miRNA display CGI


Results 1 - 20 of 59 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
11409 3' -54.4 NC_003085.1 + 494 0.7 0.473413
Target:  5'- gCGAGGCugaggGCCuGCGuuUGGAGCCGGUGUc- -3'
miRNA:   3'- -GCUUUG-----UGG-UGU--ACCUCGGCCACGcg -5'
11409 3' -54.4 NC_003085.1 + 706 0.68 0.646697
Target:  5'- aCGggGCAacuCCGCGUGGcGCCuGacGCGCc -3'
miRNA:   3'- -GCuuUGU---GGUGUACCuCGGcCa-CGCG- -5'
11409 3' -54.4 NC_003085.1 + 1494 0.66 0.755319
Target:  5'- cCGu--CGCCAgccucGGCCGGUGCGCc -3'
miRNA:   3'- -GCuuuGUGGUguaccUCGGCCACGCG- -5'
11409 3' -54.4 NC_003085.1 + 2020 0.66 0.734245
Target:  5'- uCGAcGCGCaggACAUGGAGCaguuuGGcccGCGCg -3'
miRNA:   3'- -GCUuUGUGg--UGUACCUCGg----CCa--CGCG- -5'
11409 3' -54.4 NC_003085.1 + 2208 0.76 0.240446
Target:  5'- aCGAGACACagaaGCcaguggcgcucGUGGAaccGCUGGUGCGCa -3'
miRNA:   3'- -GCUUUGUGg---UG-----------UACCU---CGGCCACGCG- -5'
11409 3' -54.4 NC_003085.1 + 2398 0.66 0.712752
Target:  5'- cCGAcaugGACACCGCc--GAGCUGGUggugacgaagacGCGCu -3'
miRNA:   3'- -GCU----UUGUGGUGuacCUCGGCCA------------CGCG- -5'
11409 3' -54.4 NC_003085.1 + 2488 0.7 0.494053
Target:  5'- gCGAAACGCUcaagGCGUGGcugacGGaCGGUGUGCc -3'
miRNA:   3'- -GCUUUGUGG----UGUACC-----UCgGCCACGCG- -5'
11409 3' -54.4 NC_003085.1 + 3649 0.66 0.711669
Target:  5'- aGGGACGCUGCAcugguggcgagguUGGAGgCaGGgacgGCGCg -3'
miRNA:   3'- gCUUUGUGGUGU-------------ACCUCgG-CCa---CGCG- -5'
11409 3' -54.4 NC_003085.1 + 3693 0.68 0.645586
Target:  5'- gCGAguccuGACGCCGCGUccGGuGCUGGUGgugacgaCGCa -3'
miRNA:   3'- -GCU-----UUGUGGUGUA--CCuCGGCCAC-------GCG- -5'
11409 3' -54.4 NC_003085.1 + 4090 0.72 0.386473
Target:  5'- uGGAGCGcCCGCAcucgccgcUGGAGuuGG-GCGCc -3'
miRNA:   3'- gCUUUGU-GGUGU--------ACCUCggCCaCGCG- -5'
11409 3' -54.4 NC_003085.1 + 5460 0.67 0.679934
Target:  5'- cCGGAugcaGCACCACGUGcugcccucguuGGGCgacaaggaacuCGGUGUGCu -3'
miRNA:   3'- -GCUU----UGUGGUGUAC-----------CUCG-----------GCCACGCG- -5'
11409 3' -54.4 NC_003085.1 + 5486 0.75 0.260026
Target:  5'- gCGGAcaACGCgGCGUGGGGCCGG-GcCGUg -3'
miRNA:   3'- -GCUU--UGUGgUGUACCUCGGCCaC-GCG- -5'
11409 3' -54.4 NC_003085.1 + 5799 0.67 0.701879
Target:  5'- --cGugGCCuuCGUcGGAG-CGGUGCGCa -3'
miRNA:   3'- gcuUugUGGu-GUA-CCUCgGCCACGCG- -5'
11409 3' -54.4 NC_003085.1 + 5958 0.66 0.74484
Target:  5'- cCGuccACGCCGgGcugcUGGAGgCGGUGgGCc -3'
miRNA:   3'- -GCuu-UGUGGUgU----ACCUCgGCCACgCG- -5'
11409 3' -54.4 NC_003085.1 + 7603 0.69 0.580123
Target:  5'- uCGgcGCACCGCgagGUGGAccagcGCCGG-GCGg -3'
miRNA:   3'- -GCuuUGUGGUG---UACCU-----CGGCCaCGCg -5'
11409 3' -54.4 NC_003085.1 + 8660 0.66 0.755319
Target:  5'- cCGGGACG-CGCGUGGccuugggcGCCGGgGUGCc -3'
miRNA:   3'- -GCUUUGUgGUGUACCu-------CGGCCaCGCG- -5'
11409 3' -54.4 NC_003085.1 + 9719 0.68 0.587846
Target:  5'- cCGGAACGCCuguguguccucggcGuCAUGGAGuCCaGG-GCGCg -3'
miRNA:   3'- -GCUUUGUGG--------------U-GUACCUC-GG-CCaCGCG- -5'
11409 3' -54.4 NC_003085.1 + 9833 0.68 0.591162
Target:  5'- gCGAAguuGCGCCACuccUGcGGCCaccugcucGGUGCGCu -3'
miRNA:   3'- -GCUU---UGUGGUGu--ACcUCGG--------CCACGCG- -5'
11409 3' -54.4 NC_003085.1 + 10179 0.69 0.53649
Target:  5'- gCGAGACACCGCAgcgccguaGAGgaGGcGCGCa -3'
miRNA:   3'- -GCUUUGUGGUGUac------CUCggCCaCGCG- -5'
11409 3' -54.4 NC_003085.1 + 11407 0.66 0.755319
Target:  5'- gCGAcGCACCACcacauGUCGG-GCGCa -3'
miRNA:   3'- -GCUuUGUGGUGuaccuCGGCCaCGCG- -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.