miRNA display CGI


Results 1 - 20 of 80 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
26322 3' -64.2 NC_005345.2 + 4273 1.1 0.00011
Target:  5'- cGGCGGUGCGGGCAGCUCGGGCUCGGGc -3'
miRNA:   3'- -CCGCCACGCCCGUCGAGCCCGAGCCC- -5'
26322 3' -64.2 NC_005345.2 + 5254 0.84 0.01324
Target:  5'- cGGUGGgcgUGaCGGGCGGCagggCGGGCUCGGGg -3'
miRNA:   3'- -CCGCC---AC-GCCCGUCGa---GCCCGAGCCC- -5'
26322 3' -64.2 NC_005345.2 + 9354 0.83 0.014401
Target:  5'- uGGUGGcUGCGGGCGGC-CGGGCUCGa- -3'
miRNA:   3'- -CCGCC-ACGCCCGUCGaGCCCGAGCcc -5'
26322 3' -64.2 NC_005345.2 + 8946 0.82 0.019586
Target:  5'- gGGCGGgcUGCGGGU-GCUCGGGCUCGa- -3'
miRNA:   3'- -CCGCC--ACGCCCGuCGAGCCCGAGCcc -5'
26322 3' -64.2 NC_005345.2 + 4231 0.79 0.030582
Target:  5'- aGGgGG-GCGGGguGCUCacGGCUCGGGc -3'
miRNA:   3'- -CCgCCaCGCCCguCGAGc-CCGAGCCC- -5'
26322 3' -64.2 NC_005345.2 + 25769 0.77 0.045049
Target:  5'- uGCGGaaguCGGGCAGCUCGGGCgccUCGGc -3'
miRNA:   3'- cCGCCac--GCCCGUCGAGCCCG---AGCCc -5'
26322 3' -64.2 NC_005345.2 + 3423 0.77 0.046052
Target:  5'- cGGCGGgcgcggcgGCGGGCGGCgaugCGGGCcccgagcucgcgCGGGc -3'
miRNA:   3'- -CCGCCa-------CGCCCGUCGa---GCCCGa-----------GCCC- -5'
26322 3' -64.2 NC_005345.2 + 35841 0.77 0.048927
Target:  5'- gGGCGcG-GCGGGUGGCUCGG-UUCGGGc -3'
miRNA:   3'- -CCGC-CaCGCCCGUCGAGCCcGAGCCC- -5'
26322 3' -64.2 NC_005345.2 + 31063 0.76 0.05912
Target:  5'- cGGgGGUGCGaacccgcgcacccGGUcccagagggacGGCUCGGGUUCGGGu -3'
miRNA:   3'- -CCgCCACGC-------------CCG-----------UCGAGCCCGAGCCC- -5'
26322 3' -64.2 NC_005345.2 + 36346 0.75 0.060925
Target:  5'- cGGCGG-GCcGaGCGGCUCGGGCgggucguugCGGGu -3'
miRNA:   3'- -CCGCCaCGcC-CGUCGAGCCCGa--------GCCC- -5'
26322 3' -64.2 NC_005345.2 + 31752 0.75 0.062611
Target:  5'- uGCgGGUGCGGGguGCgagugcgucUCGGGUgCGGGg -3'
miRNA:   3'- cCG-CCACGCCCguCG---------AGCCCGaGCCC- -5'
26322 3' -64.2 NC_005345.2 + 31942 0.75 0.066121
Target:  5'- cGGCgGGUGCGGGUgcgGGUgCGGGUgCGGGu -3'
miRNA:   3'- -CCG-CCACGCCCG---UCGaGCCCGaGCCC- -5'
26322 3' -64.2 NC_005345.2 + 3313 0.74 0.077825
Target:  5'- cGGCGaGUGCuucgaGGGUGGCgucacUCGGGCUgCGGGc -3'
miRNA:   3'- -CCGC-CACG-----CCCGUCG-----AGCCCGA-GCCC- -5'
26322 3' -64.2 NC_005345.2 + 33667 0.74 0.08215
Target:  5'- ----uUGCGGcGCAGCUCGGGCUCGa- -3'
miRNA:   3'- ccgccACGCC-CGUCGAGCCCGAGCcc -5'
26322 3' -64.2 NC_005345.2 + 31845 0.73 0.08417
Target:  5'- cGGCgGGUGCGGcgcaccuGCGGCgaacgugggcaCGGGUUCGGGu -3'
miRNA:   3'- -CCG-CCACGCC-------CGUCGa----------GCCCGAGCCC- -5'
26322 3' -64.2 NC_005345.2 + 35103 0.73 0.084397
Target:  5'- cGGUGGUGCGGGC-GUggCGGGUguuguucauggCGGGc -3'
miRNA:   3'- -CCGCCACGCCCGuCGa-GCCCGa----------GCCC- -5'
26322 3' -64.2 NC_005345.2 + 24802 0.73 0.084397
Target:  5'- aGGUGGUGCagccGGGCGaccggaucguGCUCGGGUUCGa- -3'
miRNA:   3'- -CCGCCACG----CCCGU----------CGAGCCCGAGCcc -5'
26322 3' -64.2 NC_005345.2 + 48897 0.73 0.093987
Target:  5'- cGGCgaGGUGCGGGCGGCgauGGCUCccgagaccgaGGGu -3'
miRNA:   3'- -CCG--CCACGCCCGUCGagcCCGAG----------CCC- -5'
26322 3' -64.2 NC_005345.2 + 35766 0.73 0.096541
Target:  5'- cGGCGGgGCgGGGCGGUggguUCGguGGCUCGGa -3'
miRNA:   3'- -CCGCCaCG-CCCGUCG----AGC--CCGAGCCc -5'
26322 3' -64.2 NC_005345.2 + 7347 0.73 0.096541
Target:  5'- cGCGGUGUGGcccgcgguggcGCAGC-CGGGCggGGGu -3'
miRNA:   3'- cCGCCACGCC-----------CGUCGaGCCCGagCCC- -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.