miRNA display CGI


Results 1 - 20 of 107 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
23572 3' -53.9 NC_005261.1 + 110901 0.66 0.953316
Target:  5'- uGGGCGacUGC-GACGCGacGGUGuuCCUGCc -3'
miRNA:   3'- gCUCGC--ACGaCUGCGU--CCAUu-GGAUG- -5'
23572 3' -53.9 NC_005261.1 + 29534 0.67 0.900122
Target:  5'- aGAGCGcgaaGCU--CGCGGGcccgGACCUGCa -3'
miRNA:   3'- gCUCGCa---CGAcuGCGUCCa---UUGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 84255 0.68 0.879347
Target:  5'- gGGGCGcuugGCccccggcaUGGCGCAGGUGccGCCgGCg -3'
miRNA:   3'- gCUCGCa---CG--------ACUGCGUCCAU--UGGaUG- -5'
23572 3' -53.9 NC_005261.1 + 117011 1.1 0.003443
Target:  5'- gCGAGCGUGCUGACGCAGGUAACCUACu -3'
miRNA:   3'- -GCUCGCACGACUGCGUCCAUUGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 38945 0.66 0.949545
Target:  5'- cCGGGCGggccgcggcgcgcggGCUG-CGCAGcaacaagAGCCUGCa -3'
miRNA:   3'- -GCUCGCa--------------CGACuGCGUCca-----UUGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 4478 0.66 0.944668
Target:  5'- uCGcGCG-GCgc-CGCGGcGUAGCCUGCg -3'
miRNA:   3'- -GCuCGCaCGacuGCGUC-CAUUGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 28611 0.66 0.939975
Target:  5'- cCGAGCuGgcggaGCUGugGCGcauGGUGGCCg-- -3'
miRNA:   3'- -GCUCG-Ca----CGACugCGU---CCAUUGGaug -5'
23572 3' -53.9 NC_005261.1 + 42801 0.66 0.935034
Target:  5'- cCGAGCGUGCaGACGUccGcGGCCg-- -3'
miRNA:   3'- -GCUCGCACGaCUGCGucCaUUGGaug -5'
23572 3' -53.9 NC_005261.1 + 73883 0.67 0.924398
Target:  5'- uGGGCGUGUcccUGA-GCuucgAGGUGaACCUGCa -3'
miRNA:   3'- gCUCGCACG---ACUgCG----UCCAU-UGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 35793 0.67 0.900122
Target:  5'- gCGGGCGccaUGGCGCGGGacGGCCUGg -3'
miRNA:   3'- -GCUCGCacgACUGCGUCCa-UUGGAUg -5'
23572 3' -53.9 NC_005261.1 + 133348 0.67 0.906563
Target:  5'- gCGcGCGgcGCUGccGCGCAGGgcuucggcuGCCUGCg -3'
miRNA:   3'- -GCuCGCa-CGAC--UGCGUCCau-------UGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 118891 0.67 0.924398
Target:  5'- --cGCGgGC--GCGCuGGUGGCCUGCg -3'
miRNA:   3'- gcuCGCaCGacUGCGuCCAUUGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 1047 0.66 0.953316
Target:  5'- gCGGGCGgcgGCguuagcGGCGCGGGggGCUgGCc -3'
miRNA:   3'- -GCUCGCa--CGa-----CUGCGUCCauUGGaUG- -5'
23572 3' -53.9 NC_005261.1 + 109199 0.67 0.906563
Target:  5'- uCGGGCGUGCgcaGGCGCucGUAGgCgcgGCa -3'
miRNA:   3'- -GCUCGCACGa--CUGCGucCAUUgGa--UG- -5'
23572 3' -53.9 NC_005261.1 + 124181 0.66 0.953316
Target:  5'- aGAGCGUcGCgugggggGACGCGuccGGUGGCgugaaCUGCg -3'
miRNA:   3'- gCUCGCA-CGa------CUGCGU---CCAUUG-----GAUG- -5'
23572 3' -53.9 NC_005261.1 + 118678 0.66 0.929842
Target:  5'- aGGGCGgcgggcGCUGGCGCAcgcgcggcguGGU--CCUGCu -3'
miRNA:   3'- gCUCGCa-----CGACUGCGU----------CCAuuGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 72615 0.67 0.900122
Target:  5'- cCGGGCGgGCgGGCGCAGGggcGGCUUu- -3'
miRNA:   3'- -GCUCGCaCGaCUGCGUCCa--UUGGAug -5'
23572 3' -53.9 NC_005261.1 + 96113 0.68 0.879347
Target:  5'- uCGGGaCGUcGCUGGC-CAuGGUcGACCUGCg -3'
miRNA:   3'- -GCUC-GCA-CGACUGcGU-CCA-UUGGAUG- -5'
23572 3' -53.9 NC_005261.1 + 116483 0.66 0.953316
Target:  5'- gCGGGCGggGCgGGCGCGcGGUAuaaagagcgccGCCgcgGCg -3'
miRNA:   3'- -GCUCGCa-CGaCUGCGU-CCAU-----------UGGa--UG- -5'
23572 3' -53.9 NC_005261.1 + 117910 0.66 0.944668
Target:  5'- uGAGCG-GCUG-CGCGGGaacgaaGGCCgGCu -3'
miRNA:   3'- gCUCGCaCGACuGCGUCCa-----UUGGaUG- -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.