGc -5'
31736 3' -57.8 NC_006938.1 + 41850 0.66 0.589451
Target:  5'- gGCUCUgucGGGCUggaguUGCCgUCGCUCACa -3'
miRNA:   3'- aCGAGGuc-UUCGG-----ACGG-AGCGAGUGc -5'
31736 3' -57.8 NC_006938.1 + 42889 0.66 0.567998
Target:  5'- gGC-CCAGGacaGGCCuUGCCUCcaUCGCGa -3'
miRNA:   3'- aCGaGGUCU---UCGG-ACGGAGcgAGUGC- -5'
31736 3' -57.8 NC_006938.1 + 56451 0.66 0.567998
Target:  5'- aGCUCguGGAGCUUGaCCUCuccgGCUCcCa -3'
miRNA:   3'- aCGAGguCUUCGGAC-GGAG----CGAGuGc -5'
31736 3' -57.8 NC_006938.1 + 12647 0.67 0.532022
Target:  5'- cGgUCCAGGcccucGGCC-GCCUCGCggaaggcguugagCACGa -3'
miRNA:   3'- aCgAGGUCU-----UCGGaCGGAGCGa------------GUGC- -5'
31736 3' -57.8 NC_006938.1 + 36830 0.67 0.505075
Target:  5'- cUGCUgCAGAAGCUgcagGCaaUCGC-CACGg -3'
miRNA:   3'- -ACGAgGUCUUCGGa---CGg-AGCGaGUGC- -5'
31736 3' -57.8 NC_006938.1 + 47275 0.67 0.505075
Target:  5'- cGCgggCCAGggGCUgucGCCgacccagCGCUC-CGg -3'
miRNA:   3'- aCGa--GGUCuuCGGa--CGGa------GCGAGuGC- -5'
31736 3' -57.8 NC_006938.1 + 6170 0.68 0.484753
Target:  5'- cUGCUCCGGAA---UGaCCUCGCUCuCGu -3'
miRNA:   3'- -ACGAGGUCUUcggAC-GGAGCGAGuGC- -5'
31736 3' -57.8 NC_006938.1 + 55440 0.68 0.464829
Target:  5'- aGC-CCAGggGCagaccuCUGuCCUCGCggaCGCGg -3'
miRNA:   3'- aCGaGGUCuuCG------GAC-GGAGCGa--GUGC- -5'
31736 3' -57.8 NC_006938.1 + 57715 0.68 0.445341
Target:  5'- uUGaUCCAGGAcuucGCCUGCCgcUCGUugUCACGa -3'
miRNA:   3'- -ACgAGGUCUU----CGGACGG--AGCG--AGUGC- -5'
31736 3' -57.8 NC_006938.1 + 41148 0.69 0.43577
Target:  5'- cGCgcaugaCCAG-GGCC-GUCUCGCUCugGg -3'
miRNA:   3'- aCGa-----GGUCuUCGGaCGGAGCGAGugC- -5'
31736 3' -57.8 NC_006938.1 + 26995 0.69 0.387109
Target:  5'- -cCUCCGGAucgaGGCCUGCCgCGCggaacgccgacgucUCGCGa -3'
miRNA:   3'- acGAGGUCU----UCGGACGGaGCG--------------AGUGC- -5'
31736 3' -57.8 NC_006938.1 + 29520 0.71 0.330941
Target:  5'- gGC-CCGGAGGCCUggacccGCUggUCGCUCugGc -3'
miRNA:   3'- aCGaGGUCUUCGGA------CGG--AGCGAGugC- -5'
31736 3' -57.8 NC_006938.1 + 45876 0.71 0.307807
Target:  5'- cGUUUCGGAcGGcCCUGuCCUCGCUgACGg -3'
miRNA:   3'- aCGAGGUCU-UC-GGAC-GGAGCGAgUGC- -5'
31736 3' -57.8 NC_006938.1 + 25941 0.72 0.28593
Target:  5'- cGCUCCuuguGAGGgCUGCCaccugUCGCUCcaGCGg -3'
miRNA:   3'- aCGAGGu---CUUCgGACGG-----AGCGAG--UGC- -5'
31736 3' -57.8 NC_006938.1 + 38185 0.73 0.227671
Target:  5'- gGCUCC-GAAGCCaGggUCGCUCACGa -3'
miRNA:   3'- aCGAGGuCUUCGGaCggAGCGAGUGC- -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.