genome.fa.s3.2.7.7.80.10.50.1000.144.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  144  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)
43449508--43449543	15	2.4	15	95	0	63	19	13	16	50	1.79
43451632--43451660	2	14.5	2	100	0	58	51	0	0	48	1.00
43457209--43457236	13	2.2	13	100	0	56	53	7	7	32	1.55
43465806--43465870	32	2.0	32	100	0	130	24	24	13	36	1.92
43467440--43467505	32	2.1	32	97	0	123	28	18	18	34	1.94
43468246--43468278	17	1.9	17	93	0	57	87	3	0	9	0.63
43468246--43468279	8	4.1	8	88	3	50	85	2	0	11	0.71
43468837--43468880	21	2.2	20	84	8	54	54	11	22	11	1.68
43469139--43469351	77	2.8	77	87	5	297	27	17	20	33	1.96
43469455--43470443	76	13.0	77	80	6	1016	27	16	20	34	1.95
43469455--43470443	154	6.5	153	84	5	1207	27	16	20	34	1.95
43470601--43470667	30	2.2	30	91	0	116	56	8	10	23	1.61
43471785--43471829	13	3.5	13	84	0	54	60	2	2	35	1.22
43475832--43475870	17	2.3	17	86	0	51	56	0	2	41	1.13
43476561--43476604	22	2.0	22	90	0	70	27	22	4	45	1.72
43477919--43477949	11	2.8	11	95	0	53	0	32	54	12	1.38
43478118--43478157	16	2.5	16	91	0	62	47	2	7	42	1.45
43478090--43478142	22	2.4	22	87	0	70	52	1	1	43	1.23
43478167--43478346	68	2.9	61	89	8	265	40	5	9	45	1.58
43478230--43478257	9	3.1	9	100	0	56	32	0	10	57	1.33
43478146--43478316	68	2.5	68	97	1	319	39	4	8	47	1.54
43478789--43478847	26	2.3	26	85	5	75	35	1	3	59	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43482991--43483032	7	5.9	7	88	2	57	88	7	0	4	0.64
43482991--43483034	15	3.0	15	86	6	63	86	9	0	4	0.70
43482991--43483032	21	2.0	22	95	4	77	88	7	0	4	0.64
43483465--43483494	15	2.0	15	93	0	51	83	0	13	3	0.77
43483476--43483513	18	2.1	18	90	0	58	84	2	13	0	0.73
43484608--43484939	50	6.7	49	76	5	236	33	20	20	25	1.97
43484611--43484896	100	2.9	100	82	4	303	34	21	18	25	1.96
43484664--43485011	50	7.0	50	78	2	306	34	21	17	26	1.95
43484666--43485011	150	2.3	150	84	4	455	34	21	17	26	1.95
43485029--43485365	44	7.8	44	76	8	262	30	19	21	27	1.98
43485027--43485366	88	3.9	88	78	8	331	30	20	21	27	1.98
43485119--43485365	128	1.9	129	81	8	299	28	20	22	28	1.98
43486802--43486890	26	3.4	26	81	7	92	32	2	3	61	1.24
43491125--43491169	13	3.5	13	84	0	54	60	2	2	35	1.22
43492504--43492536	17	1.9	17	88	11	50	39	3	0	57	1.14
43504928--43505172	44	5.6	44	78	7	191	27	22	23	26	2.00
43504924--43505305	44	8.8	45	71	12	181	29	20	21	27	1.98
43504968--43505219	133	1.9	134	83	4	330	30	20	21	27	1.98
43505349--43505511	44	3.7	44	97	0	290	36	19	20	23	1.95
43508267--43508320	28	1.9	29	82	14	69	46	3	3	46	1.38
43510017--43510073	21	2.8	20	78	19	64	22	5	33	38	1.77
43512511--43512555	22	2.0	23	95	4	83	26	22	4	46	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43513975--43514045	27	2.6	27	77	0	79	25	32	30	11	1.91
43514072--43514123	3	17.3	3	91	0	86	61	0	38	0	0.96
43519910--43519973	7	9.3	7	75	20	55	71	0	6	21	1.07
43519917--43519976	12	5.2	12	75	20	58	73	0	5	21	1.02
43528109--43528843	148	4.9	147	79	10	764	29	10	7	52	1.63
43529171--43529222	24	2.2	24	82	3	70	0	40	0	59	0.97
43531905--43531953	23	2.2	22	81	3	53	44	2	2	51	1.24
43543503--43543537	13	2.7	13	90	0	52	62	0	0	37	0.95
43544223--43544251	5	5.8	5	100	0	58	37	0	0	62	0.96
43545532--43545560	13	2.1	14	93	6	51	51	0	17	31	1.45
43548038--43548082	22	2.0	23	95	4	83	26	22	4	46	1.70
43552031--43552076	15	3.3	15	80	19	55	71	0	0	28	0.86
43557596--43557768	86	2.0	86	100	0	346	27	19	13	39	1.89
43560370--43560414	20	2.2	21	84	7	58	57	4	0	37	1.19
43560629--43560680	22	2.3	23	83	9	63	42	1	3	51	1.31
43560645--43560688	23	2.0	22	81	4	52	38	2	4	54	1.33
43568976--43569025	6	8.2	6	93	4	82	18	0	46	36	1.49
43570856--43570894	20	2.0	20	85	10	53	53	7	2	35	1.43
43575932--43575992	5	12.2	5	96	0	86	34	0	6	59	1.24
43576680--43576735	21	2.7	21	91	0	85	30	35	8	25	1.86
43577073--43577114	2	21.0	2	95	0	75	47	0	2	50	1.14
43577258--43577297	13	3.1	13	77	0	53	30	10	27	32	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43589058--43589112	27	2.0	27	96	0	101	29	23	7	40	1.81
43591596--43591773	96	1.9	95	86	1	257	37	8	16	36	1.81
43591857--43591904	21	2.3	21	100	0	96	33	4	14	47	1.63
43594538--43594575	19	2.0	19	90	10	60	68	2	2	26	1.16
43594703--43594744	20	2.1	20	86	0	57	47	0	7	45	1.30
43597619--43597789	72	2.4	72	81	2	191	26	23	23	26	2.00
43597888--43598031	75	1.9	77	84	5	195	19	24	25	30	1.98
43597995--43598068	38	1.9	39	88	2	114	18	22	25	32	1.97
43598520--43598568	20	2.5	20	83	9	64	14	0	36	48	1.44
43598700--43598751	14	3.8	13	85	12	68	21	3	26	48	1.67
43598699--43598766	21	3.3	20	78	8	64	20	2	30	45	1.66
43602008--43602362	9	39.6	9	67	16	159	44	18	1	35	1.60
43602083--43602309	16	13.8	16	69	18	103	45	17	0	36	1.55
43602078--43602208	16	7.5	18	78	12	105	45	17	0	36	1.54
43602251--43602305	19	3.1	19	84	7	62	47	18	1	32	1.59
43602071--43602224	25	6.3	25	68	15	97	44	16	1	37	1.56
43607860--43607900	21	2.0	21	85	0	55	36	19	41	2	1.65
43607865--43607951	21	4.0	21	73	8	75	37	16	39	6	1.75
43607907--43607946	12	3.3	12	92	0	62	42	17	37	2	1.63
43608380--43608630	42	6.0	42	82	6	278	27	21	18	32	1.97
43612431--43612485	27	2.0	27	100	0	110	29	25	7	38	1.83
43614922--43615117	96	2.1	96	86	0	277	37	8	15	38	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43617784--43617914	54	2.5	53	84	5	174	52	16	7	23	1.69
43619526--43619619	47	2.0	47	93	0	161	36	23	12	27	1.91
43623763--43623836	29	2.5	29	77	4	76	27	14	12	45	1.80
43636989--43637039	13	3.9	13	80	7	59	37	25	5	31	1.80
43645448--43645485	20	2.0	20	89	5	60	47	10	0	42	1.38
43646382--43646437	29	1.9	29	88	0	85	32	19	19	28	1.97
43653181--43653208	2	14.0	2	100	0	56	50	0	0	50	1.00
43653547--43653595	22	2.2	22	85	0	62	57	6	0	36	1.24
43659311--43659365	20	2.8	20	77	8	58	30	27	12	29	1.93
43664767--43664815	24	2.0	24	84	0	62	36	26	16	20	1.93
43667272--43667476	83	2.5	83	83	3	243	29	9	18	42	1.82
43667940--43667978	5	7.8	5	88	0	60	0	23	0	76	0.78
43668789--43668842	2	27.0	2	100	0	108	50	0	0	50	1.00
43680720--43680753	17	1.9	18	88	5	52	41	2	2	52	1.31
43693737--43693767	2	16.0	2	93	6	55	48	0	0	51	1.00
43695507--43695536	11	2.6	12	89	10	53	76	0	0	23	0.78
43695681--43695747	11	6.4	11	70	20	54	55	1	1	41	1.18
43695673--43695777	40	2.6	41	86	3	158	59	0	1	38	1.15
43695733--43695791	30	2.1	29	90	9	95	67	0	1	30	1.00
43709032--43709056	12	2.1	12	100	0	50	48	0	8	44	1.32
43712257--43712295	9	4.3	10	81	18	50	7	30	0	61	1.24
43738231--43738563	144	2.3	141	84	3	418	27	20	19	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43741858--43741939	3	26.7	3	92	4	128	30	3	0	65	1.09
43742279--43742320	22	2.0	20	86	9	57	35	2	4	57	1.33
43746060--43746243	37	5.0	37	92	1	300	25	22	15	36	1.94
43746206--43746376	46	3.6	46	86	9	243	29	22	14	33	1.93
43746249--43746362	52	2.2	52	87	4	158	28	22	12	35	1.91
43748869--43748897	9	3.3	9	90	9	51	82	6	0	10	0.83
43748901--43748951	6	7.7	7	82	14	56	84	0	13	1	0.71
43748910--43748954	6	7.3	6	90	5	72	84	0	13	2	0.72
43748902--43748951	13	3.8	13	89	7	75	84	0	14	2	0.72
43749281--43749321	20	2.0	20	85	0	55	68	0	19	12	1.21

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