miRNA display CGI


Results 1 - 20 of 29 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
23671 3' -59.6 NC_005261.1 + 14263 0.66 0.761077
Target:  5'- --cCGGugUCGGcUUCGGggcuGGGGCUgGg -3'
miRNA:   3'- ugaGCCugAGCCuGAGCC----UCCCGAgC- -5'
23671 3' -59.6 NC_005261.1 + 35307 0.66 0.751768
Target:  5'- cGC-CGGGC-CGGgcuGCUCGGGGaGGC-CGg -3'
miRNA:   3'- -UGaGCCUGaGCC---UGAGCCUC-CCGaGC- -5'
23671 3' -59.6 NC_005261.1 + 128794 0.66 0.751768
Target:  5'- --cUGGGCgccCGGGCccgCGGcGGGGCUCGc -3'
miRNA:   3'- ugaGCCUGa--GCCUGa--GCC-UCCCGAGC- -5'
23671 3' -59.6 NC_005261.1 + 138193 0.66 0.742359
Target:  5'- ---aGGGCgCGGGCgggCGGGGGGCagggCGg -3'
miRNA:   3'- ugagCCUGaGCCUGa--GCCUCCCGa---GC- -5'
23671 3' -59.6 NC_005261.1 + 522 0.66 0.742359
Target:  5'- ---aGGGCgCGGGCgggCGGGGGGCagggCGg -3'
miRNA:   3'- ugagCCUGaGCCUGa--GCCUCCCGa---GC- -5'
23671 3' -59.6 NC_005261.1 + 29073 0.66 0.73286
Target:  5'- cACU-GGAUUUagGGACUCGG-GGGC-CGg -3'
miRNA:   3'- -UGAgCCUGAG--CCUGAGCCuCCCGaGC- -5'
23671 3' -59.6 NC_005261.1 + 23906 0.66 0.73286
Target:  5'- gGCUCgcuGGGCUgGGccaGCUgGGGuGGGCUCa -3'
miRNA:   3'- -UGAG---CCUGAgCC---UGAgCCU-CCCGAGc -5'
23671 3' -59.6 NC_005261.1 + 22068 0.66 0.73286
Target:  5'- gGCUCcGGCg-GGGCUCGaGGGGGCgccgCGu -3'
miRNA:   3'- -UGAGcCUGagCCUGAGC-CUCCCGa---GC- -5'
23671 3' -59.6 NC_005261.1 + 30574 0.67 0.723278
Target:  5'- cCUCGGACggGGACggGGAcGGGgaCGg -3'
miRNA:   3'- uGAGCCUGagCCUGagCCU-CCCgaGC- -5'
23671 3' -59.6 NC_005261.1 + 21815 0.67 0.713622
Target:  5'- gGC-CGGGCccgcggCGGGCgcgcgugCGGGcGGGCUCGc -3'
miRNA:   3'- -UGaGCCUGa-----GCCUGa------GCCU-CCCGAGC- -5'
23671 3' -59.6 NC_005261.1 + 12413 0.67 0.713622
Target:  5'- --aCGGAgccCUCcagGGGCggCGGAGGGCUUGc -3'
miRNA:   3'- ugaGCCU---GAG---CCUGa-GCCUCCCGAGC- -5'
23671 3' -59.6 NC_005261.1 + 64507 0.67 0.684292
Target:  5'- uGCUCgGGGCccgCGGGCggcuccucgUCGGGGGGCa-- -3'
miRNA:   3'- -UGAG-CCUGa--GCCUG---------AGCCUCCCGagc -5'
23671 3' -59.6 NC_005261.1 + 30802 0.67 0.674423
Target:  5'- uGCUgGGGC-CGGaggaGCUgGGGGGGCcCGg -3'
miRNA:   3'- -UGAgCCUGaGCC----UGAgCCUCCCGaGC- -5'
23671 3' -59.6 NC_005261.1 + 67803 0.68 0.668486
Target:  5'- cCUCGGcgccgcccaguggcaACUCGGGCgcgcgcaGGAGGGC-CGc -3'
miRNA:   3'- uGAGCC---------------UGAGCCUGag-----CCUCCCGaGC- -5'
23671 3' -59.6 NC_005261.1 + 4757 0.68 0.654595
Target:  5'- gGCUCGGGCUUGGGCcUGGcuucGGCUUc -3'
miRNA:   3'- -UGAGCCUGAGCCUGaGCCuc--CCGAGc -5'
23671 3' -59.6 NC_005261.1 + 33799 0.68 0.641667
Target:  5'- cGCgCGGGCggCGGGCUugucuuugggcggcCGGGGGGCgCGg -3'
miRNA:   3'- -UGaGCCUGa-GCCUGA--------------GCCUCCCGaGC- -5'
23671 3' -59.6 NC_005261.1 + 129683 0.69 0.604858
Target:  5'- gGCgUCGcGACUCGGGC-CGGggccGGGGC-CGg -3'
miRNA:   3'- -UG-AGC-CUGAGCCUGaGCC----UCCCGaGC- -5'
23671 3' -59.6 NC_005261.1 + 32470 0.69 0.575189
Target:  5'- gGCaCGGACUCGGGCUUcccGGGGC-CGg -3'
miRNA:   3'- -UGaGCCUGAGCCUGAGcc-UCCCGaGC- -5'
23671 3' -59.6 NC_005261.1 + 34893 0.69 0.565367
Target:  5'- -gUCGGAgUCGGAgUCGGAcgcggaggucgGGGCgCGg -3'
miRNA:   3'- ugAGCCUgAGCCUgAGCCU-----------CCCGaGC- -5'
23671 3' -59.6 NC_005261.1 + 89834 0.69 0.565367
Target:  5'- cUUCGcGGC-CGGGC-CGGAGGGCcgCGg -3'
miRNA:   3'- uGAGC-CUGaGCCUGaGCCUCCCGa-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.