miRNA display CGI


Results 1 - 20 of 21 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
27689 3' -58.4 NC_005882.1 + 17018 0.66 0.427543
Target:  5'- cGCUCGUcCAGGUCGCCauccugcaGGuuGUACGc -3'
miRNA:   3'- uUGGGCAaGUUCGGCGG--------CCggCAUGU- -5'
27689 3' -58.4 NC_005882.1 + 21032 0.66 0.427543
Target:  5'- -gUCCGUUaccgcuGCCGCCGGCCu---- -3'
miRNA:   3'- uuGGGCAAguu---CGGCGGCCGGcaugu -5'
27689 3' -58.4 NC_005882.1 + 27649 0.66 0.417882
Target:  5'- cGGCCUGcgUCGccauGCCGgCGGCCGcGCGc -3'
miRNA:   3'- -UUGGGCa-AGUu---CGGCgGCCGGCaUGU- -5'
27689 3' -58.4 NC_005882.1 + 12369 0.66 0.40741
Target:  5'- cGGCCaugUCGAGCgguucaaCGCCGGCCG-GCAc -3'
miRNA:   3'- -UUGGgcaAGUUCG-------GCGGCCGGCaUGU- -5'
27689 3' -58.4 NC_005882.1 + 18210 0.66 0.398965
Target:  5'- cGGCuuGUUCGAGCUGCagcaaGCgCGUGCGc -3'
miRNA:   3'- -UUGggCAAGUUCGGCGgc---CG-GCAUGU- -5'
27689 3' -58.4 NC_005882.1 + 23218 0.66 0.389715
Target:  5'- cGCUCGcgCAGG-CGCUGGCCGgGCGc -3'
miRNA:   3'- uUGGGCaaGUUCgGCGGCCGGCaUGU- -5'
27689 3' -58.4 NC_005882.1 + 24162 0.66 0.380606
Target:  5'- gAACCCGUUCAAgGCCGUU--CCGcUGCAa -3'
miRNA:   3'- -UUGGGCAAGUU-CGGCGGccGGC-AUGU- -5'
27689 3' -58.4 NC_005882.1 + 22786 0.67 0.37164
Target:  5'- gAGCCCGUcacguUUGAcGCgGCaacgGGCCGUGCAa -3'
miRNA:   3'- -UUGGGCA-----AGUU-CGgCGg---CCGGCAUGU- -5'
27689 3' -58.4 NC_005882.1 + 16968 0.67 0.37164
Target:  5'- cGACCUGgaCGAGCgGCCGcugccgguguccGCCGUugAu -3'
miRNA:   3'- -UUGGGCaaGUUCGgCGGC------------CGGCAugU- -5'
27689 3' -58.4 NC_005882.1 + 28323 0.67 0.37164
Target:  5'- cGCCUGcgC-GGCCGCCGGCggcaccuugggcUGUACGg -3'
miRNA:   3'- uUGGGCaaGuUCGGCGGCCG------------GCAUGU- -5'
27689 3' -58.4 NC_005882.1 + 32113 0.67 0.345619
Target:  5'- --aCCGaUCGuGCCGCCGGCCugggGCGc -3'
miRNA:   3'- uugGGCaAGUuCGGCGGCCGGca--UGU- -5'
27689 3' -58.4 NC_005882.1 + 31020 0.67 0.345619
Target:  5'- cGCCgGUggGAGCCGCgcugcgaGGUCGUGCGu -3'
miRNA:   3'- uUGGgCAagUUCGGCGg------CCGGCAUGU- -5'
27689 3' -58.4 NC_005882.1 + 27020 0.68 0.313
Target:  5'- cGCCCGaUCAcGGCCgcgaacuuGCCGGCCGcGCc -3'
miRNA:   3'- uUGGGCaAGU-UCGG--------CGGCCGGCaUGu -5'
27689 3' -58.4 NC_005882.1 + 7314 0.68 0.313
Target:  5'- cAGCUCGggUAccAGuuGCCGGCCGauUGCAc -3'
miRNA:   3'- -UUGGGCaaGU--UCggCGGCCGGC--AUGU- -5'
27689 3' -58.4 NC_005882.1 + 18106 0.68 0.304448
Target:  5'- cACCCGUguaucgagacaggUCAGGCUGCCacGCCGcgGCAc -3'
miRNA:   3'- uUGGGCA-------------AGUUCGGCGGc-CGGCa-UGU- -5'
27689 3' -58.4 NC_005882.1 + 135 0.68 0.297586
Target:  5'- aGGCCCGcgaGGGCCGCgucaGGCCGaagGCAa -3'
miRNA:   3'- -UUGGGCaagUUCGGCGg---CCGGCa--UGU- -5'
27689 3' -58.4 NC_005882.1 + 12352 0.68 0.290103
Target:  5'- aGACCCagccCAGGCCGCCguuauaGGCCG-ACAg -3'
miRNA:   3'- -UUGGGcaa-GUUCGGCGG------CCGGCaUGU- -5'
27689 3' -58.4 NC_005882.1 + 19095 0.69 0.248289
Target:  5'- cGGCCUG--CAGGuuGCCGGCCG-ACGc -3'
miRNA:   3'- -UUGGGCaaGUUCggCGGCCGGCaUGU- -5'
27689 3' -58.4 NC_005882.1 + 20490 0.72 0.156376
Target:  5'- cGAUCCGcaCGaagaucGGCCGCCGGCCGaACAc -3'
miRNA:   3'- -UUGGGCaaGU------UCGGCGGCCGGCaUGU- -5'
27689 3' -58.4 NC_005882.1 + 10488 0.75 0.098325
Target:  5'- uGCUCGUUCAAGCCugcgcgacugaaucGCCGGCCGg--- -3'
miRNA:   3'- uUGGGCAAGUUCGG--------------CGGCCGGCaugu -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.