miRNA display CGI


Results 1 - 20 of 22 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
23197 3' -57.8 NC_005259.1 + 35603 0.66 0.655717
Target:  5'- gGGUgCGUCcUGGCCACgcugcgucgaguagUUCGGGCCGCc -3'
miRNA:   3'- -CUA-GCAGaGCUGGUG--------------GAGUCCGGCGu -5'
23197 3' -57.8 NC_005259.1 + 58077 0.66 0.648254
Target:  5'- -----aUUCGACCAgCUCGGGCCaGCc -3'
miRNA:   3'- cuagcaGAGCUGGUgGAGUCCGG-CGu -5'
23197 3' -57.8 NC_005259.1 + 49536 0.66 0.626903
Target:  5'- -cUCGaacgUGGCCACCUCAGuGCCGg- -3'
miRNA:   3'- cuAGCaga-GCUGGUGGAGUC-CGGCgu -5'
23197 3' -57.8 NC_005259.1 + 45005 0.66 0.61623
Target:  5'- --cCG-C-CGACCGCCg-GGGCCGCGc -3'
miRNA:   3'- cuaGCaGaGCUGGUGGagUCCGGCGU- -5'
23197 3' -57.8 NC_005259.1 + 56397 0.66 0.60557
Target:  5'- uGAUCGUCUCGAUggUGCC-CGGcCCGCc -3'
miRNA:   3'- -CUAGCAGAGCUG--GUGGaGUCcGGCGu -5'
23197 3' -57.8 NC_005259.1 + 2477 0.67 0.584323
Target:  5'- -uUCGUCgc--UCGCCUCAauGGCCGCAc -3'
miRNA:   3'- cuAGCAGagcuGGUGGAGU--CCGGCGU- -5'
23197 3' -57.8 NC_005259.1 + 24465 0.67 0.552751
Target:  5'- aGAUCGUCUCGACCGgagagcucguCCUC-GGCg--- -3'
miRNA:   3'- -CUAGCAGAGCUGGU----------GGAGuCCGgcgu -5'
23197 3' -57.8 NC_005259.1 + 62072 0.67 0.542336
Target:  5'- gGGUCGgcauagacacgCUCGACCGCCUCAacgaucucGUCGCGc -3'
miRNA:   3'- -CUAGCa----------GAGCUGGUGGAGUc-------CGGCGU- -5'
23197 3' -57.8 NC_005259.1 + 55021 0.67 0.542336
Target:  5'- cGGUCGUCUCGGCa----CGGGCUGCc -3'
miRNA:   3'- -CUAGCAGAGCUGguggaGUCCGGCGu -5'
23197 3' -57.8 NC_005259.1 + 39973 0.68 0.531987
Target:  5'- --gCGacugCUCGACCACCUCgacGGGCUGa- -3'
miRNA:   3'- cuaGCa---GAGCUGGUGGAG---UCCGGCgu -5'
23197 3' -57.8 NC_005259.1 + 48477 0.68 0.531987
Target:  5'- gGGUCGcgUCGGCCuguuCCUCgacgcgcuugaGGGCCGCGa -3'
miRNA:   3'- -CUAGCagAGCUGGu---GGAG-----------UCCGGCGU- -5'
23197 3' -57.8 NC_005259.1 + 39896 0.68 0.531987
Target:  5'- cGUUGUCgccgcCGcCCGCCUCgauccgucgaGGGCCGCGu -3'
miRNA:   3'- cUAGCAGa----GCuGGUGGAG----------UCCGGCGU- -5'
23197 3' -57.8 NC_005259.1 + 58188 0.68 0.49137
Target:  5'- --aCGUCUUGACCGCCgUGGGCUuGCc -3'
miRNA:   3'- cuaGCAGAGCUGGUGGaGUCCGG-CGu -5'
23197 3' -57.8 NC_005259.1 + 19247 0.7 0.414886
Target:  5'- uGAUCGa--UGGCCGCCUgcCGGGCCGCc -3'
miRNA:   3'- -CUAGCagaGCUGGUGGA--GUCCGGCGu -5'
23197 3' -57.8 NC_005259.1 + 42242 0.7 0.405846
Target:  5'- ----aUCUCGACCACCUCGcGCUGUg -3'
miRNA:   3'- cuagcAGAGCUGGUGGAGUcCGGCGu -5'
23197 3' -57.8 NC_005259.1 + 52000 0.71 0.362556
Target:  5'- --cCGaUCUCGACCggaugcacgaGCgUCAGGCCGCc -3'
miRNA:   3'- cuaGC-AGAGCUGG----------UGgAGUCCGGCGu -5'
23197 3' -57.8 NC_005259.1 + 38656 0.71 0.362556
Target:  5'- -cUCGccgaaaUCGACCACCUCGcuguuGGCCGCc -3'
miRNA:   3'- cuAGCag----AGCUGGUGGAGU-----CCGGCGu -5'
23197 3' -57.8 NC_005259.1 + 45723 0.72 0.307533
Target:  5'- aGAUCGcCUgCGcACCACCg-AGGCCGCGc -3'
miRNA:   3'- -CUAGCaGA-GC-UGGUGGagUCCGGCGU- -5'
23197 3' -57.8 NC_005259.1 + 30145 0.73 0.259126
Target:  5'- -cUCGggcagCUCGACCgggccGCCUaCAGGCCGCc -3'
miRNA:   3'- cuAGCa----GAGCUGG-----UGGA-GUCCGGCGu -5'
23197 3' -57.8 NC_005259.1 + 8901 0.73 0.259126
Target:  5'- --aCG-CUCGGCCugCUgaCGGGCCGCGu -3'
miRNA:   3'- cuaGCaGAGCUGGugGA--GUCCGGCGU- -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.