genome.fa.s106.2.7.7.80.10.50.1000.26.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: Scaffold106
Parameters: 2 7 7 80 10 50 1000
Length:  4928209

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   

This is table  26  of  27  ( 3135 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)
4657664--4657701	2	19.0	2	94	0	67	47	0	2	50	1.15
4657664--4657709	12	3.8	12	94	0	65	43	0	6	50	1.28
4657664--4657713	8	6.2	8	95	0	64	42	0	8	50	1.32
4675787--4676041	75	3.4	74	84	2	298	27	16	24	32	1.96
4675638--4675909	149	1.8	149	80	3	323	27	15	25	32	1.95
4676038--4676164	42	3.0	42	94	3	211	26	14	23	34	1.94
4676170--4676311	75	1.9	75	86	0	203	33	15	21	30	1.94
4678168--4678262	18	5.7	16	69	22	54	37	1	2	58	1.17
4678202--4678270	15	4.4	15	70	19	52	44	0	0	55	0.99
4678214--4678278	33	2.0	33	81	6	78	47	0	0	52	1.00
4678221--4678296	15	5.5	15	69	20	58	46	0	0	53	1.00
4688956--4689098	72	2.0	72	88	2	216	43	4	5	46	1.46
4688997--4689064	22	3.0	22	65	2	55	47	5	5	41	1.52
4690657--4690695	20	2.0	20	94	0	69	20	7	38	33	1.81
4695730--4695768	3	12.7	3	94	5	69	0	33	0	66	0.92
4704709--4704737	2	14.5	2	100	0	58	48	0	0	51	1.00
4705893--4705967	3	25.3	3	76	12	75	65	6	0	28	1.18
4716963--4717001	21	1.9	20	85	15	53	30	0	2	66	1.05
4726251--4726280	2	15.0	2	100	0	60	0	50	0	50	1.00
4727929--4727972	3	14.7	3	100	0	88	34	0	0	65	0.93
4728820--4728846	2	13.5	2	100	0	54	51	0	48	0	1.00
4739388--4739417	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4739874--4739906	6	5.7	6	92	7	59	18	15	18	48	1.81
4753070--4753111	2	21.0	2	90	0	66	47	2	2	47	1.28
4754172--4754196	2	12.5	2	100	0	50	48	0	0	52	1.00
4754283--4754309	2	13.5	2	100	0	54	48	0	0	51	1.00
4755022--4755122	32	3.2	32	84	5	107	42	2	0	54	1.15
4755685--4755716	16	1.9	17	93	6	57	53	0	0	46	1.00
4756356--4756399	21	2.0	21	86	8	61	56	0	4	38	1.20
4761879--4761906	14	2.0	14	100	0	56	50	21	0	28	1.49
4762510--4762536	2	13.5	2	100	0	54	0	0	48	51	1.00
4762800--4762845	7	6.7	7	95	5	85	39	15	30	15	1.88
4763628--4763660	17	2.0	17	88	5	50	54	6	12	27	1.60
4766507--4766531	5	5.0	5	100	0	50	40	0	60	0	0.97
4767797--4767850	3	18.0	3	100	0	108	66	0	0	33	0.92
4768380--4768409	2	15.0	2	92	0	51	46	0	3	50	1.18
4768707--4768747	2	21.0	2	95	5	75	48	0	0	51	1.00
4769301--4769338	2	19.0	2	88	0	58	44	0	5	50	1.24
4770708--4770747	8	4.4	10	79	20	52	65	0	0	35	0.93
4770709--4770747	13	2.9	13	82	17	53	64	0	0	35	0.94
4770708--4770758	21	2.3	22	86	6	68	60	0	1	37	1.08
4770784--4770837	25	2.0	28	82	10	69	31	3	3	61	1.31
4770819--4770860	15	2.7	15	82	10	50	35	2	0	61	1.09
4771761--4771789	7	4.3	7	91	8	51	44	27	0	27	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4774134--4774172	2	19.5	2	94	0	69	53	0	0	46	1.00
4776725--4776763	20	2.0	20	94	0	69	69	0	0	30	0.89
4776962--4777008	24	2.1	22	84	11	60	65	4	2	27	1.22
4777560--4777597	17	2.2	17	86	9	51	57	0	2	39	1.12
4777549--4777595	21	2.4	20	80	13	53	61	0	2	36	1.08
4777454--4777834	194	2.0	194	87	4	554	51	4	5	37	1.48
4780045--4780075	2	15.5	2	100	0	62	51	0	0	48	1.00
4781125--4781154	2	15.0	2	100	0	60	50	0	0	50	1.00
4781714--4781738	2	12.5	2	100	0	50	52	0	48	0	1.00
4782244--4782278	2	17.5	2	100	0	70	51	0	0	48	1.00
4784302--4784328	14	1.9	14	100	0	54	51	7	0	40	1.30
4784838--4784900	16	4.1	16	80	10	69	31	0	0	68	0.90
4784840--4784892	15	3.5	15	76	7	54	33	0	0	66	0.92
4785492--4785521	14	2.1	15	93	6	53	6	40	0	53	1.27
4790511--4790586	21	3.4	22	79	15	68	3	21	0	75	0.97
4790670--4790731	32	1.9	32	87	6	90	3	24	0	72	0.99
4793568--4793600	16	2.1	16	88	11	50	24	0	3	72	0.98
4797429--4797457	5	5.8	5	100	0	58	0	37	0	62	0.96
4798877--4798925	18	2.9	18	79	14	59	38	0	0	61	0.96
4798903--4798937	14	2.4	14	85	4	52	48	0	0	51	1.00
4799599--4799632	12	2.9	12	86	4	52	26	0	2	70	1.01
4799602--4799643	10	3.8	11	81	9	50	21	0	4	73	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4799601--4799643	21	2.0	23	90	9	72	23	0	4	72	1.04
4800278--4800337	27	2.1	29	87	6	88	26	3	6	63	1.35
4800295--4800383	35	2.6	35	74	12	85	25	2	5	66	1.25
4800411--4800444	17	1.9	18	88	5	52	52	0	2	44	1.16
4802339--4802363	3	8.3	3	100	0	50	68	0	32	0	0.90
4806689--4806729	2	20.5	2	100	0	82	51	0	48	0	1.00
4812755--4812794	21	1.9	21	89	0	62	40	2	0	57	1.12
4814701--4814731	3	10.3	3	100	0	62	0	32	0	67	0.91
4814908--4814969	30	2.1	30	100	0	124	50	9	6	33	1.61
4814911--4814969	15	3.9	15	76	12	59	50	8	6	33	1.59
4815409--4815439	2	15.5	2	100	0	62	0	0	48	51	1.00
4819789--4819816	2	14.0	2	100	0	56	50	0	0	50	1.00
4820747--4820775	2	14.5	2	100	0	58	51	0	0	48	1.00
4824244--4824330	36	2.5	34	78	7	102	14	12	18	54	1.72
4826084--4826127	19	2.3	18	81	11	52	36	0	4	59	1.18
4826102--4826145	19	2.3	19	84	7	54	36	0	0	63	0.95
4826881--4826948	17	4.0	16	72	11	55	76	0	19	4	0.95
4826904--4826947	8	5.2	8	78	10	52	81	0	13	4	0.83
4826904--4826949	17	2.7	17	83	6	58	80	0	15	4	0.86
4828896--4829091	79	2.5	79	83	1	223	29	15	28	26	1.96
4829074--4829770	51	13.5	51	69	11	384	32	12	26	29	1.93
4829074--4829603	104	5.2	101	71	12	303	32	12	26	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4829150--4829772	260	2.4	263	90	3	985	32	12	25	29	1.93
4829588--4829664	28	2.8	28	84	7	86	23	18	35	23	1.96
4830713--4830833	18	6.6	19	76	13	112	7	23	39	28	1.82
4830692--4830847	55	2.8	55	83	5	183	8	23	37	30	1.84
4831303--4831329	6	4.5	6	100	0	54	29	0	14	55	1.40
4831543--4831616	17	4.3	17	72	12	62	52	0	0	47	1.00
4831569--4831619	18	2.7	19	87	9	77	45	0	0	54	0.99
4832840--4832868	15	1.9	15	100	0	58	27	0	3	68	1.05
4833080--4833134	25	2.3	25	81	6	69	49	0	1	49	1.11
4833782--4833826	16	2.9	15	80	6	63	75	8	0	15	1.03
4844853--4844891	3	13.0	3	100	0	78	66	0	0	33	0.92
4845876--4845906	5	6.2	5	100	0	62	0	19	0	80	0.71
4847183--4847246	31	2.1	30	91	2	101	59	0	1	39	1.07
4847323--4847420	46	2.2	43	81	13	103	48	2	1	47	1.19
4847867--4847907	2	20.5	2	94	0	73	51	0	46	2	1.14
4848672--4848740	22	3.2	22	76	10	63	49	1	0	49	1.09
4854771--4854811	19	2.1	20	90	4	66	73	0	0	26	0.84
4856037--4856102	23	3.1	22	69	24	61	42	7	1	48	1.40
4856045--4856107	21	3.2	19	70	18	56	49	7	0	42	1.32
4856316--4856341	3	8.7	3	100	0	52	34	30	0	34	1.58
4858728--4858757	3	10.0	3	92	0	51	3	33	0	63	1.11
4869234--4869322	1	89.0	1	77	0	70	0	7	5	86	0.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4869233--4869316	32	2.7	32	94	3	145	0	8	5	85	0.73
4878019--4878062	21	2.1	21	82	0	52	38	6	22	31	1.81
4878028--4878068	21	2.0	21	85	0	55	39	7	19	34	1.80
4888750--4888784	10	3.5	10	88	0	52	2	11	0	85	0.69
4890666--4890764	38	2.6	38	80	4	112	31	6	17	45	1.72
4896141--4896238	5	18.3	6	86	9	94	68	11	19	1	1.26
4896782--4896819	2	19.0	2	100	0	76	50	0	0	50	1.00
4899708--4899750	22	2.0	22	95	0	77	48	25	11	13	1.77
4901725--4901789	25	2.8	24	83	6	80	33	1	26	38	1.66
4901789--4901830	22	1.9	22	90	0	66	30	4	28	35	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