genome.fa.s258.2.7.7.80.10.50.1000.24.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: Scaffold258
Parameters: 2 7 7 80 10 50 1000
Length:  5730937

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   

This is table  24  of  25  ( 2900 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)
5548833--5548946	55	2.1	55	94	0	201	28	22	11	36	1.89
5555801--5555861	25	2.4	25	78	5	61	49	0	1	49	1.10
5557054--5557079	2	13.0	2	100	0	52	50	0	0	50	1.00
5557498--5557530	13	2.5	14	85	14	52	33	0	6	60	1.21
5558842--5558891	19	2.7	18	84	9	64	44	2	0	54	1.11
5563421--5563449	2	14.5	2	100	0	58	51	48	0	0	1.00
5564441--5564475	16	2.2	16	100	0	70	48	5	5	40	1.51
5564999--5565057	27	2.2	28	79	14	70	55	1	0	42	1.09
5567495--5567522	13	2.2	13	100	0	56	42	25	17	14	1.87
5569946--5569981	2	18.0	2	100	0	72	50	0	0	50	1.00
5573504--5573556	18	2.7	19	77	11	54	50	0	0	49	1.00
5574155--5574191	3	12.3	3	100	0	74	67	0	32	0	0.91
5578787--5578820	2	17.0	2	100	0	68	50	0	0	50	1.00
5583666--5583717	2	27.0	2	88	7	81	50	0	50	0	1.00
5588090--5588114	2	12.5	2	100	0	50	48	0	0	52	1.00
5588650--5588685	2	18.0	2	100	0	72	50	0	0	50	1.00
5590863--5590930	9	7.3	9	71	17	50	50	1	0	48	1.10
5590855--5590949	17	5.5	18	72	19	69	47	1	0	51	1.07
5590831--5590958	46	2.9	46	78	11	142	45	1	0	52	1.15
5590874--5590925	19	2.7	19	88	8	70	51	0	0	48	1.00
5590896--5590976	27	2.9	27	77	17	76	45	1	0	53	1.08
5590844--5590960	27	3.9	29	71	15	87	47	1	0	51	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5591443--5591482	21	1.9	21	89	0	62	25	0	0	75	0.81
5591438--5591471	13	2.5	13	90	9	50	23	0	2	73	0.97
5591536--5591577	22	1.9	22	85	0	57	50	7	2	40	1.43
5591932--5591976	21	2.1	21	84	8	56	37	0	0	62	0.96
5591924--5591990	29	2.2	31	82	15	86	43	0	1	55	1.09
5592120--5592184	18	3.6	18	80	12	64	32	1	1	64	1.12
5592196--5592233	20	1.9	20	84	10	51	52	5	0	42	1.24
5592260--5592321	29	2.1	28	82	5	70	50	4	0	45	1.23
5592280--5592349	28	2.5	29	82	15	78	51	1	0	47	1.09
5593351--5593380	2	15.0	2	100	0	60	0	50	0	50	1.00
5596805--5596835	15	2.1	15	93	0	53	58	0	0	41	0.98
5597321--5597345	2	12.5	2	100	0	50	52	0	0	48	1.00
5597890--5597961	30	2.4	31	82	13	96	56	1	0	41	1.07
5606693--5606736	21	2.1	21	87	8	63	63	0	0	36	0.95
5606870--5606943	34	2.2	35	78	11	82	39	2	8	50	1.46
5613060--5613090	2	15.5	2	100	0	62	48	0	0	51	1.00
5615224--5615266	22	1.9	23	86	13	63	34	0	0	65	0.93
5616197--5616235	20	2.1	19	85	9	53	53	2	7	35	1.43
5617303--5617368	27	2.5	26	81	11	73	53	1	0	45	1.09
5617453--5617549	11	9.2	11	71	11	51	68	4	1	26	1.14
5617458--5617511	19	2.9	19	76	10	51	74	3	0	22	0.98
5617833--5617871	20	2.0	19	85	5	51	61	5	5	28	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5618083--5618144	22	2.9	22	76	13	58	69	3	3	24	1.18
5618091--5618173	11	7.4	11	70	6	51	71	6	1	21	1.15
5618112--5618173	22	2.7	23	82	5	63	70	8	0	20	1.12
5618438--5618483	20	2.3	21	81	11	60	2	19	0	78	0.86
5619176--5619244	35	1.9	35	83	13	88	49	0	0	50	1.00
5619900--5619949	22	2.2	23	92	3	84	48	4	0	48	1.20
5621046--5621114	27	2.5	28	88	6	97	43	1	7	47	1.39
5628895--5628936	2	21.0	2	100	0	84	50	0	0	50	1.00
5630659--5630706	18	2.7	18	84	15	73	52	0	0	47	1.00
5630650--5630737	12	7.5	12	76	16	69	55	0	0	44	0.99
5630656--5630752	6	16.7	6	75	18	53	57	0	0	42	0.98
5630713--5630748	10	3.5	10	88	3	54	61	0	0	38	0.96
5630778--5630835	26	2.1	27	84	9	73	53	0	0	46	1.00
5631444--5631503	17	3.7	16	79	18	54	46	3	1	48	1.28
5631455--5631503	17	3.1	17	81	18	61	46	4	0	48	1.20
5631371--5631520	73	2.0	75	81	7	173	48	2	4	45	1.34
5634090--5634123	13	2.5	14	90	4	52	70	0	0	29	0.87
5634187--5634229	20	2.3	19	80	11	52	39	0	0	60	0.97
5634273--5634303	3	10.3	3	100	0	62	67	0	0	32	0.91
5634396--5634424	10	2.9	10	100	0	58	41	0	6	51	1.28
5634794--5634833	11	3.5	11	86	6	53	32	0	0	67	0.91
5634798--5634839	13	3.4	12	83	12	50	35	0	0	64	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5634928--5634957	11	2.8	11	95	5	53	33	0	0	66	0.92
5635266--5635320	19	2.9	19	86	0	65	72	0	27	0	0.85
5635291--5635320	10	3.1	10	90	9	53	83	0	16	0	0.65
5635634--5635686	17	3.1	17	83	8	63	33	3	5	56	1.41
5636250--5636287	18	2.1	18	85	9	51	42	0	0	57	0.98
5636304--5636402	39	2.5	40	74	9	98	28	5	4	62	1.34
5636423--5636481	29	2.1	29	87	9	86	47	0	0	52	1.00
5636525--5636583	25	2.4	23	78	13	64	42	3	0	54	1.17
5637428--5637452	4	6.2	4	100	0	50	76	24	0	0	0.80
5643020--5643047	2	14.0	2	100	0	56	50	0	0	50	1.00
5645403--5645460	2	29.5	2	96	3	109	50	0	50	0	1.00
5645708--5645763	26	2.2	24	84	9	76	37	0	1	60	1.07
5648157--5648192	14	2.5	15	82	17	58	63	0	0	36	0.94
5651035--5651086	21	2.5	20	75	6	50	71	7	9	11	1.32
5652318--5652360	22	2.0	21	86	4	59	58	4	0	37	1.19
5652627--5652703	17	4.2	17	73	15	57	48	0	0	51	1.00
5652661--5652711	19	2.5	21	71	9	52	43	0	0	56	0.99
5652991--5653026	17	2.1	18	94	5	65	58	0	2	38	1.13
5655067--5655159	28	3.4	27	78	7	82	39	0	1	59	1.05
5656670--5656758	45	2.0	45	82	8	110	51	0	1	47	1.08
5659563--5659621	27	2.2	28	87	6	86	49	0	0	50	1.00
5659742--5659791	19	2.5	19	80	9	55	42	2	0	56	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5659992--5660036	23	1.9	24	86	4	65	57	0	0	42	0.98
5659993--5660064	27	2.7	28	75	14	71	55	0	0	44	0.99
5660079--5660133	25	2.2	26	83	9	69	58	0	0	41	0.98
5660139--5660172	15	2.1	17	89	10	54	55	0	0	44	0.99
5660147--5660196	15	3.1	16	82	8	57	70	0	0	30	0.88
5665719--5665745	13	2.1	13	100	0	54	14	22	14	48	1.81
5666038--5666233	97	2.0	97	95	0	356	45	6	15	31	1.72
5666450--5666500	16	3.1	16	85	5	66	31	0	0	68	0.90
5671282--5671323	21	2.0	22	90	4	68	52	0	0	47	1.00
5671466--5671505	19	2.2	19	86	13	57	47	0	2	50	1.14
5679662--5679717	16	3.5	15	86	13	69	33	16	7	42	1.75
5679679--5679735	16	3.6	16	80	4	62	38	12	3	45	1.59
5680018--5680042	2	12.5	2	100	0	50	52	0	0	48	1.00
5684300--5684358	27	2.2	26	81	6	64	54	0	0	45	0.99
5684583--5684624	18	2.4	17	84	7	57	57	0	4	38	1.20
5684636--5684732	28	3.5	29	72	14	89	55	0	0	44	0.99
5684661--5684741	27	3.0	26	77	22	87	53	0	1	45	1.08
5688422--5688455	2	17.0	2	100	0	68	50	0	50	0	1.00
5689018--5689064	14	3.3	14	80	14	51	68	0	4	27	1.08
5689904--5689992	39	2.4	37	83	11	101	60	0	0	39	0.97
5693625--5693660	2	18.0	2	100	0	72	50	0	0	50	1.00
5694675--5694716	22	1.9	22	85	9	59	71	0	0	28	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5694685--5694728	10	4.0	11	85	14	56	70	0	0	29	0.88
5694680--5694737	28	2.1	27	87	9	82	70	0	0	29	0.87
5694700--5694732	11	3.1	11	91	4	50	72	0	0	27	0.85
5695329--5695363	8	4.2	8	88	3	52	31	2	0	65	1.07
5696484--5696536	17	3.3	16	79	20	58	54	0	1	43	1.11
5696485--5696536	2	27.0	2	77	14	56	53	0	1	44	1.11
5696485--5696536	19	2.8	19	85	5	63	53	0	1	44	1.11
5696519--5696592	30	2.4	33	80	15	86	52	0	1	45	1.09
5696520--5696613	26	3.4	25	72	23	66	52	0	1	46	1.07
5699868--5699894	14	1.9	14	100	0	54	62	0	0	37	0.95

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