genome.fa.s3.2.7.7.80.10.50.1000.124.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: Chr03 ID=Chr03-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Length:  45765648

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   

This is table  124  of  150  ( 17918 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)
37716876--37716941	25	2.7	24	82	13	73	0	21	0	78	0.75
37716909--37716946	7	5.4	7	87	9	51	0	26	0	73	0.83
37716880--37716946	32	2.0	34	83	11	86	0	23	0	76	0.79
37717432--37717494	29	2.1	31	82	5	76	38	6	23	31	1.80
37717462--37717554	30	3.2	30	76	10	93	46	4	18	31	1.68
37719872--37719964	25	3.7	25	76	11	100	53	9	6	30	1.58
37719909--37719981	25	3.0	23	75	13	65	49	9	10	30	1.70
37729877--37729913	13	2.8	14	88	12	60	5	16	5	72	1.21
37730742--37730783	2	21.5	2	80	4	50	47	2	4	45	1.36
37733628--37733702	19	3.8	19	91	6	114	36	18	10	34	1.86
37734045--37734411	131	2.8	132	87	3	483	28	25	14	31	1.95
37734075--37734403	44	7.5	44	86	4	416	29	24	15	31	1.95
37734423--37734566	44	3.3	44	69	11	123	22	23	29	25	1.99
37734382--37734612	88	2.6	88	85	1	302	25	25	24	25	2.00
37734074--37734491	132	3.2	132	81	3	342	27	24	17	30	1.97
37734450--37734587	45	3.1	44	71	8	118	22	24	24	28	2.00
37734382--37734594	44	4.8	44	69	7	119	23	25	23	27	2.00
37742987--37743061	19	3.8	19	91	6	114	36	18	10	34	1.86
37744664--37744735	19	3.6	19	85	9	83	56	6	0	36	1.26
37744697--37744761	28	2.4	27	76	2	67	49	4	0	46	1.22
37746223--37746267	20	2.2	21	84	11	58	53	0	2	44	1.13
37746400--37746444	18	2.4	19	85	11	65	22	2	6	68	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37748966--37749013	20	2.4	20	100	0	96	29	12	6	52	1.63
37754480--37754566	45	2.0	44	88	2	129	51	2	2	43	1.26
37757515--37757577	32	2.0	32	100	0	126	19	9	23	47	1.78
37759701--37759963	131	2.0	131	99	0	517	22	20	28	28	1.98
37761669--37761741	33	2.1	34	82	9	87	58	9	9	21	1.58
37761855--37761966	58	1.9	58	83	3	145	43	8	19	27	1.81
37762110--37762187	18	4.4	17	77	11	68	44	10	12	32	1.76
37762110--37762154	16	2.7	16	86	6	54	48	6	11	33	1.65
37762113--37762242	17	7.5	17	71	14	79	47	13	10	29	1.74
37762095--37762186	34	2.6	35	81	8	107	42	9	15	32	1.79
37762428--37762469	19	2.3	19	84	8	52	47	14	9	28	1.75
37762287--37762600	163	1.9	164	86	3	445	37	15	13	33	1.86
37762926--37762969	23	2.0	23	91	8	74	0	20	0	79	0.73
37763116--37763148	17	1.9	17	93	0	57	0	9	6	84	0.76
37763286--37763347	15	3.9	15	78	15	63	0	25	1	72	0.94
37763847--37763994	30	5.0	29	81	3	179	40	4	22	33	1.73
37764158--37764679	76	6.8	77	85	5	582	33	22	17	26	1.96
37765229--37765304	19	4.2	17	73	18	64	39	11	10	38	1.77
37765267--37765303	17	2.3	17	86	9	51	43	10	5	40	1.63
37765284--37765324	20	2.0	20	86	9	57	39	7	2	51	1.43
37765233--37765311	39	2.1	38	86	6	108	40	11	11	36	1.77
37765389--37765487	18	5.5	18	67	9	67	42	8	16	33	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37765350--37765517	36	4.7	36	77	7	139	41	8	16	33	1.79
37765714--37765766	18	3.0	18	69	5	54	45	13	13	28	1.80
37765751--37765800	26	1.9	26	87	0	73	48	8	10	34	1.66
37765791--37765839	17	2.8	17	73	14	55	44	8	16	30	1.76
37766388--37766416	15	1.9	15	100	0	58	6	20	48	24	1.74
37766513--37766556	14	3.1	14	93	0	70	4	20	47	27	1.69
37767225--37767322	29	3.3	29	83	10	119	36	1	25	36	1.63
37767646--37768220	76	7.6	77	85	7	701	33	19	17	28	1.95
37767646--37768220	299	1.9	298	90	6	910	33	19	17	28	1.95
37769103--37769166	12	5.5	11	79	17	58	3	4	6	85	0.80
37769124--37769166	9	4.6	9	83	11	50	0	2	9	88	0.60
37773255--37773301	5	9.2	5	80	13	51	23	25	14	36	1.93
37780905--37780991	18	4.9	17	65	17	52	45	9	12	32	1.74
37783345--37783373	15	1.9	15	100	0	58	6	20	48	24	1.74
37783470--37783513	14	3.1	14	93	0	70	4	20	47	27	1.69
37783535--37783564	13	2.4	12	89	10	51	16	0	0	83	0.65
37784256--37784353	29	3.3	29	78	16	112	35	2	27	34	1.69
37784554--37784818	75	3.4	77	81	11	313	36	18	16	28	1.92
37785696--37785743	9	5.6	9	82	9	64	0	2	8	89	0.56
37785690--37785744	15	3.6	14	83	13	65	0	3	7	89	0.60
37785690--37785746	25	2.3	25	93	0	96	0	3	8	87	0.64
37785702--37785757	25	2.3	25	87	3	78	0	5	8	85	0.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37785690--37785744	1	55.0	1	77	0	56	0	3	7	89	0.60
37789565--37789589	4	6.2	4	100	0	50	52	0	24	24	1.48
37791283--37791355	33	2.1	34	82	9	87	58	9	9	21	1.58
37791733--37791810	18	4.4	17	77	11	68	44	10	12	32	1.76
37791733--37791777	16	2.7	16	86	6	54	48	6	11	33	1.65
37791736--37791865	17	7.5	17	71	14	79	47	13	10	29	1.74
37791718--37791809	34	2.6	35	81	8	107	42	9	15	32	1.79
37792099--37792140	17	2.3	19	88	8	61	47	14	7	30	1.71
37792604--37792649	24	2.0	24	91	8	78	0	19	0	80	0.71
37792611--37792649	12	3.4	11	82	10	51	0	17	0	82	0.68
37792796--37792828	17	1.9	17	93	0	57	0	9	6	84	0.76
37792974--37793043	36	1.9	36	82	8	88	0	32	4	62	1.14
37793513--37793672	30	5.4	30	81	4	173	38	5	25	31	1.77
37793513--37793672	59	2.7	58	82	2	194	38	5	25	31	1.77
37794178--37794214	2	18.5	2	100	0	74	48	0	0	51	1.00
37794306--37794398	3	31.0	3	69	4	53	54	5	3	36	1.39
37795698--37795722	12	2.1	12	100	0	50	76	8	8	8	1.18
37798720--37798784	29	2.2	30	97	2	123	40	18	0	41	1.51
37799022--37799046	5	5.0	5	100	0	50	80	20	0	0	0.72
37805412--37805485	21	3.5	21	94	0	130	31	36	8	24	1.84
37805794--37805829	10	3.4	10	92	7	54	2	8	2	86	0.77
37811298--37811337	20	2.0	20	95	0	71	32	10	10	47	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37811330--37811414	33	2.6	32	76	9	91	27	7	17	48	1.73
37812775--37812843	35	1.9	36	94	2	122	52	20	2	24	1.60
37814854--37814935	36	2.3	36	86	0	119	48	3	7	40	1.48
37818198--37818231	5	6.8	5	100	0	68	82	0	0	17	0.67
37819880--37820015	51	2.7	51	94	0	227	30	16	27	26	1.97
37822136--37822214	36	2.1	38	81	9	101	48	0	22	29	1.51
37822406--37822490	21	4.1	21	83	1	91	17	24	24	32	1.97
37826549--37826590	21	2.0	21	90	0	66	47	0	7	45	1.30
37827085--37827288	58	3.6	56	84	6	227	50	16	8	24	1.73
37827195--37827283	21	4.6	20	64	18	53	51	13	6	28	1.66
37830117--37830175	26	2.2	26	88	8	84	32	10	5	52	1.57
37832188--37832236	23	2.1	22	82	14	55	26	4	16	53	1.61
37832484--37832508	13	1.9	13	100	0	50	24	0	4	72	1.02
37837309--37837335	8	3.4	8	100	0	54	44	0	0	55	0.99
37855928--37855998	28	2.6	27	88	6	106	26	28	12	32	1.93
37860671--37860731	21	3.0	20	76	11	61	40	4	9	44	1.59
37862574--37862615	22	2.0	22	85	4	59	50	0	2	47	1.14
37878499--37878536	3	12.7	3	100	0	76	31	0	0	68	0.90
37880488--37880545	14	4.3	13	81	16	57	60	0	39	0	0.97
37880508--37880546	3	13.3	3	89	5	62	64	0	35	0	0.94
37880500--37880546	20	2.3	20	92	0	76	61	0	38	0	0.96
37880710--37880770	19	3.2	19	79	9	70	34	0	14	50	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
37880718--37880880	20	7.9	20	70	21	97	32	0	13	53	1.40
37880715--37880880	41	4.1	40	73	17	162	33	0	13	53	1.40
37880717--37880880	19	8.0	21	70	22	98	32	0	13	54	1.39
37880833--37881041	49	4.2	49	86	3	294	30	0	13	55	1.45
37880978--37881035	22	2.9	19	73	14	62	32	1	12	53	1.48
37880833--37881041	97	2.1	99	93	3	359	30	0	13	55	1.45
37880978--37881055	38	2.0	40	85	7	106	30	2	11	55	1.49
37884242--37884295	6	9.0	6	93	0	90	0	37	31	31	1.58
37886070--37886141	38	1.9	36	91	5	117	38	2	4	54	1.34
37886358--37886677	19	17.5	19	64	23	111	54	12	0	31	1.43

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