miRNA display CGI


Results 21 - 40 of 42 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
23213 3' -60.3 NC_005259.1 + 17761 0.68 0.360608
Target:  5'- aGGCCgccgcgCGCCGGGC-CGAGCGcaccGAGCGu -3'
miRNA:   3'- gCCGG------GCGGCUCGaGUUCGU----CUCGUc -5'
23213 3' -60.3 NC_005259.1 + 43024 0.68 0.352454
Target:  5'- cCGGCgaugCCGCCGAGC--AGGCcgccGAGCAGc -3'
miRNA:   3'- -GCCG----GGCGGCUCGagUUCGu---CUCGUC- -5'
23213 3' -60.3 NC_005259.1 + 60732 0.68 0.352454
Target:  5'- cCGGCCCGUguCGGGgUCcauuuGCAGuGCAGu -3'
miRNA:   3'- -GCCGGGCG--GCUCgAGuu---CGUCuCGUC- -5'
23213 3' -60.3 NC_005259.1 + 29947 0.68 0.352454
Target:  5'- gCGGCCCgGUCGcGGCU--GGUGGGGCGGg -3'
miRNA:   3'- -GCCGGG-CGGC-UCGAguUCGUCUCGUC- -5'
23213 3' -60.3 NC_005259.1 + 18768 0.68 0.352454
Target:  5'- uGGCCUGCCacaucgcGGUgggCAAGCGGuGGCAGg -3'
miRNA:   3'- gCCGGGCGGc------UCGa--GUUCGUC-UCGUC- -5'
23213 3' -60.3 NC_005259.1 + 67412 0.68 0.351646
Target:  5'- gGGCCgacaccaucggggUGCCGGGCUCAcGCuuGAGCGc -3'
miRNA:   3'- gCCGG-------------GCGGCUCGAGUuCGu-CUCGUc -5'
23213 3' -60.3 NC_005259.1 + 25957 0.69 0.344431
Target:  5'- cCGGCCCGCCGAcgccuGCgauGAGaCcGGGCAGc -3'
miRNA:   3'- -GCCGGGCGGCU-----CGag-UUC-GuCUCGUC- -5'
23213 3' -60.3 NC_005259.1 + 46781 0.69 0.321158
Target:  5'- cCGcGCCCGCCGGGCcgaacacCGAGCcugcGAGCGc -3'
miRNA:   3'- -GC-CGGGCGGCUCGa------GUUCGu---CUCGUc -5'
23213 3' -60.3 NC_005259.1 + 10329 0.69 0.306308
Target:  5'- gGGCUCGgcgaCGGGCUCG-GCGGcAGCGGg -3'
miRNA:   3'- gCCGGGCg---GCUCGAGUuCGUC-UCGUC- -5'
23213 3' -60.3 NC_005259.1 + 4970 0.69 0.306308
Target:  5'- cCGGUauCCGCCGAGUUCGgccgauGGCcGGGCAc -3'
miRNA:   3'- -GCCG--GGCGGCUCGAGU------UCGuCUCGUc -5'
23213 3' -60.3 NC_005259.1 + 33384 0.7 0.299082
Target:  5'- cCGGUCCGCCGAGCgcgaCGAGCcGuGUc- -3'
miRNA:   3'- -GCCGGGCGGCUCGa---GUUCGuCuCGuc -5'
23213 3' -60.3 NC_005259.1 + 18522 0.7 0.299082
Target:  5'- -uGCCCGCCGAuuUCGgcaaGGCAGAGCc- -3'
miRNA:   3'- gcCGGGCGGCUcgAGU----UCGUCUCGuc -5'
23213 3' -60.3 NC_005259.1 + 43735 0.7 0.269517
Target:  5'- gCGGCcaugCCGCCGAGC-CGGGCAacaucggaaguguuGAGCAc -3'
miRNA:   3'- -GCCG----GGCGGCUCGaGUUCGU--------------CUCGUc -5'
23213 3' -60.3 NC_005259.1 + 63394 0.7 0.267544
Target:  5'- uGGCCCacGCCGAccaaugguugcccuuGCUCAuGCcGAGCAGc -3'
miRNA:   3'- gCCGGG--CGGCU---------------CGAGUuCGuCUCGUC- -5'
23213 3' -60.3 NC_005259.1 + 65688 0.71 0.246001
Target:  5'- uCGGCCCGaCGAGCg--GGCcGAGUAGg -3'
miRNA:   3'- -GCCGGGCgGCUCGaguUCGuCUCGUC- -5'
23213 3' -60.3 NC_005259.1 + 50399 0.72 0.215309
Target:  5'- gCGGCUCGCCGAGCgCGccggugccuugaccGGCucGGGCAGc -3'
miRNA:   3'- -GCCGGGCGGCUCGaGU--------------UCGu-CUCGUC- -5'
23213 3' -60.3 NC_005259.1 + 23648 0.72 0.200458
Target:  5'- uCGGCCCGCCGAcggcgacgGCUggaccgccgacccCGAGCAGGcgcacGCAGa -3'
miRNA:   3'- -GCCGGGCGGCU--------CGA-------------GUUCGUCU-----CGUC- -5'
23213 3' -60.3 NC_005259.1 + 39791 0.73 0.172064
Target:  5'- uCGGUgCGCCGAGCUCAAGCcGAa--- -3'
miRNA:   3'- -GCCGgGCGGCUCGAGUUCGuCUcguc -5'
23213 3' -60.3 NC_005259.1 + 45624 0.75 0.135653
Target:  5'- -uGCCCGCCGGGC-CGGGCAGcGCGc -3'
miRNA:   3'- gcCGGGCGGCUCGaGUUCGUCuCGUc -5'
23213 3' -60.3 NC_005259.1 + 51805 0.78 0.083229
Target:  5'- gGGUCgGUC-AGCUCAGGCAGGGCGGg -3'
miRNA:   3'- gCCGGgCGGcUCGAGUUCGUCUCGUC- -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.