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
11988 5' -50.3 NC_003278.1 + 33471 0.66 0.871562
Target:  5'- cCGGUcgGUAGAGAGcuaCCAGAAacaGGCa -3'
miRNA:   3'- -GCCAa-CGUCUUUUuc-GGUCUUg--CCGc -5'
11988 5' -50.3 NC_003278.1 + 31553 0.66 0.871562
Target:  5'- uGGcgGcCAGGAAAAcGCagggAGGGCGGCGg -3'
miRNA:   3'- gCCaaC-GUCUUUUU-CGg---UCUUGCCGC- -5'
11988 5' -50.3 NC_003278.1 + 31273 0.66 0.871562
Target:  5'- gCGGcgcUGaAGAAGAGGCaccagGGAGCGGCa -3'
miRNA:   3'- -GCCa--ACgUCUUUUUCGg----UCUUGCCGc -5'
11988 5' -50.3 NC_003278.1 + 33509 0.66 0.862968
Target:  5'- cCGGUcacCAcuacGAAguacAAGGCCAGGACGGCc -3'
miRNA:   3'- -GCCAac-GU----CUU----UUUCGGUCUUGCCGc -5'
11988 5' -50.3 NC_003278.1 + 17197 0.66 0.862968
Target:  5'- uGGUggUGCGGguGAAGCCGGGcgaggaugaaGCcGCGa -3'
miRNA:   3'- gCCA--ACGUCuuUUUCGGUCU----------UGcCGC- -5'
11988 5' -50.3 NC_003278.1 + 33873 0.66 0.862968
Target:  5'- uGGUUGCGuuuGAuaucGAGCCAGAggucgauguaAUGGCc -3'
miRNA:   3'- gCCAACGU---CUuu--UUCGGUCU----------UGCCGc -5'
11988 5' -50.3 NC_003278.1 + 20319 0.66 0.844961
Target:  5'- aGcGUUGCcGAGcAGGGCCGuGGCGGUGg -3'
miRNA:   3'- gC-CAACGuCUU-UUUCGGUcUUGCCGC- -5'
11988 5' -50.3 NC_003278.1 + 2486 0.66 0.844961
Target:  5'- cCGGUauucGCGGggGucuGCCccucGAGCGGCu -3'
miRNA:   3'- -GCCAa---CGUCuuUuu-CGGu---CUUGCCGc -5'
11988 5' -50.3 NC_003278.1 + 27296 0.67 0.816054
Target:  5'- uGGUUGCGGcc---GCgAGGucGCGGCGu -3'
miRNA:   3'- gCCAACGUCuuuuuCGgUCU--UGCCGC- -5'
11988 5' -50.3 NC_003278.1 + 32619 0.67 0.816054
Target:  5'- uGGUauUGCAGGGcguuuGCCGGcGCGcGCGg -3'
miRNA:   3'- gCCA--ACGUCUUuuu--CGGUCuUGC-CGC- -5'
11988 5' -50.3 NC_003278.1 + 31198 0.67 0.791475
Target:  5'- uGGgcgccagGCGGGuguuuguccgcuGGGCCAGGGCGGCc -3'
miRNA:   3'- gCCaa-----CGUCUuu----------UUCGGUCUUGCCGc -5'
11988 5' -50.3 NC_003278.1 + 18766 0.67 0.785152
Target:  5'- aGGggG-AGAGAAaccgccGGCCGGGcCGGCGg -3'
miRNA:   3'- gCCaaCgUCUUUU------UCGGUCUuGCCGC- -5'
11988 5' -50.3 NC_003278.1 + 30826 0.68 0.763615
Target:  5'- ----cGCGacAGcGGCCAGAGCGGCGu -3'
miRNA:   3'- gccaaCGUcuUUuUCGGUCUUGCCGC- -5'
11988 5' -50.3 NC_003278.1 + 9044 0.68 0.762521
Target:  5'- gGGUUcaccagcGCGGGGAAcugugcGGCCAGuugguCGGCGg -3'
miRNA:   3'- gCCAA-------CGUCUUUU------UCGGUCuu---GCCGC- -5'
11988 5' -50.3 NC_003278.1 + 5738 0.68 0.752608
Target:  5'- gCGGUUGguGGu--AGCC---GCGGCGc -3'
miRNA:   3'- -GCCAACguCUuuuUCGGucuUGCCGC- -5'
11988 5' -50.3 NC_003278.1 + 26698 0.68 0.730183
Target:  5'- uGGUUGUcGAAcuucuucaggucGAGGCCcaggcGGGCGGCGg -3'
miRNA:   3'- gCCAACGuCUU------------UUUCGGu----CUUGCCGC- -5'
11988 5' -50.3 NC_003278.1 + 33213 0.69 0.707308
Target:  5'- cCGGcUGCGGccGAGGCCAucgccggcguGAugGGCa -3'
miRNA:   3'- -GCCaACGUCuuUUUCGGU----------CUugCCGc -5'
11988 5' -50.3 NC_003278.1 + 32510 0.69 0.707308
Target:  5'- cCGGUcGCAGc---AGCCccacGAACGGCGc -3'
miRNA:   3'- -GCCAaCGUCuuuuUCGGu---CUUGCCGC- -5'
11988 5' -50.3 NC_003278.1 + 6369 0.69 0.707308
Target:  5'- uGGUgcgggGCAGu---GGCCGccgccucuuGAGCGGCGg -3'
miRNA:   3'- gCCAa----CGUCuuuuUCGGU---------CUUGCCGC- -5'
11988 5' -50.3 NC_003278.1 + 27652 0.69 0.672395
Target:  5'- aGGUgcgcggGCAGAuagcGGGCCGGGaucgggaaGCGGCa -3'
miRNA:   3'- gCCAa-----CGUCUuu--UUCGGUCU--------UGCCGc -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.