miRNA display CGI


Results 1 - 20 of 38 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
23265 5' -56.9 NC_005259.1 + 50410 0.66 0.723805
Target:  5'- aGCGCgCCGGUGccuugaccgGC-UCGGgcAGCGguGCg -3'
miRNA:   3'- -CGUGgGGCCAC---------UGuAGCC--UCGUguCG- -5'
23265 5' -56.9 NC_005259.1 + 7867 0.68 0.565143
Target:  5'- -gACCCCGGUGGCccgagugcUUGGAcucGgGCAGCc -3'
miRNA:   3'- cgUGGGGCCACUGu-------AGCCU---CgUGUCG- -5'
23265 5' -56.9 NC_005259.1 + 68533 0.68 0.57567
Target:  5'- aGCugCCCGccacgcGUcGACAUCGGgguGGUugAGCc -3'
miRNA:   3'- -CGugGGGC------CA-CUGUAGCC---UCGugUCG- -5'
23265 5' -56.9 NC_005259.1 + 64223 0.68 0.57567
Target:  5'- gGCAgCCCGGU---AUCGGGGUcgAUAGCc -3'
miRNA:   3'- -CGUgGGGCCAcugUAGCCUCG--UGUCG- -5'
23265 5' -56.9 NC_005259.1 + 8968 0.68 0.596849
Target:  5'- gGCACCgugCCGG-GACGUaGGuGC-CAGCg -3'
miRNA:   3'- -CGUGG---GGCCaCUGUAgCCuCGuGUCG- -5'
23265 5' -56.9 NC_005259.1 + 63194 0.68 0.6011
Target:  5'- cGCACCCCGGUcgugcgccucGACcgccucgucagacagAUCGGGGuCGCuGGUc -3'
miRNA:   3'- -CGUGGGGCCA----------CUG---------------UAGCCUC-GUG-UCG- -5'
23265 5' -56.9 NC_005259.1 + 25989 0.68 0.607485
Target:  5'- aGCGCCgaGGUGaACAaCGGAaGUAgCAGCg -3'
miRNA:   3'- -CGUGGggCCAC-UGUaGCCU-CGU-GUCG- -5'
23265 5' -56.9 NC_005259.1 + 57291 0.67 0.61814
Target:  5'- gGCACCUCGuaGUgcacGACAUCG-AGCAcCGGCg -3'
miRNA:   3'- -CGUGGGGC--CA----CUGUAGCcUCGU-GUCG- -5'
23265 5' -56.9 NC_005259.1 + 29946 0.67 0.628807
Target:  5'- cGCGgCCCGGUcGCGgcuggUGGGGCggGCGGUg -3'
miRNA:   3'- -CGUgGGGCCAcUGUa----GCCUCG--UGUCG- -5'
23265 5' -56.9 NC_005259.1 + 62419 0.69 0.513403
Target:  5'- gGCACCCguaucgGGUGGagguUCGGA-CGCAGCa -3'
miRNA:   3'- -CGUGGGg-----CCACUgu--AGCCUcGUGUCG- -5'
23265 5' -56.9 NC_005259.1 + 27373 0.69 0.503278
Target:  5'- gGUGCCCggcaCGGUGACcggcggcgguGUCGGcAGCgGCGGCa -3'
miRNA:   3'- -CGUGGG----GCCACUG----------UAGCC-UCG-UGUCG- -5'
23265 5' -56.9 NC_005259.1 + 51263 0.69 0.503278
Target:  5'- -gGCUCgCGGUGGuCA-CGGuGCGCGGCa -3'
miRNA:   3'- cgUGGG-GCCACU-GUaGCCuCGUGUCG- -5'
23265 5' -56.9 NC_005259.1 + 58659 0.78 0.159614
Target:  5'- gGUAgCCCGGUG-CAcCGGGGUGCAGCu -3'
miRNA:   3'- -CGUgGGGCCACuGUaGCCUCGUGUCG- -5'
23265 5' -56.9 NC_005259.1 + 48045 0.75 0.241633
Target:  5'- cCACCCCGGUGGCcacggCGGguAGCGCcGCc -3'
miRNA:   3'- cGUGGGGCCACUGua---GCC--UCGUGuCG- -5'
23265 5' -56.9 NC_005259.1 + 15560 0.74 0.267002
Target:  5'- cCACCCUcaGGUGGCcacccUCGGGGC-CAGCg -3'
miRNA:   3'- cGUGGGG--CCACUGu----AGCCUCGuGUCG- -5'
23265 5' -56.9 NC_005259.1 + 53018 0.73 0.301688
Target:  5'- gGCGCUgCGGUGGCGUCGaGGCAUcGUg -3'
miRNA:   3'- -CGUGGgGCCACUGUAGCcUCGUGuCG- -5'
23265 5' -56.9 NC_005259.1 + 52966 0.72 0.355916
Target:  5'- cGCugCCCGGcuGCAUCGGcaAGCAUGuGCa -3'
miRNA:   3'- -CGugGGGCCacUGUAGCC--UCGUGU-CG- -5'
23265 5' -56.9 NC_005259.1 + 51074 0.71 0.416646
Target:  5'- aGCGCCUCGGUGGCAUgGcccacgauaacGAGgGCGGg -3'
miRNA:   3'- -CGUGGGGCCACUGUAgC-----------CUCgUGUCg -5'
23265 5' -56.9 NC_005259.1 + 55052 0.71 0.425826
Target:  5'- -uGCCUCGGUGGCAgucugCGcGAGaucaGCGGCu -3'
miRNA:   3'- cgUGGGGCCACUGUa----GC-CUCg---UGUCG- -5'
23265 5' -56.9 NC_005259.1 + 54327 0.7 0.463708
Target:  5'- uCACCUCGG-GGcCAUCGG-GC-CAGCa -3'
miRNA:   3'- cGUGGGGCCaCU-GUAGCCuCGuGUCG- -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.