genome.fa.s3.2.7.7.80.10.50.1000.52.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  52  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)
15488737--15488779	2	21.5	2	100	0	86	48	0	0	51	1.00
15491476--15491500	11	2.3	11	100	0	50	28	8	24	40	1.83
15494345--15494390	23	1.9	23	86	8	65	47	10	21	19	1.80
15498919--15498949	14	2.2	14	94	0	53	74	3	22	0	0.96
15505124--15505162	19	2.1	19	95	0	69	28	10	12	48	1.74
15505105--15505226	54	2.3	54	94	0	208	33	9	14	41	1.79
15505521--15505606	45	1.9	44	88	2	127	38	12	18	30	1.88
15507339--15507419	36	2.2	36	80	8	94	72	1	19	6	1.12
15507373--15507419	18	2.6	18	93	0	76	72	2	19	6	1.17
15507357--15507419	6	10.2	6	72	6	54	74	1	19	4	1.08
15509158--15509194	19	1.9	19	94	0	65	29	8	13	48	1.71
15513436--15513624	40	4.8	40	80	1	200	15	29	16	38	1.90
15513436--15513624	79	2.4	80	80	2	220	15	29	16	38	1.90
15525699--15525745	18	2.6	19	76	10	53	59	2	0	38	1.09
15525711--15525747	19	2.0	18	89	5	56	48	2	0	48	1.15
15527659--15527683	13	1.9	13	100	0	50	88	0	12	0	0.53
15529042--15529084	22	2.0	22	86	9	61	37	11	0	51	1.39
15529542--15529580	19	2.1	19	85	0	51	23	20	2	53	1.57
15530080--15530110	2	15.5	2	100	0	62	48	0	0	51	1.00
15531658--15531757	52	1.9	52	87	0	146	31	23	20	26	1.98
15539445--15539584	27	5.1	27	82	9	92	42	17	20	20	1.89
15539468--15539827	27	13.3	26	78	10	257	42	16	18	21	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15539468--15539827	81	4.4	80	80	7	304	42	16	18	21	1.89
15539481--15539827	54	6.4	54	81	5	310	42	17	17	21	1.89
15540161--15540255	28	3.4	28	77	2	102	24	17	23	34	1.96
15541333--15541421	25	3.8	25	73	21	86	46	25	16	11	1.81
15541369--15541453	20	4.0	20	70	14	71	43	24	20	11	1.85
15541344--15541444	45	2.2	45	92	0	166	42	25	20	10	1.85
15541431--15541480	22	2.4	21	80	9	57	42	20	18	20	1.90
15543867--15543916	26	2.0	26	84	7	68	38	16	6	40	1.73
15544074--15544168	50	1.9	50	84	4	129	30	18	22	28	1.97
15544944--15545013	27	2.7	26	81	2	77	25	25	18	30	1.98
15550040--15550093	21	2.3	24	72	18	60	11	25	3	59	1.48
15551146--15551192	20	2.4	20	82	13	62	23	8	4	63	1.40
15551147--15551191	19	2.4	19	88	7	65	24	8	4	62	1.43
15554546--15554623	28	2.8	28	92	0	138	17	21	32	28	1.96
15565686--15565749	24	2.6	24	85	2	83	54	6	31	7	1.54
15574989--15575042	27	2.0	28	82	10	67	64	3	22	9	1.38
15580311--15580762	27	16.7	27	84	6	490	24	16	18	41	1.89
15581407--15581522	40	2.9	40	94	1	196	49	4	37	9	1.55
15581820--15581868	24	2.2	22	85	10	64	26	38	4	30	1.75
15592470--15592809	43	8.0	41	80	8	317	31	28	13	26	1.94
15592470--15592809	85	4.0	84	82	5	346	31	28	13	26	1.94
15598629--15598755	9	15.0	9	68	17	67	35	0	17	46	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15598806--15598832	13	2.1	13	100	0	54	37	11	0	51	1.37
15604076--15604275	77	2.6	75	83	9	237	40	3	37	19	1.67
15614626--15614682	10	5.9	9	75	22	53	31	17	28	22	1.97
15614626--15614683	20	2.9	21	90	10	95	31	18	27	22	1.97
15616324--15616419	48	2.0	48	100	0	192	37	16	16	29	1.91
15620021--15620103	43	1.9	43	87	0	121	22	19	26	31	1.98
15620457--15620644	91	2.1	91	100	0	376	48	14	6	29	1.69
15622371--15622433	29	2.2	28	85	2	81	41	12	22	23	1.88
15622413--15622530	29	3.9	29	84	7	155	36	13	27	22	1.92
15625759--15625992	109	2.1	109	88	0	342	25	28	26	20	1.99
15626860--15627026	41	4.1	41	84	0	154	34	14	26	23	1.94
15626933--15627031	20	4.8	22	68	13	75	31	12	31	25	1.92
15631455--15631500	20	2.4	19	82	7	56	32	17	30	19	1.95
15639357--15639486	60	2.2	60	85	0	179	33	27	19	19	1.96
15639357--15639468	22	5.4	22	70	12	83	33	28	18	18	1.95
15640523--15640556	16	2.1	16	100	0	68	76	0	0	23	0.79
15643688--15643859	27	6.4	27	81	3	177	44	20	16	19	1.87
15643900--15643946	23	2.0	23	87	0	67	21	2	25	51	1.59
15643929--15643975	24	1.9	25	86	4	69	12	6	29	51	1.65
15643928--15643986	24	2.5	24	77	5	66	18	5	27	49	1.68
15644050--15644114	27	2.4	27	80	14	73	16	23	26	33	1.96
15644132--15644365	32	7.4	32	79	2	204	19	21	21	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15644129--15644365	95	2.5	96	79	2	253	19	21	21	37	1.94
15648480--15648534	22	2.5	22	93	0	92	36	32	14	16	1.89
15652302--15652450	38	3.9	37	81	10	133	44	11	10	33	1.74
15652340--15652450	38	2.9	38	86	2	141	44	11	9	35	1.73
15655789--15655845	29	2.0	29	86	6	80	29	22	0	47	1.52
15656771--15656817	23	2.0	23	100	0	94	42	0	38	19	1.51
15657707--15657756	18	2.8	18	82	11	59	28	22	2	48	1.62
15657727--15657762	18	2.0	18	94	0	63	30	22	0	47	1.52
15666991--15667035	20	2.3	19	84	7	54	31	11	33	24	1.90
15669890--15670073	51	3.6	51	79	3	167	25	17	25	31	1.97
15669996--15670076	26	3.2	26	62	28	64	23	14	28	33	1.94
15670083--15670170	45	2.0	45	88	4	133	25	19	22	32	1.97
15676843--15676878	14	2.6	14	86	0	54	5	22	0	72	1.05
15679186--15679284	35	2.8	35	81	0	126	26	17	14	42	1.87
15680829--15680881	22	2.4	22	70	0	52	33	18	13	33	1.90
15685911--15685961	26	2.0	26	84	0	66	41	33	5	19	1.76
15688682--15688858	43	4.1	43	82	7	189	24	14	27	33	1.94
15688682--15688879	43	4.6	42	76	12	134	26	14	26	32	1.95
15688780--15688879	42	2.4	42	83	10	132	28	15	25	32	1.95
15691374--15691403	14	2.1	14	93	0	51	50	16	0	33	1.46
15691986--15692156	32	5.4	32	85	6	204	39	20	19	20	1.92
15692338--15692380	11	3.7	11	76	11	50	53	27	4	13	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15692328--15692433	24	4.4	24	86	0	122	46	23	7	22	1.77
15692455--15692570	27	4.4	28	77	13	97	18	20	21	38	1.93
15692470--15692570	27	3.8	26	76	8	105	18	18	23	38	1.93
15694682--15694890	97	2.2	97	91	0	337	44	3	17	34	1.67
15698607--15698644	17	2.4	17	91	8	62	55	0	13	31	1.38
15701301--15701386	45	1.9	45	87	0	127	13	23	1	61	1.39
15703913--15703943	5	6.2	5	100	0	62	77	0	0	22	0.77
15714348--15714468	50	2.4	50	83	2	136	25	22	30	21	1.99
15714521--15714563	18	2.4	18	88	0	59	18	6	37	37	1.78
15719468--15719510	22	2.0	21	82	13	52	34	11	20	32	1.89
15719811--15720054	29	8.5	29	80	5	235	27	15	19	36	1.93
15719807--15720054	57	4.3	57	82	6	250	27	15	19	37	1.92
15719839--15720087	57	4.4	57	82	6	234	28	16	20	34	1.94
15719981--15720082	28	3.6	28	78	2	123	30	15	19	34	1.93
15730787--15730926	42	3.6	41	69	17	134	32	24	17	25	1.97
15730763--15730963	75	2.7	74	89	3	321	32	25	17	24	1.97
15730907--15731059	33	4.5	33	69	22	120	31	23	22	22	1.98
15730938--15730990	27	2.0	27	92	0	88	24	28	28	18	1.98
15730864--15731092	102	2.2	102	93	0	404	29	24	21	24	1.99
15731040--15731093	27	2.0	27	96	0	99	27	27	25	18	1.98
15736161--15736260	49	2.0	49	90	0	155	48	12	10	30	1.73
15741673--15741713	3	13.7	3	100	0	82	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15746261--15746321	20	3.1	19	82	15	70	32	11	29	26	1.91
15754262--15754293	15	2.1	15	94	0	55	71	12	15	0	1.14
15762138--15762202	20	3.5	20	68	21	61	64	0	24	10	1.25
15769472--15769506	2	17.5	2	100	0	70	0	48	0	51	1.00
15773721--15773783	9	6.3	9	77	18	63	71	1	25	1	1.04
15773722--15773785	13	4.7	13	70	22	51	70	1	26	1	1.05
15773722--15773783	23	2.7	24	80	9	76	70	1	25	1	1.05
15782651--15782680	15	2.0	15	93	0	51	33	30	10	26	1.89
15786391--15786435	22	2.0	22	91	0	72	28	4	26	40	1.75
15790370--15790417	12	4.2	12	86	10	73	66	14	6	12	1.42

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