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
22894 5' -45.4 NC_005137.2 + 22451 0.66 0.999987
Target:  5'- gGGCAACGUgcgcuccGUCGgCUGCAccgcGCUcACGc -3'
miRNA:   3'- gCCGUUGUA-------UAGUgGAUGU----UGAaUGC- -5'
22894 5' -45.4 NC_005137.2 + 42205 0.66 0.999987
Target:  5'- aCGGCGACg---CGCgCUACAACgagugGCa -3'
miRNA:   3'- -GCCGUUGuauaGUG-GAUGUUGaa---UGc -5'
22894 5' -45.4 NC_005137.2 + 110146 0.66 0.999975
Target:  5'- uCGGCGuaagcuGCGUG-CACCgcUGCAACgUUGCGc -3'
miRNA:   3'- -GCCGU------UGUAUaGUGG--AUGUUG-AAUGC- -5'
22894 5' -45.4 NC_005137.2 + 91727 0.66 0.999975
Target:  5'- gCGcGCGACGUGUaCGCCaGCGA-UUACGu -3'
miRNA:   3'- -GC-CGUUGUAUA-GUGGaUGUUgAAUGC- -5'
22894 5' -45.4 NC_005137.2 + 24300 0.66 0.999975
Target:  5'- aCGGCGGCGUuugCGgCUGCggUggugGCGg -3'
miRNA:   3'- -GCCGUUGUAua-GUgGAUGuuGaa--UGC- -5'
22894 5' -45.4 NC_005137.2 + 95503 0.66 0.999974
Target:  5'- gGGC-GCAUcgcugacGUgGCCggugGCGACUUGCGc -3'
miRNA:   3'- gCCGuUGUA-------UAgUGGa---UGUUGAAUGC- -5'
22894 5' -45.4 NC_005137.2 + 32474 0.66 0.999966
Target:  5'- -cGCAGCAUcgCGCCaGCAAUUUGu- -3'
miRNA:   3'- gcCGUUGUAuaGUGGaUGUUGAAUgc -5'
22894 5' -45.4 NC_005137.2 + 47387 0.67 0.999938
Target:  5'- uGGCGGCAaucagCGCCUGuguCAacACUUGCGu -3'
miRNA:   3'- gCCGUUGUaua--GUGGAU---GU--UGAAUGC- -5'
22894 5' -45.4 NC_005137.2 + 72014 0.67 0.999938
Target:  5'- aGGCGGC---UCAUUUACAACUUGg- -3'
miRNA:   3'- gCCGUUGuauAGUGGAUGUUGAAUgc -5'
22894 5' -45.4 NC_005137.2 + 116541 0.68 0.999813
Target:  5'- cCGGCuaccuaaaaAGCAUA-CACCUGCAGCa---- -3'
miRNA:   3'- -GCCG---------UUGUAUaGUGGAUGUUGaaugc -5'
22894 5' -45.4 NC_005137.2 + 12072 0.68 0.999759
Target:  5'- uCGGCAAuCAcGUCGCCgaccgcaagUGCGAgUUGCGc -3'
miRNA:   3'- -GCCGUU-GUaUAGUGG---------AUGUUgAAUGC- -5'
22894 5' -45.4 NC_005137.2 + 79699 0.68 0.99969
Target:  5'- aCGGCGACGUGUUugauuuGCCgUACAuACggGCGc -3'
miRNA:   3'- -GCCGUUGUAUAG------UGG-AUGU-UGaaUGC- -5'
22894 5' -45.4 NC_005137.2 + 80266 0.68 0.999503
Target:  5'- uGGCAacgcggGCAUGUCGCguUUGCAacgcaaGCUUACGc -3'
miRNA:   3'- gCCGU------UGUAUAGUG--GAUGU------UGAAUGC- -5'
22894 5' -45.4 NC_005137.2 + 35105 0.69 0.999376
Target:  5'- uGGCAACGguacgGUCACC-GCGACgcACc -3'
miRNA:   3'- gCCGUUGUa----UAGUGGaUGUUGaaUGc -5'
22894 5' -45.4 NC_005137.2 + 118940 0.7 0.99745
Target:  5'- uCGGCGACGUgAUUGCCgacCGACUgGCGu -3'
miRNA:   3'- -GCCGUUGUA-UAGUGGau-GUUGAaUGC- -5'
22894 5' -45.4 NC_005137.2 + 79162 0.7 0.99745
Target:  5'- uGGUAACGUA-CugCUGCGGCU-GCa -3'
miRNA:   3'- gCCGUUGUAUaGugGAUGUUGAaUGc -5'
22894 5' -45.4 NC_005137.2 + 41988 0.7 0.996953
Target:  5'- gCGGCAAUAgccaGUCGCCUAaaaaAACUgGCa -3'
miRNA:   3'- -GCCGUUGUa---UAGUGGAUg---UUGAaUGc -5'
22894 5' -45.4 NC_005137.2 + 21243 0.7 0.996953
Target:  5'- gGGCcGCGUGUCACCaa-AACggUGCGa -3'
miRNA:   3'- gCCGuUGUAUAGUGGaugUUGa-AUGC- -5'
22894 5' -45.4 NC_005137.2 + 31830 0.71 0.995719
Target:  5'- gCGGCAACGUugaggGUCACCgggccgaggACGACUgugccaugaugaUGCGa -3'
miRNA:   3'- -GCCGUUGUA-----UAGUGGa--------UGUUGA------------AUGC- -5'
22894 5' -45.4 NC_005137.2 + 69843 0.72 0.990796
Target:  5'- aCGGCAaacuguACAcggcAUCACCaGCAAUUUGCGa -3'
miRNA:   3'- -GCCGU------UGUa---UAGUGGaUGUUGAAUGC- -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.