genome.fa.s4.2.7.7.80.10.50.1000.116.html

Tandem Repeats Finder Program written by:

Gary Benson
Program in Bioinformatics
Boston University
Version 4.09

Please cite:
G. Benson,
"Tandem repeats finder: a program to analyze DNA sequences"
Nucleic Acid Research(1999)
Vol. 27, No. 2, pp. 573-580.

Sequence: Chr04 ID=Chr04-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  62178258

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198   

This is table  116  of  198  ( 23681 repeats found )

Click on indices to view alignment

Table Explanation

Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37003177--37003220	19	2.3	19	84	4	52	36	13	6	43	1.71
37004603--37004724	41	2.9	41	83	2	154	37	18	17	27	1.92
37004928--37005010	6	13.8	6	85	0	112	32	9	34	22	1.87
37004926--37005014	18	4.9	18	92	0	124	32	8	33	24	1.87
37021528--37021589	29	2.1	29	100	0	124	16	12	20	50	1.78
37033977--37034020	17	2.4	18	81	7	54	18	45	27	9	1.79
37036027--37036449	138	3.1	138	91	2	686	45	5	7	41	1.55
37036124--37036340	71	3.1	71	64	16	180	48	4	8	38	1.54
37036428--37036572	75	1.9	75	92	0	245	29	13	9	47	1.74
37047514--37047562	10	4.6	11	73	16	50	53	0	2	44	1.12
37047514--37047562	22	2.3	20	83	16	64	53	0	2	44	1.12
37047634--37047695	30	2.1	30	84	6	81	50	8	8	33	1.61
37067906--37067955	26	1.9	26	87	0	73	36	14	22	28	1.92
37067906--37067962	26	2.2	26	83	0	69	36	12	19	31	1.89
37069125--37069197	27	2.6	29	84	4	96	30	21	27	20	1.98
37069111--37069205	27	3.5	25	75	15	82	35	18	24	21	1.95
37069321--37069593	27	10.2	27	85	3	347	23	16	20	39	1.92
37069338--37069593	53	4.8	54	86	3	324	23	16	20	39	1.91
37069338--37069593	80	3.2	80	86	1	345	23	16	20	39	1.91
37080527--37080653	56	2.2	57	84	1	157	48	7	17	25	1.74
37082075--37082113	20	2.0	19	85	5	51	56	2	0	41	1.13
37085858--37086205	42	8.3	42	85	2	378	23	16	21	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37085858--37086205	127	2.8	126	83	6	434	23	16	21	38	1.92
37087421--37087465	22	2.1	22	84	12	58	37	4	8	48	1.55
37087207--37087464	140	1.9	141	86	4	373	40	5	11	42	1.63
37088015--37088060	16	2.8	17	83	6	58	19	8	2	69	1.25
37090133--37090166	17	1.9	18	88	5	52	14	8	11	64	1.49
37099225--37099272	24	2.0	24	100	0	96	41	8	12	37	1.73
37099849--37099893	10	4.6	10	78	15	58	82	6	0	11	0.84
37099850--37099893	18	2.3	20	81	18	58	81	6	0	11	0.86
37100300--37100562	42	6.3	42	84	5	343	21	18	23	36	1.95
37102230--37102500	69	3.9	69	76	10	234	38	24	20	16	1.92
37102406--37102579	69	2.5	69	77	1	170	35	22	24	17	1.95
37102679--37102855	58	3.1	58	90	0	275	40	15	12	31	1.85
37108182--37108238	25	2.3	25	100	0	114	43	14	14	28	1.83
37112310--37112395	22	3.9	22	87	0	127	27	15	26	30	1.96
37118295--37118360	33	2.0	33	100	0	132	21	18	33	27	1.96
37119723--37119750	13	2.2	13	100	0	56	21	14	7	57	1.61
37125380--37125548	42	4.0	42	85	1	196	24	18	29	27	1.98
37125380--37125568	84	2.3	84	81	4	204	23	18	30	27	1.98
37125410--37125575	42	4.0	42	85	3	185	21	16	31	30	1.95
37125791--37125849	29	2.0	30	83	9	77	35	3	8	52	1.49
37125800--37125860	30	2.1	29	82	14	72	34	3	6	55	1.42
37127647--37127688	22	1.9	22	85	0	57	38	9	0	52	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37128524--37128573	18	2.7	19	90	6	84	72	10	0	18	1.12
37137092--37137143	20	2.6	19	76	11	50	44	1	19	34	1.62
37137521--37137562	20	2.1	20	86	0	57	38	7	14	40	1.73
37137853--37137912	22	2.7	23	75	19	63	21	25	16	36	1.94
37138092--37138132	20	2.0	21	90	4	66	36	4	19	39	1.73
37138097--37138144	20	2.4	20	85	0	60	33	10	16	39	1.83
37139079--37139103	13	1.9	13	100	0	50	48	0	16	36	1.46
37144545--37144596	20	2.6	19	76	11	50	44	1	19	34	1.62
37145310--37145397	22	3.9	22	76	19	83	20	25	20	34	1.97
37145310--37145408	45	2.2	46	87	3	137	20	25	19	35	1.95
37145310--37145408	23	4.3	22	75	15	85	20	25	19	35	1.95
37145593--37145664	20	3.6	20	74	7	74	36	9	16	37	1.82
37159706--37159748	2	21.5	2	100	0	86	51	0	0	48	1.00
37167020--37167122	45	2.3	45	86	0	143	15	18	19	46	1.84
37170777--37170847	25	2.8	25	75	14	74	23	22	22	30	1.99
37187601--37188208	44	13.8	44	65	11	224	30	20	25	24	1.98
37187509--37188289	132	5.9	132	96	0	1393	30	20	25	24	1.99
37189681--37189743	31	2.0	31	81	6	72	42	9	1	46	1.46
37208667--37208889	111	2.0	110	94	0	392	30	24	13	30	1.94
37209097--37209208	61	1.9	58	85	5	152	48	8	3	40	1.50
37219741--37219996	130	2.0	130	90	0	404	37	10	15	36	1.81
37221311--37221368	28	2.1	28	96	0	107	34	8	3	53	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37224861--37225047	54	3.5	54	76	5	198	34	13	21	29	1.92
37224861--37225051	27	7.1	27	77	3	161	35	13	21	29	1.92
37240688--37240732	22	2.0	22	83	12	56	37	6	15	40	1.74
37254821--37254993	85	2.0	84	98	1	337	28	21	15	34	1.94
37255129--37255195	34	2.0	34	96	0	125	43	26	4	25	1.74
37262634--37262684	24	2.1	24	100	0	102	33	13	23	29	1.93
37265911--37265972	9	6.7	9	80	7	52	37	3	35	24	1.72
37265937--37265974	18	2.1	19	90	5	60	36	0	34	28	1.58
37278723--37278773	25	2.0	26	85	11	70	45	11	5	37	1.65
37278862--37278915	21	2.5	22	82	11	67	46	7	0	46	1.31
37278879--37278911	11	3.1	11	82	8	50	51	0	0	48	1.00
37279156--37279190	18	1.9	18	88	0	52	17	28	31	22	1.96
37285755--37285788	11	2.8	12	86	13	52	67	5	0	26	1.13
37289502--37289538	5	7.6	5	87	6	58	75	2	0	21	0.92
37289502--37289538	15	2.6	14	91	8	65	75	2	0	21	0.92
37300733--37300801	29	2.3	29	85	5	84	47	13	14	24	1.79
37310890--37310916	14	1.9	14	100	0	54	44	22	0	33	1.53
37318604--37318688	35	2.4	35	94	0	143	37	12	7	42	1.71
37319420--37319454	16	2.3	15	90	5	52	74	2	14	8	1.17
37319437--37319484	23	2.2	21	81	7	51	70	2	14	12	1.25
37320739--37320984	44	5.6	44	88	0	307	29	19	26	24	1.99
37320739--37320982	132	1.8	132	85	3	339	29	20	26	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37321423--37321795	50	7.5	50	73	8	294	33	24	18	23	1.96
37321423--37321804	100	3.8	99	87	3	505	34	24	18	23	1.96
37326568--37326737	90	1.9	90	95	2	306	36	11	18	32	1.88
37341882--37341925	21	2.0	23	86	8	65	54	2	4	38	1.33
37342775--37342818	22	2.0	23	86	4	63	65	2	0	31	1.05
37342775--37342826	14	3.9	14	77	7	63	65	1	0	32	1.04
37343262--37343314	20	2.7	20	84	0	61	54	5	5	33	1.47
37347734--37348078	54	6.4	54	78	2	309	31	17	13	37	1.89
37347734--37348097	162	2.2	162	79	1	408	31	16	13	38	1.88
37351026--37351053	14	2.0	14	100	0	56	28	14	14	42	1.84
37357034--37357120	43	2.0	43	88	4	131	32	17	16	34	1.92
37359571--37359617	8	5.2	9	78	16	53	65	0	0	34	0.93
37359571--37359610	20	2.1	19	90	4	62	67	0	0	32	0.91
37359740--37359777	12	3.2	12	89	10	60	23	5	2	68	1.23
37359751--37359796	20	2.2	20	84	7	56	26	2	4	67	1.21
37362325--37362366	3	14.0	3	100	0	84	33	0	0	66	0.92
37362700--37362734	6	5.8	6	100	0	70	51	14	0	34	1.42
37362859--37362959	46	2.2	46	82	3	132	36	13	3	45	1.63
37367989--37368042	6	8.7	6	80	15	56	83	0	12	3	0.78
37367989--37368041	11	4.8	11	82	13	56	83	0	13	3	0.79
37368408--37368616	108	2.0	105	81	10	252	25	16	9	48	1.76
37369390--37369470	40	2.0	40	100	0	162	37	25	12	24	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37369541--37369769	89	2.6	89	87	0	314	32	25	20	20	1.98
37370258--37370457	41	4.8	41	85	3	247	28	21	21	29	1.98
37370224--37370456	41	5.5	42	80	7	188	30	19	22	27	1.98
37372192--37372216	3	8.3	3	100	0	50	32	0	0	68	0.90
37372679--37372780	46	2.2	46	82	3	125	38	11	1	48	1.51
37372656--37372786	42	3.1	41	73	11	113	35	9	3	51	1.54
37372815--37372840	4	6.5	4	100	0	52	26	0	0	73	0.84
37377001--37377035	2	17.5	2	100	0	70	0	48	0	51	1.00
37380274--37380311	19	2.0	19	89	0	58	68	0	31	0	0.90
37381532--37381600	31	2.2	31	90	7	113	40	4	13	42	1.63

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   92   93   94   95   96   
          97   98   99   100   101   102   103   104   105   106   107   108   109   110   111   112   
          113   114   115   116   117   118   119   120   121   122   123   124   125   126   127   128   
          129   130   131   132   133   134   135   136   137   138   139   140   141   142   143   144   
          145   146   147   148   149   150   151   152   153   154   155   156   157   158   159   160   
          161   162   163   164   165   166   167   168   169   170   171   172   173   174   175   176   
          177   178   179   180   181   182   183   184   185   186   187   188   189   190   191   192   
          193   194   195   196   197   198