miRNA display CGI


Results 1 - 20 of 56 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
11443 5' -55.2 NC_003085.1 + 48496 0.66 0.714709
Target:  5'- gCGGCGUgUCcUGCc---CCGGCAGCGg -3'
miRNA:   3'- -GCUGCAgAGuGCGuguaGGUCGUCGC- -5'
11443 5' -55.2 NC_003085.1 + 37194 0.66 0.714709
Target:  5'- aCGGCcaGUUUCACG-GCG-CCAGCGGCc -3'
miRNA:   3'- -GCUG--CAGAGUGCgUGUaGGUCGUCGc -5'
11443 5' -55.2 NC_003085.1 + 11342 0.66 0.703903
Target:  5'- gCGGCGagcCUCACgGCACcUCCgagacgaugguGGCGGCGc -3'
miRNA:   3'- -GCUGCa--GAGUG-CGUGuAGG-----------UCGUCGC- -5'
11443 5' -55.2 NC_003085.1 + 25345 0.66 0.703903
Target:  5'- gGAUGg--CGCGCGCuUCCGGaCGGUGa -3'
miRNA:   3'- gCUGCagaGUGCGUGuAGGUC-GUCGC- -5'
11443 5' -55.2 NC_003085.1 + 18962 0.66 0.703903
Target:  5'- gCGACGg-UgGCGCGCuUCCugcGCAGCa -3'
miRNA:   3'- -GCUGCagAgUGCGUGuAGGu--CGUCGc -5'
11443 5' -55.2 NC_003085.1 + 44224 0.66 0.693026
Target:  5'- -aGCGUCgaacCAC-CACAUCCAcaaGUAGCGa -3'
miRNA:   3'- gcUGCAGa---GUGcGUGUAGGU---CGUCGC- -5'
11443 5' -55.2 NC_003085.1 + 7490 0.66 0.68209
Target:  5'- aGGCGUgUCACugggaagcgcagGUGCGUCuCGGUGGCGg -3'
miRNA:   3'- gCUGCAgAGUG------------CGUGUAG-GUCGUCGC- -5'
11443 5' -55.2 NC_003085.1 + 1869 0.66 0.671106
Target:  5'- gCGGCuccGUCUUGCGCuCAUCggcccaucaGGCAGCGg -3'
miRNA:   3'- -GCUG---CAGAGUGCGuGUAGg--------UCGUCGC- -5'
11443 5' -55.2 NC_003085.1 + 8968 0.66 0.671106
Target:  5'- gCGGCuccggCUCgagACGC-CcgCCAGCAGCGa -3'
miRNA:   3'- -GCUGca---GAG---UGCGuGuaGGUCGUCGC- -5'
11443 5' -55.2 NC_003085.1 + 5738 0.67 0.664497
Target:  5'- cCGAgGUCgUCGCacugauuacggaugaGCGCAUCCcccuugAGCGGCGc -3'
miRNA:   3'- -GCUgCAG-AGUG---------------CGUGUAGG------UCGUCGC- -5'
11443 5' -55.2 NC_003085.1 + 43532 0.67 0.660085
Target:  5'- aCGGCGcCgaagGCgGCGCGUCCAGCuuGCGc -3'
miRNA:   3'- -GCUGCaGag--UG-CGUGUAGGUCGu-CGC- -5'
11443 5' -55.2 NC_003085.1 + 11602 0.67 0.660085
Target:  5'- cCGACGUCUgGCcggccaGCGCA---GGCAGCGc -3'
miRNA:   3'- -GCUGCAGAgUG------CGUGUaggUCGUCGC- -5'
11443 5' -55.2 NC_003085.1 + 9980 0.67 0.660085
Target:  5'- cCGAgCGcCUCgACGCGCAcgUCGGCAGgGg -3'
miRNA:   3'- -GCU-GCaGAG-UGCGUGUa-GGUCGUCgC- -5'
11443 5' -55.2 NC_003085.1 + 8753 0.67 0.660085
Target:  5'- aGAgGUC-CACcgGCGCGUCCAGCAc-- -3'
miRNA:   3'- gCUgCAGaGUG--CGUGUAGGUCGUcgc -5'
11443 5' -55.2 NC_003085.1 + 2959 0.67 0.658981
Target:  5'- aCGGCGUCaagCGCGCGgugguuuCGUCgAGCGcGCGu -3'
miRNA:   3'- -GCUGCAGa--GUGCGU-------GUAGgUCGU-CGC- -5'
11443 5' -55.2 NC_003085.1 + 26283 0.67 0.649037
Target:  5'- gGACGUUUgcCACGCAgGUCgGGCuGGCc -3'
miRNA:   3'- gCUGCAGA--GUGCGUgUAGgUCG-UCGc -5'
11443 5' -55.2 NC_003085.1 + 2626 0.67 0.637973
Target:  5'- aGACG-CUgGCGuCGCAaCuCGGCGGCGa -3'
miRNA:   3'- gCUGCaGAgUGC-GUGUaG-GUCGUCGC- -5'
11443 5' -55.2 NC_003085.1 + 28470 0.67 0.637973
Target:  5'- -cGCGUugaaCUCGCGCAUGUCCAGgAGg- -3'
miRNA:   3'- gcUGCA----GAGUGCGUGUAGGUCgUCgc -5'
11443 5' -55.2 NC_003085.1 + 38213 0.67 0.637973
Target:  5'- gCGGCGguggCUCGUGCACucucgaCGGCAGCa -3'
miRNA:   3'- -GCUGCa---GAGUGCGUGuag---GUCGUCGc -5'
11443 5' -55.2 NC_003085.1 + 9871 0.67 0.637973
Target:  5'- gGACGUC-CACGgACGUCC-GUGGaCGa -3'
miRNA:   3'- gCUGCAGaGUGCgUGUAGGuCGUC-GC- -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.