miRNA display CGI


Results 1 - 20 of 30 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
2968 3' -59.9 NC_001493.1 + 119832 0.66 0.751941
Target:  5'- -cCGGUC-CCGA---GGAGUUCCUCGa -3'
miRNA:   3'- guGCCGGuGGCUcggCCUCAAGGAGC- -5'
2968 3' -59.9 NC_001493.1 + 4278 0.66 0.751941
Target:  5'- -cCGGUC-CCGA---GGAGUUCCUCGa -3'
miRNA:   3'- guGCCGGuGGCUcggCCUCAAGGAGC- -5'
2968 3' -59.9 NC_001493.1 + 88234 0.66 0.736805
Target:  5'- aGCGGCCACCGAucaacagaucguuccGCaCGGugg-CCUCc -3'
miRNA:   3'- gUGCCGGUGGCU---------------CG-GCCucaaGGAGc -5'
2968 3' -59.9 NC_001493.1 + 100241 0.66 0.720481
Target:  5'- aCACGGCCAaugcuucauCCGGGCUGuugugaaucgaaauGAGccCCUCGg -3'
miRNA:   3'- -GUGCCGGU---------GGCUCGGC--------------CUCaaGGAGC- -5'
2968 3' -59.9 NC_001493.1 + 118586 0.66 0.713696
Target:  5'- gACGGCCGCgGGGauGGca-UCCUCGa -3'
miRNA:   3'- gUGCCGGUGgCUCggCCucaAGGAGC- -5'
2968 3' -59.9 NC_001493.1 + 3031 0.66 0.713696
Target:  5'- gACGGCCGCgGGGauGGca-UCCUCGa -3'
miRNA:   3'- gUGCCGGUGgCUCggCCucaAGGAGC- -5'
2968 3' -59.9 NC_001493.1 + 68597 0.66 0.713696
Target:  5'- aCAcCGGUgGCCGGGCCGGAcuauggGUUCaaCGu -3'
miRNA:   3'- -GU-GCCGgUGGCUCGGCCU------CAAGgaGC- -5'
2968 3' -59.9 NC_001493.1 + 102141 0.66 0.703948
Target:  5'- gGCGGCC-CUGAGCacccgaGGGGgagCCUuCGg -3'
miRNA:   3'- gUGCCGGuGGCUCGg-----CCUCaa-GGA-GC- -5'
2968 3' -59.9 NC_001493.1 + 11300 0.67 0.694143
Target:  5'- gGgGGUCAUCGAGCCcuggucccgGGAGc-CCUCGg -3'
miRNA:   3'- gUgCCGGUGGCUCGG---------CCUCaaGGAGC- -5'
2968 3' -59.9 NC_001493.1 + 126854 0.67 0.694143
Target:  5'- gGgGGUCAUCGAGCCcuggucccgGGAGc-CCUCGg -3'
miRNA:   3'- gUgCCGGUGGCUCGG---------CCUCaaGGAGC- -5'
2968 3' -59.9 NC_001493.1 + 133701 0.67 0.684288
Target:  5'- aCGCGGCCccgaaacugAUCGAGUgGGAGgu-CUCGg -3'
miRNA:   3'- -GUGCCGG---------UGGCUCGgCCUCaagGAGC- -5'
2968 3' -59.9 NC_001493.1 + 18147 0.67 0.684288
Target:  5'- aCGCGGCCccgaaacugAUCGAGUgGGAGgu-CUCGg -3'
miRNA:   3'- -GUGCCGG---------UGGCUCGgCCUCaagGAGC- -5'
2968 3' -59.9 NC_001493.1 + 118432 0.67 0.684288
Target:  5'- cCACGGCgGCCaGAGUgGGcAGagUCUUCGa -3'
miRNA:   3'- -GUGCCGgUGG-CUCGgCC-UCa-AGGAGC- -5'
2968 3' -59.9 NC_001493.1 + 2878 0.67 0.684288
Target:  5'- cCACGGCgGCCaGAGUgGGcAGagUCUUCGa -3'
miRNA:   3'- -GUGCCGgUGG-CUCGgCC-UCa-AGGAGC- -5'
2968 3' -59.9 NC_001493.1 + 133961 0.67 0.664463
Target:  5'- cCACGGCCACggggcgagcccUGAGgaacccuucCCGGAGgacCCUCGc -3'
miRNA:   3'- -GUGCCGGUG-----------GCUC---------GGCCUCaa-GGAGC- -5'
2968 3' -59.9 NC_001493.1 + 18407 0.67 0.664463
Target:  5'- cCACGGCCACggggcgagcccUGAGgaacccuucCCGGAGgacCCUCGc -3'
miRNA:   3'- -GUGCCGGUG-----------GCUC---------GGCCUCaa-GGAGC- -5'
2968 3' -59.9 NC_001493.1 + 62576 0.67 0.644539
Target:  5'- cCACGGCCA-CGGGCaCGGGGggcgaggUCCa-- -3'
miRNA:   3'- -GUGCCGGUgGCUCG-GCCUCa------AGGagc -5'
2968 3' -59.9 NC_001493.1 + 28734 0.68 0.63456
Target:  5'- gCACGGCCGCUgGAGCgCGGGaUggaCUCGa -3'
miRNA:   3'- -GUGCCGGUGG-CUCG-GCCUcAag-GAGC- -5'
2968 3' -59.9 NC_001493.1 + 41927 0.68 0.614602
Target:  5'- cCAUGGUCacgACCGAGCCGGGcgagUCCaCGg -3'
miRNA:   3'- -GUGCCGG---UGGCUCGGCCUca--AGGaGC- -5'
2968 3' -59.9 NC_001493.1 + 28883 0.69 0.57489
Target:  5'- gACGGCCACCGAaacGCuugccuuugugCGGGGaagCCUCa -3'
miRNA:   3'- gUGCCGGUGGCU---CG-----------GCCUCaa-GGAGc -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.