miRNA display CGI


Results 1 - 20 of 37 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
11423 5' -59.5 NC_003085.1 + 409 0.67 0.377328
Target:  5'- cUGCGCucccuggacGCCA-GUCUCGGCcGCgUCu -3'
miRNA:   3'- aGCGCGu--------CGGUaCAGAGCCGuCGgAG- -5'
11423 5' -59.5 NC_003085.1 + 676 0.67 0.360089
Target:  5'- gUCGC-CGGCCAccUGUCcCGcGUccGGCCUCg -3'
miRNA:   3'- -AGCGcGUCGGU--ACAGaGC-CG--UCGGAG- -5'
11423 5' -59.5 NC_003085.1 + 937 0.67 0.360089
Target:  5'- -aGCGuCGGCCGcGUC-CGGguGCCa- -3'
miRNA:   3'- agCGC-GUCGGUaCAGaGCCguCGGag -5'
11423 5' -59.5 NC_003085.1 + 1595 0.66 0.44187
Target:  5'- aCGCGU-GCCGUGUgcaugaggagaCgcaCGGCAGCCa- -3'
miRNA:   3'- aGCGCGuCGGUACA-----------Ga--GCCGUCGGag -5'
11423 5' -59.5 NC_003085.1 + 2092 0.68 0.327288
Target:  5'- -aGCGCAGCCGccgcacCUCGGC-GCCaUCg -3'
miRNA:   3'- agCGCGUCGGUaca---GAGCCGuCGG-AG- -5'
11423 5' -59.5 NC_003085.1 + 6386 0.67 0.351677
Target:  5'- gUCGUuucuuccuCGGCCGUGUCUCcacGCAGCCg- -3'
miRNA:   3'- -AGCGc-------GUCGGUACAGAGc--CGUCGGag -5'
11423 5' -59.5 NC_003085.1 + 7506 0.66 0.422788
Target:  5'- -aGCGCAGgUgcGUCUCGGUGGCg-- -3'
miRNA:   3'- agCGCGUCgGuaCAGAGCCGUCGgag -5'
11423 5' -59.5 NC_003085.1 + 8340 0.69 0.282335
Target:  5'- aCGgGguGCCGcG-CUCGGCcugGGCCUCc -3'
miRNA:   3'- aGCgCguCGGUaCaGAGCCG---UCGGAG- -5'
11423 5' -59.5 NC_003085.1 + 8547 0.66 0.422788
Target:  5'- gCGCGCGGCgAgcucGUCaCGGCAGgUCUUg -3'
miRNA:   3'- aGCGCGUCGgUa---CAGaGCCGUC-GGAG- -5'
11423 5' -59.5 NC_003085.1 + 8821 0.66 0.445745
Target:  5'- -gGCGCAGCCAgcGUCagGGCgacgaggacggcagcGGCCgUCa -3'
miRNA:   3'- agCGCGUCGGUa-CAGagCCG---------------UCGG-AG- -5'
11423 5' -59.5 NC_003085.1 + 20105 0.72 0.18592
Target:  5'- cCGgGCGGCCAUGUCcUGGUugaagacGGCCUg -3'
miRNA:   3'- aGCgCGUCGGUACAGaGCCG-------UCGGAg -5'
11423 5' -59.5 NC_003085.1 + 25135 0.68 0.338511
Target:  5'- -aGCGCcgcggagaugucguuGGCCAUGguggcCUCGGCGacauucauccgcGCCUCg -3'
miRNA:   3'- agCGCG---------------UCGGUACa----GAGCCGU------------CGGAG- -5'
11423 5' -59.5 NC_003085.1 + 26130 0.67 0.368639
Target:  5'- aCGaCGCGGCCGUGgaaCUCGgGCugcuGGCCa- -3'
miRNA:   3'- aGC-GCGUCGGUACa--GAGC-CG----UCGGag -5'
11423 5' -59.5 NC_003085.1 + 26537 0.7 0.236239
Target:  5'- gUCGaCGCGGCCucgGagggcuUCgcccCGGCAGCCUCc -3'
miRNA:   3'- -AGC-GCGUCGGua-C------AGa---GCCGUCGGAG- -5'
11423 5' -59.5 NC_003085.1 + 26723 0.69 0.261757
Target:  5'- -gGCGCgggugucggAGCCgaGUGcuUCUCGGCAGCCg- -3'
miRNA:   3'- agCGCG---------UCGG--UAC--AGAGCCGUCGGag -5'
11423 5' -59.5 NC_003085.1 + 27636 0.68 0.335276
Target:  5'- -aGCGCGaCUugAUGagCUCGGCGGCCUUg -3'
miRNA:   3'- agCGCGUcGG--UACa-GAGCCGUCGGAG- -5'
11423 5' -59.5 NC_003085.1 + 28616 0.66 0.404209
Target:  5'- cCGCaGCGGCgAg--CUCGGCGccggucGCCUCa -3'
miRNA:   3'- aGCG-CGUCGgUacaGAGCCGU------CGGAG- -5'
11423 5' -59.5 NC_003085.1 + 29569 0.66 0.432268
Target:  5'- --aCGCGGac--GUCuUCGGCGGCCUCa -3'
miRNA:   3'- agcGCGUCgguaCAG-AGCCGUCGGAG- -5'
11423 5' -59.5 NC_003085.1 + 30683 0.66 0.442837
Target:  5'- -aGCGaCAGCCGccuucgcuuUGUCcaucgcccgcuccagCGGCGGCUUCg -3'
miRNA:   3'- agCGC-GUCGGU---------ACAGa--------------GCCGUCGGAG- -5'
11423 5' -59.5 NC_003085.1 + 32240 0.66 0.432268
Target:  5'- -aGuCGCAGCgA-GUCUUGGUacagcgcccaGGCCUCg -3'
miRNA:   3'- agC-GCGUCGgUaCAGAGCCG----------UCGGAG- -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.