miRNA display CGI


Results 1 - 15 of 15 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
20406 5' -55.7 NC_004688.1 + 62886 0.66 0.882026
Target:  5'- aGGCgGguGGGCGUcGGAGagCGCCCa -3'
miRNA:   3'- gCCGgCauCCCGUA-CUUCaaGUGGGc -5'
20406 5' -55.7 NC_004688.1 + 70520 0.66 0.874761
Target:  5'- aGGUCagGGGGCGgccGAAGUcguccagCGCCCGg -3'
miRNA:   3'- gCCGGcaUCCCGUa--CUUCAa------GUGGGC- -5'
20406 5' -55.7 NC_004688.1 + 66457 0.66 0.851637
Target:  5'- uCGGCCGUAGaGuuccaacgccGCGUGGAGggaUguCCCGa -3'
miRNA:   3'- -GCCGGCAUC-C----------CGUACUUCa--AguGGGC- -5'
20406 5' -55.7 NC_004688.1 + 6579 0.66 0.851637
Target:  5'- gCGGCCGUcGGuGCAgcgcugGGAGcccacgaUCGCCCa -3'
miRNA:   3'- -GCCGGCAuCC-CGUa-----CUUCa------AGUGGGc -5'
20406 5' -55.7 NC_004688.1 + 33955 0.66 0.843507
Target:  5'- aGGCagcggGUcGGGCcgGAAGaaCACCCa -3'
miRNA:   3'- gCCGg----CAuCCCGuaCUUCaaGUGGGc -5'
20406 5' -55.7 NC_004688.1 + 29707 0.68 0.781464
Target:  5'- gGGUCGUugcccGGC-UGggGaUCACCCGg -3'
miRNA:   3'- gCCGGCAuc---CCGuACuuCaAGUGGGC- -5'
20406 5' -55.7 NC_004688.1 + 43277 0.68 0.781464
Target:  5'- cCGGCCGccaucgGGGGCgauGUGAGuGUUUugCUGa -3'
miRNA:   3'- -GCCGGCa-----UCCCG---UACUU-CAAGugGGC- -5'
20406 5' -55.7 NC_004688.1 + 48557 0.69 0.722755
Target:  5'- gGGcCCGUGGGGgaaCGUcGAGGUguucCGCCCGu -3'
miRNA:   3'- gCC-GGCAUCCC---GUA-CUUCAa---GUGGGC- -5'
20406 5' -55.7 NC_004688.1 + 48343 0.69 0.71263
Target:  5'- uGGCCcaGUGGGGCuacagggugGUGGAGcagcucUUCACCCc -3'
miRNA:   3'- gCCGG--CAUCCCG---------UACUUC------AAGUGGGc -5'
20406 5' -55.7 NC_004688.1 + 96133 0.7 0.629862
Target:  5'- gCGG-CGcAGGGCAUGAAGUagaagUCACCa- -3'
miRNA:   3'- -GCCgGCaUCCCGUACUUCA-----AGUGGgc -5'
20406 5' -55.7 NC_004688.1 + 67586 0.72 0.516906
Target:  5'- gCGGUCGgcGGGC-UGAGGUcCACCUu -3'
miRNA:   3'- -GCCGGCauCCCGuACUUCAaGUGGGc -5'
20406 5' -55.7 NC_004688.1 + 17020 0.73 0.477706
Target:  5'- gGGCuugCGUGGGGCAUGGauGGUgcaGCCCa -3'
miRNA:   3'- gCCG---GCAUCCCGUACU--UCAag-UGGGc -5'
20406 5' -55.7 NC_004688.1 + 93479 0.73 0.477706
Target:  5'- gCGGCC---GGGCGUGAGGUcgCACCaCGg -3'
miRNA:   3'- -GCCGGcauCCCGUACUUCAa-GUGG-GC- -5'
20406 5' -55.7 NC_004688.1 + 30361 0.75 0.395415
Target:  5'- gCGGCCGaucucgUAGGGCAggccguuuuUGAAGgugaccUCGCCCGa -3'
miRNA:   3'- -GCCGGC------AUCCCGU---------ACUUCa-----AGUGGGC- -5'
20406 5' -55.7 NC_004688.1 + 1940 1.1 0.001994
Target:  5'- gCGGCCGUAGGGCAUGAAGUUCACCCGg -3'
miRNA:   3'- -GCCGGCAUCCCGUACUUCAAGUGGGC- -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.