miRNA display CGI


Results 1 - 20 of 20 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
19754 3' -57 NC_004687.1 + 113403 0.66 0.901781
Target:  5'- cUGGGUGCGgcccCGCacGGucuccGAUGCGAUGa -3'
miRNA:   3'- aGCCCACGCa---GCGc-CCu----UUGCGCUAC- -5'
19754 3' -57 NC_004687.1 + 136152 0.66 0.895444
Target:  5'- gUGGGUGgcCGggGCGGuGGugGCGAUGg -3'
miRNA:   3'- aGCCCAC--GCagCGCCcUUugCGCUAC- -5'
19754 3' -57 NC_004687.1 + 31471 0.66 0.895444
Target:  5'- cUCGGGcagGaCGUCGCGGaccGCGCGcUGc -3'
miRNA:   3'- -AGCCCa--C-GCAGCGCCcuuUGCGCuAC- -5'
19754 3' -57 NC_004687.1 + 95578 0.66 0.891535
Target:  5'- gCGGGuUGCGUCGUuGGGGuuCGaaggagcaccgacuuCGAUGa -3'
miRNA:   3'- aGCCC-ACGCAGCG-CCCUuuGC---------------GCUAC- -5'
19754 3' -57 NC_004687.1 + 95713 0.66 0.882108
Target:  5'- aUCGGGU-CGUCGaacGAGACGCGGc- -3'
miRNA:   3'- -AGCCCAcGCAGCgccCUUUGCGCUac -5'
19754 3' -57 NC_004687.1 + 8406 0.66 0.875117
Target:  5'- aCGuGGcGCG-CGCGGauGGAGCGCGAg- -3'
miRNA:   3'- aGC-CCaCGCaGCGCC--CUUUGCGCUac -5'
19754 3' -57 NC_004687.1 + 61582 0.67 0.867917
Target:  5'- gUCGuGGUGC-UCGCGGuaccAGCGCaGGUGg -3'
miRNA:   3'- -AGC-CCACGcAGCGCCcu--UUGCG-CUAC- -5'
19754 3' -57 NC_004687.1 + 57515 0.67 0.859007
Target:  5'- cUCGGGcUGCGgaauggucgcacCGuCGGGGAACGaGGUGg -3'
miRNA:   3'- -AGCCC-ACGCa-----------GC-GCCCUUUGCgCUAC- -5'
19754 3' -57 NC_004687.1 + 50931 0.67 0.852909
Target:  5'- -aGGGUGaCGUCGagaCGGGccucgaucucGAAgGCGAUGa -3'
miRNA:   3'- agCCCAC-GCAGC---GCCC----------UUUgCGCUAC- -5'
19754 3' -57 NC_004687.1 + 30874 0.68 0.812133
Target:  5'- aCGGGUGUG-CGUGGG---CGCGGa- -3'
miRNA:   3'- aGCCCACGCaGCGCCCuuuGCGCUac -5'
19754 3' -57 NC_004687.1 + 122113 0.68 0.803475
Target:  5'- cCGGG-GCGUCGCGGuccucaGCGAc- -3'
miRNA:   3'- aGCCCaCGCAGCGCCcuuug-CGCUac -5'
19754 3' -57 NC_004687.1 + 101642 0.68 0.794668
Target:  5'- --cGGUGCG-CGUGGGcggcaccAGCGCGGUGu -3'
miRNA:   3'- agcCCACGCaGCGCCCu------UUGCGCUAC- -5'
19754 3' -57 NC_004687.1 + 91546 0.68 0.78572
Target:  5'- cUGGGUGUagcgGUcCGcCGGGAAgaugcgccGCGCGAUGc -3'
miRNA:   3'- aGCCCACG----CA-GC-GCCCUU--------UGCGCUAC- -5'
19754 3' -57 NC_004687.1 + 142473 0.68 0.776638
Target:  5'- gCGGGUggggaugccGCGcUCGCGcaGGAAGCggGCGAUGg -3'
miRNA:   3'- aGCCCA---------CGC-AGCGC--CCUUUG--CGCUAC- -5'
19754 3' -57 NC_004687.1 + 29667 0.68 0.776638
Target:  5'- gUGGGUGaUGUCGCcgacGGucGCGUGAUGg -3'
miRNA:   3'- aGCCCAC-GCAGCGc---CCuuUGCGCUAC- -5'
19754 3' -57 NC_004687.1 + 141027 0.69 0.729534
Target:  5'- gCGGGcacgGUGUagguuccaGCGGGGAugGCGAa- -3'
miRNA:   3'- aGCCCa---CGCAg-------CGCCCUUugCGCUac -5'
19754 3' -57 NC_004687.1 + 81775 0.72 0.590195
Target:  5'- cCGGGUGCGgcUCgGCGGG-GAUGCuGGUGg -3'
miRNA:   3'- aGCCCACGC--AG-CGCCCuUUGCG-CUAC- -5'
19754 3' -57 NC_004687.1 + 31955 0.73 0.521367
Target:  5'- gCGGGUGUGUgGUGGGGuaccuauCGCGAc- -3'
miRNA:   3'- aGCCCACGCAgCGCCCUuu-----GCGCUac -5'
19754 3' -57 NC_004687.1 + 106920 0.76 0.354998
Target:  5'- cCGGG-GCGggCGCGGGugGCGCGAa- -3'
miRNA:   3'- aGCCCaCGCa-GCGCCCuuUGCGCUac -5'
19754 3' -57 NC_004687.1 + 129313 1.08 0.003206
Target:  5'- aUCGGGUGCGUCGCGGGAAACGCGAUGc -3'
miRNA:   3'- -AGCCCACGCAGCGCCCUUUGCGCUAC- -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.