miRNA display CGI


Results 1 - 20 of 45 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
11135 3' -56.4 NC_002794.1 + 114582 0.66 0.947878
Target:  5'- gCGGAgGGuGCUcgucgcucugGACGagCUCUUCCAGg -3'
miRNA:   3'- aGCUUgCC-CGG----------CUGCagGAGAAGGUC- -5'
11135 3' -56.4 NC_002794.1 + 23726 0.66 0.947878
Target:  5'- gCGcGGCGGGcCCGACGUaC-CUUCCGa -3'
miRNA:   3'- aGC-UUGCCC-GGCUGCAgGaGAAGGUc -5'
11135 3' -56.4 NC_002794.1 + 121491 0.66 0.946621
Target:  5'- uUCGGACGcGGCCuccgccggggcgacGACGUCCgaa-CCGGc -3'
miRNA:   3'- -AGCUUGC-CCGG--------------CUGCAGGagaaGGUC- -5'
11135 3' -56.4 NC_002794.1 + 135972 0.66 0.943612
Target:  5'- cUCGAGCccGGcGCCGGgcUCCUCUucgcugUCCGGg -3'
miRNA:   3'- -AGCUUG--CC-CGGCUgcAGGAGA------AGGUC- -5'
11135 3' -56.4 NC_002794.1 + 22952 0.66 0.939125
Target:  5'- cCG-ACGGGCCGGCG-CCguugUCCc- -3'
miRNA:   3'- aGCuUGCCCGGCUGCaGGaga-AGGuc -5'
11135 3' -56.4 NC_002794.1 + 92334 0.66 0.939125
Target:  5'- cCGGGCGGGCggcuCGGCGUCaacgUCgaCCGGc -3'
miRNA:   3'- aGCUUGCCCG----GCUGCAGg---AGaaGGUC- -5'
11135 3' -56.4 NC_002794.1 + 183436 0.66 0.939125
Target:  5'- -gGAGCGGGaCCGGCGcCCgccaccgCCGGc -3'
miRNA:   3'- agCUUGCCC-GGCUGCaGGagaa---GGUC- -5'
11135 3' -56.4 NC_002794.1 + 152925 0.66 0.934415
Target:  5'- aUCGAGgccCGGGCguacauCGACcUCCUCU-CCGGa -3'
miRNA:   3'- -AGCUU---GCCCG------GCUGcAGGAGAaGGUC- -5'
11135 3' -56.4 NC_002794.1 + 193367 0.66 0.92948
Target:  5'- cCGGugccACGGGCCG-CGcUCCUCgccgucgUCCGc -3'
miRNA:   3'- aGCU----UGCCCGGCuGC-AGGAGa------AGGUc -5'
11135 3' -56.4 NC_002794.1 + 186882 0.66 0.92948
Target:  5'- cUCGGcucGCGGuCCGGCGUCCgcaggaCCAGg -3'
miRNA:   3'- -AGCU---UGCCcGGCUGCAGGagaa--GGUC- -5'
11135 3' -56.4 NC_002794.1 + 40542 0.66 0.92948
Target:  5'- aCGAGgGGGCCGGCGgcaugagCUUCUcguucgcgccgUCCuGg -3'
miRNA:   3'- aGCUUgCCCGGCUGCa------GGAGA-----------AGGuC- -5'
11135 3' -56.4 NC_002794.1 + 78073 0.67 0.924321
Target:  5'- cCGAACGccGGCCGcCGcCCUCgccUCCGu -3'
miRNA:   3'- aGCUUGC--CCGGCuGCaGGAGa--AGGUc -5'
11135 3' -56.4 NC_002794.1 + 156209 0.67 0.924321
Target:  5'- gUCGGA-GGGCCGGCGacUCCg---CCGGc -3'
miRNA:   3'- -AGCUUgCCCGGCUGC--AGGagaaGGUC- -5'
11135 3' -56.4 NC_002794.1 + 119985 0.67 0.924321
Target:  5'- aCGAGCGGaGCCGcaGC-UCUUCgaCCAGg -3'
miRNA:   3'- aGCUUGCC-CGGC--UGcAGGAGaaGGUC- -5'
11135 3' -56.4 NC_002794.1 + 35764 0.67 0.923792
Target:  5'- aCGAcgucGCGGcaccgucGCCGGCGUCgUCU-CCGGc -3'
miRNA:   3'- aGCU----UGCC-------CGGCUGCAGgAGAaGGUC- -5'
11135 3' -56.4 NC_002794.1 + 128274 0.67 0.918936
Target:  5'- cCGAgcGCGGaGCCGACGgCCgUCUUCg-- -3'
miRNA:   3'- aGCU--UGCC-CGGCUGCaGG-AGAAGguc -5'
11135 3' -56.4 NC_002794.1 + 110201 0.67 0.918936
Target:  5'- uUCGAACaagGGGUCgcucagGACGUCCg--UCCGGa -3'
miRNA:   3'- -AGCUUG---CCCGG------CUGCAGGagaAGGUC- -5'
11135 3' -56.4 NC_002794.1 + 60522 0.67 0.918936
Target:  5'- aCGGAgGGGCUGGuggagaagcCGUgCCagcUCUUCCAGg -3'
miRNA:   3'- aGCUUgCCCGGCU---------GCA-GG---AGAAGGUC- -5'
11135 3' -56.4 NC_002794.1 + 143027 0.67 0.913327
Target:  5'- gUCGGcCGGGUCGACGUgCagggCcgCCAGg -3'
miRNA:   3'- -AGCUuGCCCGGCUGCAgGa---GaaGGUC- -5'
11135 3' -56.4 NC_002794.1 + 130521 0.68 0.88868
Target:  5'- cUCGAGCGGGCUGACcGUgaCgaUUUCCGa -3'
miRNA:   3'- -AGCUUGCCCGGCUG-CA--GgaGAAGGUc -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.