meme.ino_up800.tcm

来自「EM算法的改进」· TCM 代码 · 共 377 行 · 第 1/2 页

TCM
377 行
字号
12
 0.357143  0.571429  0.071429  0.000000  0.071429  0.428571  0.142857  0.357143  0.142857  0.428571  0.000000  0.428571 ----------------------------------------------------------------------------------------------------------------------------------------------------------------	Motif 1 regular expression--------------------------------------------------------------------------------TTCACATG[CG][CA][AGC][CA][CA][CT][CT]--------------------------------------------------------------------------------Time 19.50 secs.****************************************************************************************************************************************************************MOTIF  2	width =   21   sites =   8   llr = 133   E-value = 1.8e+000********************************************************************************--------------------------------------------------------------------------------	Motif 2 Description--------------------------------------------------------------------------------Simplified        A  :3::5:53:44:5:::::11:pos.-specific     C  :149391:9:46193::93:8probability       G  a44111::14311:3a41643matrix            T  :33:1:48:3:3315:6::5:         bits    2.5 *              *                      2.3 *              *                      2.0 *  * *  *      * *                    1.8 *  * *  *    * * *  *Information      1.5 *  * *  *    * * *  *content          1.3 *  * *  *    * * *  *(24.0 bits)      1.0 *  * *  *  * * **** *                 0.8 * ** * **  * * **** *                 0.5 * ** * ***** ********                 0.3 ************ ********                 0.0 ---------------------Multilevel           GGCCACATCAACACTGTCGTCconsensus             AG C TA GCTT C G CGGsequence              TT      TG   G                                                ----------------------------------------------------------------------------------------------------------------------------------------------------------------	Motif 2 sites sorted by position p-value--------------------------------------------------------------------------------Sequence name            Strand  Start   P-value                    Site       -------------            ------  ----- ---------            ---------------------INO1                         -    366  8.00e-12 TGTCCATCAA GGGCACATCGGCACCGGCCTC ATCGTCTTCAFAS2                         +    713  2.52e-10 GGTTACACAA GACCACATCACCACTGTCGTG CTTTTCTAATOPI3                         -    501  1.97e-09 ATTATACGGC GGCGCCATCACTACTGTCGTC CCACCTGGGTFAS1                         +     53  1.67e-08 TGCAGGCACG GTTCACTACTCCCCTGGCCTC CAACAAACGAINO1                         +    706  1.97e-08 AGCAGAGAAA GCGCACCTCTGCGTTGGCGGC AATGTTAATTACC1                         -     53  2.31e-08 AGATTTTAAC GGGCGCAACGATTCGGTGGGC AGTGGAAATTOPI3                         +    292  9.79e-08 CCATTTGGTG GTCCCGTTCAACTCCGTCAGG TCTTCCACGTOPI3                         -    354  2.00e-07 CATTATCGTG GATCTCTTGGAGACGGTCGAC AAGAGCGATC----------------------------------------------------------------------------------------------------------------------------------------------------------------	Motif 2 block diagrams--------------------------------------------------------------------------------SEQUENCE NAME            POSITION P-VALUE  MOTIF DIAGRAM-------------            ----------------  -------------INO1                                2e-08  365_[-2]_319_[+2]_74FAS2                              2.5e-10  712_[+2]_67OPI3                                2e-07  291_[+2]_41_[-2]_126_[-2]_279FAS1                              1.7e-08  52_[+2]_727ACC1                              2.3e-08  52_[-2]_727----------------------------------------------------------------------------------------------------------------------------------------------------------------	Motif 2 in BLOCKS format--------------------------------------------------------------------------------BL   MOTIF 2 width=21 seqs=8INO1                     (  366) GGGCACATCGGCACCGGCCTC  1 FAS2                     (  713) GACCACATCACCACTGTCGTG  1 OPI3                     (  501) GGCGCCATCACTACTGTCGTC  1 FAS1                     (   53) GTTCACTACTCCCCTGGCCTC  1 INO1                     (  706) GCGCACCTCTGCGTTGGCGGC  1 ACC1                     (   53) GGGCGCAACGATTCGGTGGGC  1 OPI3                     (  292) GTCCCGTTCAACTCCGTCAGG  1 OPI3                     (  354) GATCTCTTGGAGACGGTCGAC  1 //----------------------------------------------------------------------------------------------------------------------------------------------------------------	Motif 2 position-specific scoring matrix--------------------------------------------------------------------------------log-odds matrix: alength= 4 w= 21 n= 5460 bayes= 10.7358 E= 1.8e+000   -965   -965    251   -965    -38    -49    109    -38   -965    109    109    -38   -965    232    -49   -965     62     51    -49   -137   -965    232    -49   -965     62    -49   -965     21    -38   -965   -965    121   -965    232    -49   -965     21   -965    109    -38     21    109     51   -965   -965    183    -49    -38     62    -49    -49    -38   -965    232   -965   -137   -965     51     51     62   -965   -965    251   -965   -965   -965    109     95   -965    232    -49   -965   -137     51    183   -965   -137   -965    109     62   -965    209     51   -965 ----------------------------------------------------------------------------------------------------------------------------------------------------------------	Motif 2 position-specific probability matrix--------------------------------------------------------------------------------letter-probability matrix: alength= 4 w= 21 nsites= 8 E= 1.8e+000  0.000000  0.000000  1.000000  0.000000  0.250000  0.125000  0.375000  0.250000  0.000000  0.375000  0.375000  0.250000  0.000000  0.875000  0.125000  0.000000  0.500000  0.250000  0.125000  0.125000  0.000000  0.875000  0.125000  0.000000  0.500000  0.125000  0.000000  0.375000  0.250000  0.000000  0.000000  0.750000  0.000000  0.875000  0.125000  0.000000  0.375000  0.000000  0.375000  0.250000  0.375000  0.375000  0.250000  0.000000  0.000000  0.625000  0.125000  0.250000  0.500000  0.125000  0.125000  0.250000  0.000000  0.875000  0.000000  0.125000  0.000000  0.250000  0.250000  0.500000  0.000000  0.000000  1.000000  0.000000  0.000000  0.000000  0.375000  0.625000  0.000000  0.875000  0.125000  0.000000  0.125000  0.250000  0.625000  0.000000  0.125000  0.000000  0.375000  0.500000  0.000000  0.750000  0.250000  0.000000 ----------------------------------------------------------------------------------------------------------------------------------------------------------------	Motif 2 regular expression--------------------------------------------------------------------------------G[GAT][CGT]C[AC]C[AT][TA]C[AGT][ACG][CT][AT]C[TCG]G[TG]C[GC][TG][CG]--------------------------------------------------------------------------------Time 37.59 secs.****************************************************************************************************************************************************************SUMMARY OF MOTIFS********************************************************************************--------------------------------------------------------------------------------	Combined block diagrams: non-overlapping sites with p-value < 0.0001--------------------------------------------------------------------------------SEQUENCE NAME            COMBINED P-VALUE  MOTIF DIAGRAM-------------            ----------------  -------------CHO1                             4.73e-04  162_[+1(3.42e-06)]_351_[+1(9.70e-05)]_67_[+1(2.03e-07)]_14_[+1(7.59e-07)]_146CHO2                             5.16e-03  353_[+1(5.33e-07)]_109_[-1(7.37e-06)]_308FAS1                             5.80e-09  52_[+2(1.67e-08)]_21_[+1(6.14e-09)]_691FAS2                             2.67e-09  125_[-2(6.68e-05)]_420_[+1(1.80e-07)]_131_[+2(2.52e-10)]_67ACC1                             4.42e-07  52_[-2(2.31e-08)]_9_[+1(4.22e-07)]_54_[+2(6.68e-05)]_628INO1                             1.51e-11  365_[-2(8.00e-12)]_160_[-1(2.76e-06)]_6_[-1(8.34e-07)]_34_[-1(2.63e-08)]_55_[+1(1.10e-06)]_4_[+2(1.97e-08)]_74OPI3                             9.86e-08  173_[+2(4.19e-05)]_97_[+2(9.79e-08)]_41_[-2(2.00e-07)]_69_[+2(4.54e-05)]_36_[-2(1.97e-09)]_60_[-1(1.84e-06)]_40_[+1(1.02e-06)]_149--------------------------------------------------------------------------------****************************************************************************************************************************************************************Stopped because nmotifs = 2 reached.********************************************************************************CPU: chromo.imb.uq.edu.au********************************************************************************
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meme.ino_up800.tcm - 源码说明

本页面展示了「EM算法的改进」中的 meme.ino_up800.tcm 源码文件，采用 TCM 编程语言编写，共 377 行代码。您可以在线阅读完整代码内容，也可以返回资源详情页下载完整源码包进行本地学习和开发。

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