genome.fa.s3.2.7.7.80.10.50.1000.94.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  94  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)
29505148--29505190	18	2.4	18	80	7	52	46	2	0	51	1.13
29509775--29509809	14	2.5	14	100	0	70	37	25	5	31	1.80
29510500--29510721	63	3.6	62	85	7	292	45	15	4	34	1.68
29514616--29514653	17	2.2	18	85	4	51	13	18	44	23	1.85
29518126--29518368	40	6.1	40	84	5	296	18	25	20	35	1.95
29518126--29518342	119	1.8	119	87	4	321	18	26	20	34	1.96
29518126--29518368	119	2.0	119	83	4	303	18	25	20	35	1.95
29518126--29518353	79	2.9	77	85	6	305	18	25	20	35	1.95
29519440--29519592	39	3.9	40	84	5	186	18	32	19	28	1.96
29519440--29519592	78	1.9	80	85	2	211	18	32	19	28	1.96
29523824--29523861	16	2.4	16	90	0	58	31	0	34	34	1.58
29523840--29523949	45	2.6	43	80	9	129	33	5	29	31	1.80
29524084--29524125	15	2.9	15	82	10	52	52	0	0	47	1.00
29541714--29541767	26	2.1	26	100	0	108	35	7	11	46	1.67
29546357--29546425	32	2.2	31	79	5	77	28	4	2	63	1.28
29548770--29548800	14	2.2	14	94	0	53	41	19	3	35	1.67
29551128--29551171	14	2.9	15	80	10	54	31	31	15	20	1.94
29561929--29561996	31	2.1	34	89	8	106	38	2	2	55	1.30
29564179--29564221	18	2.4	18	88	0	59	18	27	9	44	1.80
29564417--29564459	21	2.0	21	81	0	50	30	44	20	4	1.72
29567799--29568087	126	2.3	126	91	0	479	28	21	17	32	1.96
29568285--29568348	7	9.0	7	75	10	58	51	40	0	7	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29569782--29569806	13	1.9	13	100	0	50	32	4	24	40	1.73
29571450--29571552	41	2.5	41	87	3	136	27	18	27	27	1.98
29576258--29576291	8	4.2	8	88	0	50	70	0	2	26	1.01
29590939--29590967	12	2.3	13	94	5	51	20	6	6	65	1.40
29604317--29604352	17	2.1	17	100	0	72	22	5	0	72	1.05
29605098--29605162	32	2.1	32	97	2	123	30	9	12	47	1.72
29612938--29613093	21	7.3	21	73	2	114	15	21	16	46	1.83
29612937--29613095	42	3.7	42	81	3	174	15	21	16	46	1.84
29615544--29615614	26	2.8	26	79	10	83	33	21	28	16	1.95
29616066--29616110	10	4.4	10	83	5	54	42	13	0	44	1.43
29616066--29616110	21	2.2	20	84	4	54	42	13	0	44	1.43
29619411--29619446	15	2.3	16	90	9	65	19	11	36	33	1.87
29621048--29621082	18	1.9	18	94	0	61	14	17	2	65	1.38
29630149--29630264	50	2.3	50	92	0	187	26	19	31	21	1.97
29630620--29630656	12	3.2	12	77	14	51	43	0	16	40	1.48
29638452--29638714	30	8.6	30	85	6	278	43	15	7	33	1.74
29638449--29638691	90	2.6	92	84	5	312	42	15	7	34	1.75
29638574--29638703	34	4.0	34	75	11	112	44	14	5	35	1.68
29638992--29639039	21	2.3	21	79	10	55	33	16	2	47	1.58
29640650--29640731	41	2.0	41	97	0	155	30	7	13	48	1.69
29644402--29644442	19	2.2	19	90	0	64	36	4	14	43	1.67
29644480--29644560	41	2.0	41	95	0	144	29	8	14	46	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29647172--29647207	18	2.0	18	94	0	63	38	30	16	13	1.88
29649945--29650054	46	2.4	47	78	1	132	41	0	0	57	1.05
29655429--29655605	69	2.6	69	81	5	196	38	15	20	24	1.92
29657682--29657707	13	2.0	13	100	0	52	30	7	15	46	1.74
29658249--29658280	15	2.1	15	100	0	64	43	18	18	18	1.88
29658783--29658968	50	3.7	50	86	0	246	24	22	32	20	1.98
29664617--29664712	50	2.0	49	85	4	131	60	4	5	30	1.37
29665663--29665734	16	4.4	16	69	22	51	45	0	1	52	1.09
29665813--29665847	18	1.9	18	100	0	70	54	0	5	40	1.24
29665844--29665897	23	2.3	24	81	12	67	44	0	7	48	1.31
29666374--29666413	2	20.0	2	100	0	80	50	0	0	50	1.00
29671742--29671785	18	2.2	20	84	11	56	25	4	34	36	1.76
29675401--29675508	24	4.5	23	81	8	108	33	20	28	17	1.95
29675399--29675508	48	2.3	49	82	6	134	33	20	28	18	1.96
29675520--29675582	26	2.4	26	87	7	92	34	20	25	19	1.96
29676589--29676646	30	1.9	30	82	6	73	17	18	0	63	1.31
29678424--29678512	45	2.0	45	100	0	178	33	22	13	30	1.92
29683155--29683233	24	3.3	25	77	10	85	37	21	24	16	1.93
29683155--29683245	24	3.8	24	78	8	80	36	20	24	18	1.95
29683273--29683360	26	3.4	26	85	7	108	34	20	26	19	1.96
29688724--29688792	31	2.3	30	80	5	93	33	8	17	40	1.80
29690244--29690271	14	2.0	14	100	0	56	28	7	21	42	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29690358--29690668	27	11.5	27	79	2	293	39	9	19	30	1.84
29690366--29690668	136	2.2	135	84	4	378	38	9	19	31	1.85
29690625--29690700	27	2.8	26	78	13	73	39	13	22	25	1.90
29692602--29692823	41	5.4	41	88	1	320	20	29	15	34	1.94
29692682--29692785	20	5.1	19	64	13	55	17	29	18	34	1.94
29697614--29697682	36	1.9	36	87	0	102	53	7	0	39	1.29
29697614--29697674	18	3.4	18	77	8	70	52	8	0	39	1.31
29697616--29697693	36	2.2	36	83	4	95	52	7	0	39	1.30
29703246--29703272	2	13.5	2	100	0	54	48	0	0	51	1.00
29704057--29704090	11	3.1	11	82	0	50	26	14	2	55	1.53
29708531--29708594	28	2.3	28	86	5	85	31	6	0	62	1.20
29711239--29711321	41	2.0	42	92	2	141	37	16	15	30	1.90
29713917--29713953	9	4.1	9	92	0	65	29	10	13	45	1.77
29714005--29714035	9	3.4	9	90	0	53	38	22	12	25	1.90
29715177--29715207	14	2.2	14	94	0	53	0	38	0	61	0.96
29715174--29715232	11	5.4	11	76	8	57	3	35	0	61	1.13
29715174--29715229	22	2.5	22	80	5	69	3	35	0	60	1.14
29715521--29715569	24	2.0	24	84	0	62	36	2	8	53	1.43
29715616--29715661	24	2.0	23	82	4	56	58	2	4	34	1.30
29715623--29715671	24	2.0	25	84	7	66	55	2	2	40	1.23
29719196--29719251	26	2.0	27	83	16	71	62	0	5	32	1.18
29720991--29721122	43	3.1	41	70	10	111	34	15	21	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29720974--29721170	87	2.3	87	83	0	232	34	15	21	28	1.94
29724447--29724583	53	2.6	53	88	0	184	34	10	24	29	1.90
29724705--29724859	61	2.5	61	86	3	213	34	14	22	29	1.93
29727138--29727191	27	2.0	27	100	0	108	33	11	18	37	1.86
29731487--29731664	87	2.0	87	100	0	356	36	26	11	25	1.90
29739215--29739345	50	2.6	52	78	8	144	37	12	15	35	1.85
29743750--29743920	63	2.7	62	81	3	207	24	21	25	28	1.99
29748012--29748042	16	1.9	16	93	0	53	32	22	3	41	1.70
29748890--29748976	2	47.5	2	75	21	75	49	2	1	47	1.21
29750356--29750447	39	2.3	39	83	3	112	30	20	27	21	1.98
29750373--29750468	39	2.4	40	79	6	115	37	20	22	18	1.94
29750511--29750693	41	4.4	40	89	4	258	19	21	31	28	1.97
29750519--29750693	83	2.1	82	89	1	269	19	22	31	26	1.98
29751052--29751091	15	2.7	15	92	3	64	27	0	35	37	1.57
29751047--29751098	14	3.6	14	82	5	59	28	0	34	36	1.58
29751121--29751161	21	2.0	21	85	0	55	29	0	41	29	1.56
29754890--29755082	43	4.5	43	85	3	239	26	19	29	25	1.98
29754890--29755082	85	2.3	86	84	3	239	26	19	29	25	1.98
29756464--29756494	14	2.1	15	94	5	55	41	0	12	45	1.42
29756478--29756521	21	2.2	21	88	8	65	40	0	6	52	1.28
29756816--29756862	23	2.0	23	84	12	60	42	2	2	53	1.25
29756840--29756879	17	2.3	18	86	4	55	42	2	2	52	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
29760777--29761055	95	2.9	96	80	9	305	38	3	16	41	1.65
29761019--29761081	25	2.3	27	78	15	76	38	6	20	34	1.78
29761035--29761084	25	2.0	25	100	0	100	40	8	24	28	1.83
29761120--29761410	126	2.3	127	94	1	505	31	19	21	26	1.98
29765075--29765127	26	2.0	26	96	0	97	54	3	5	35	1.42
29766850--29766913	31	2.1	31	85	5	85	45	14	6	34	1.70
29771273--29771313	18	2.3	19	91	8	68	17	46	24	12	1.82
29775453--29776136	340	2.0	340	98	0	1323	28	13	13	45	1.80
29786739--29786771	9	3.7	9	84	15	50	27	9	21	42	1.83
29786825--29786888	9	7.1	9	92	0	110	45	14	10	29	1.78

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