miRNA display CGI


Results 1 - 20 of 27 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
22430 5' -53.3 NC_005056.1 + 5850 1.12 0.00064
Target:  5'- gCGUGACACCGGCAAAACGUGGACGCCc -3'
miRNA:   3'- -GCACUGUGGCCGUUUUGCACCUGCGG- -5'
22430 5' -53.3 NC_005056.1 + 6360 0.66 0.730139
Target:  5'- gCGU--UACC-GCG--GCGUGGAUGCCa -3'
miRNA:   3'- -GCAcuGUGGcCGUuuUGCACCUGCGG- -5'
22430 5' -53.3 NC_005056.1 + 5428 0.66 0.71909
Target:  5'- --gGAUACCGGCGAuauugccgguGCGcUGGAgauUGCCc -3'
miRNA:   3'- gcaCUGUGGCCGUUu---------UGC-ACCU---GCGG- -5'
22430 5' -53.3 NC_005056.1 + 20076 0.66 0.71909
Target:  5'- --aGGCACUGGCugacGCGUuGAUGCUg -3'
miRNA:   3'- gcaCUGUGGCCGuuu-UGCAcCUGCGG- -5'
22430 5' -53.3 NC_005056.1 + 19792 0.66 0.685433
Target:  5'- --cGAUuagcugGCCGGUuguugcCGUGGugGCCg -3'
miRNA:   3'- gcaCUG------UGGCCGuuuu--GCACCugCGG- -5'
22430 5' -53.3 NC_005056.1 + 8118 0.66 0.685433
Target:  5'- gGUGGCACUGcGUcaGGAAC-UGGAgaaCGCCg -3'
miRNA:   3'- gCACUGUGGC-CG--UUUUGcACCU---GCGG- -5'
22430 5' -53.3 NC_005056.1 + 11560 0.67 0.628393
Target:  5'- --cGGCGcaauCCGGCGuGugGUGGA-GCCg -3'
miRNA:   3'- gcaCUGU----GGCCGUuUugCACCUgCGG- -5'
22430 5' -53.3 NC_005056.1 + 28909 0.68 0.594119
Target:  5'- cCGUG-CACa-GCAAAACG-GGugGCUu -3'
miRNA:   3'- -GCACuGUGgcCGUUUUGCaCCugCGG- -5'
22430 5' -53.3 NC_005056.1 + 5683 0.68 0.594119
Target:  5'- gCGUGACGCUGGUGAugcCGccGGuGCGCUg -3'
miRNA:   3'- -GCACUGUGGCCGUUuu-GCa-CC-UGCGG- -5'
22430 5' -53.3 NC_005056.1 + 28380 0.68 0.58275
Target:  5'- --aGGCGCUGGC---GCGUGGcGCGaCCg -3'
miRNA:   3'- gcaCUGUGGCCGuuuUGCACC-UGC-GG- -5'
22430 5' -53.3 NC_005056.1 + 17300 0.82 0.083697
Target:  5'- gCGUGACgauACCGGCGAAACGgUGGcCGUCg -3'
miRNA:   3'- -GCACUG---UGGCCGUUUUGC-ACCuGCGG- -5'
22430 5' -53.3 NC_005056.1 + 7554 0.7 0.438898
Target:  5'- -cUGGCACUGucccugauuuacccGCAGAGCGUGGcCGUCa -3'
miRNA:   3'- gcACUGUGGC--------------CGUUUUGCACCuGCGG- -5'
22430 5' -53.3 NC_005056.1 + 3977 0.7 0.462444
Target:  5'- --aGcCACCGGCGGuGGCGUG-ACGCCc -3'
miRNA:   3'- gcaCuGUGGCCGUU-UUGCACcUGCGG- -5'
22430 5' -53.3 NC_005056.1 + 17818 0.7 0.481327
Target:  5'- uGUGGCGCUGGCcgguAAgGUGGucgguuuuuuguCGCCg -3'
miRNA:   3'- gCACUGUGGCCGuu--UUgCACCu-----------GCGG- -5'
22430 5' -53.3 NC_005056.1 + 7094 0.69 0.504899
Target:  5'- aCGUGAuaguCACCGGacuGGACG-GGAaGCCg -3'
miRNA:   3'- -GCACU----GUGGCCgu-UUUGCaCCUgCGG- -5'
22430 5' -53.3 NC_005056.1 + 26250 0.69 0.548947
Target:  5'- --aGGCACCGGUAAGGCGUuuaccGG-UGCUu -3'
miRNA:   3'- gcaCUGUGGCCGUUUUGCA-----CCuGCGG- -5'
22430 5' -53.3 NC_005056.1 + 5613 0.78 0.163724
Target:  5'- --aGACucACCGGCA--GCGUGGGCGCg -3'
miRNA:   3'- gcaCUG--UGGCCGUuuUGCACCUGCGg -5'
22430 5' -53.3 NC_005056.1 + 16573 0.66 0.717979
Target:  5'- gCGcUGAUGCCGGUAAcaccguucaccccGACGuUGGACaGCg -3'
miRNA:   3'- -GC-ACUGUGGCCGUU-------------UUGC-ACCUG-CGg -5'
22430 5' -53.3 NC_005056.1 + 9886 0.66 0.707947
Target:  5'- cCGUGAcCACCGGCAc--CGUGG-CaGUa -3'
miRNA:   3'- -GCACU-GUGGCCGUuuuGCACCuG-CGg -5'
22430 5' -53.3 NC_005056.1 + 5982 0.66 0.707947
Target:  5'- gGUGAUucacccucacugACCGGCGugccgcccuGGCGcgGGGCGCa -3'
miRNA:   3'- gCACUG------------UGGCCGUu--------UUGCa-CCUGCGg -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.