genome.fa.s72.2.7.7.80.10.50.1000.31.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: Scaffold72
Parameters: 2 7 7 80 10 50 1000
Length:  5928628

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   

This is table  31  of  39  ( 4596 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)
4436536--4436587	23	2.3	23	89	0	77	0	21	0	78	0.74
4439322--4439366	23	2.0	23	82	8	56	44	0	0	55	0.99
4439742--4439818	37	2.1	37	82	0	91	45	9	2	42	1.49
4441035--4441059	2	12.5	2	100	0	50	52	0	0	48	1.00
4443724--4443750	2	13.5	2	100	0	54	48	0	0	51	1.00
4445534--4445583	2	25.0	2	95	0	91	50	2	0	48	1.12
4447230--4447257	2	14.0	2	100	0	56	50	0	0	50	1.00
4447528--4447575	25	1.9	25	100	0	96	52	20	0	27	1.47
4450167--4450210	21	2.1	21	100	0	88	45	25	9	20	1.80
4453677--4453736	31	2.1	27	81	12	66	46	0	1	51	1.10
4453709--4453751	19	2.1	22	87	12	65	44	0	0	55	0.99
4453727--4453776	19	2.5	20	80	6	57	38	2	0	60	1.09
4461893--4462028	15	8.2	16	68	24	70	59	0	0	40	0.97
4461893--4461970	23	3.4	23	83	11	81	61	0	0	38	0.96
4461907--4461975	14	4.8	14	75	16	52	60	0	0	39	0.97
4461952--4462018	18	3.5	19	74	22	61	56	0	0	43	0.99
4461893--4462025	50	2.6	52	76	16	134	59	0	0	40	0.97
4461893--4462026	8	16.4	8	67	25	52	59	0	0	40	0.97
4462957--4462993	14	2.5	15	83	16	51	35	0	2	62	1.10
4463056--4463091	15	2.4	16	86	13	58	38	0	0	61	0.96
4463046--4463092	14	3.4	14	83	13	62	38	0	0	61	0.96
4463068--4463110	14	3.0	14	80	6	50	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4463191--4463257	20	3.2	20	72	10	62	59	8	1	29	1.37
4465083--4465128	14	3.3	14	90	6	67	54	0	0	45	0.99
4468063--4468132	23	3.2	22	77	16	67	54	0	0	45	0.99
4469035--4469081	16	2.9	16	87	3	58	53	0	0	46	1.00
4472273--4472316	2	22.0	2	100	0	88	50	50	0	0	1.00
4475885--4475918	3	11.3	3	100	0	68	32	0	0	67	0.91
4483921--4483957	17	2.1	19	90	10	60	56	0	0	43	0.99
4490622--4490688	33	2.0	33	91	0	107	13	14	17	53	1.72
4490954--4490989	2	18.5	2	94	5	65	50	0	0	50	1.00
4494679--4494755	20	3.8	19	75	14	66	41	0	1	57	1.07
4495970--4496014	11	4.2	11	88	5	74	57	0	0	42	0.98
4495970--4496011	21	2.0	21	95	0	75	59	0	0	40	0.97
4495970--4496011	5	8.0	5	89	10	66	59	0	0	40	0.97
4496897--4496936	20	2.0	21	90	5	64	35	0	0	65	0.93
4496897--4496948	20	2.6	20	82	14	63	36	0	0	63	0.95
4496935--4496977	22	1.9	22	85	4	59	51	0	0	48	1.00
4497714--4497754	21	1.9	22	90	5	66	34	2	2	60	1.23
4500296--4500332	14	2.6	14	91	8	58	81	0	8	10	0.89
4501295--4501347	15	3.5	14	82	14	61	43	0	1	54	1.11
4502441--4502480	20	2.0	21	85	14	57	50	0	0	50	1.00
4502914--4502990	27	2.8	28	82	7	86	35	2	3	58	1.30
4503776--4503882	18	5.6	18	70	25	60	41	0	0	58	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4503779--4503841	16	3.9	16	75	23	60	41	0	0	58	0.98
4503829--4503883	12	4.6	12	79	6	67	38	0	0	61	0.96
4503774--4503892	23	5.0	24	74	15	88	42	0	0	57	0.98
4503774--4503881	28	3.5	30	77	13	96	41	0	0	58	0.98
4503776--4503880	41	2.5	41	80	11	133	41	0	0	58	0.98
4503998--4504106	11	10.1	11	71	17	68	60	0	0	39	0.97
4504009--4504109	39	2.7	37	80	9	114	60	0	0	39	0.97
4504003--4504111	57	1.9	56	83	9	141	60	0	0	39	0.97
4504360--4504448	25	3.8	22	70	18	54	52	0	1	46	1.07
4504385--4504434	17	2.9	18	75	25	63	60	0	2	38	1.09
4504385--4504460	33	2.3	33	84	10	95	59	0	1	39	1.06
4504380--4504441	25	2.4	27	75	5	65	56	0	1	41	1.09
4504713--4504756	23	1.9	23	86	9	63	59	0	0	40	0.98
4505573--4505649	39	2.0	39	82	10	95	59	0	0	40	0.97
4505611--4505651	15	2.9	15	78	10	50	58	0	0	41	0.98
4505581--4505651	7	9.9	7	72	24	51	57	0	0	42	0.98
4506169--4506269	49	2.0	50	83	9	127	49	0	0	49	1.07
4506318--4506343	2	13.0	2	100	0	52	50	0	0	50	1.00
4506697--4506770	21	3.7	21	66	29	54	44	0	1	54	1.08
4509600--4509707	5	22.4	5	68	17	59	63	0	0	36	0.94
4509598--4509707	18	6.9	16	73	21	65	64	0	0	35	0.94
4509601--4509707	23	4.4	25	67	21	68	63	0	0	36	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4509600--4509707	32	3.4	32	75	12	91	63	0	0	36	0.94
4509595--4509707	25	4.5	25	71	22	87	64	0	0	35	0.94
4513786--4513835	24	2.2	22	79	10	55	32	2	2	64	1.16
4513787--4513835	23	2.1	23	84	3	62	30	2	2	65	1.15
4513915--4513971	2	28.5	2	92	0	96	50	1	47	0	1.11
4518893--4518940	3	16.3	3	83	16	57	68	0	0	31	0.90
4518890--4518940	22	2.3	20	84	15	66	68	0	0	31	0.90
4518896--4518940	19	2.4	17	82	17	54	68	0	0	31	0.89
4519526--4519557	16	1.9	17	93	6	57	46	0	0	53	1.00
4521526--4521569	17	2.5	18	85	7	63	68	0	0	31	0.90
4522477--4522515	3	13.0	3	94	0	69	64	0	2	33	1.08
4526268--4526293	13	2.0	13	100	0	52	46	7	7	38	1.61
4532125--4532177	17	3.2	17	70	26	51	49	0	0	50	1.00
4532113--4532160	24	1.9	26	87	8	73	47	0	0	52	1.00
4532110--4532180	32	2.2	32	85	12	92	47	0	0	52	1.00
4535196--4535250	27	1.9	27	85	10	74	38	0	0	61	0.96
4535254--4535302	18	2.8	18	73	17	50	42	0	0	57	0.99
4535608--4535726	22	5.4	21	73	21	84	40	0	0	58	1.04
4535618--4535740	24	5.2	24	72	21	84	39	0	0	58	1.09
4535613--4535721	37	3.1	36	70	15	102	40	0	0	58	1.04
4535618--4535716	43	2.2	44	81	13	105	39	1	0	59	1.04
4535608--4535706	14	7.1	14	66	21	57	40	1	0	58	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4536186--4536239	25	2.2	24	81	15	65	64	0	0	35	0.94
4536194--4536256	18	3.5	18	77	12	67	63	1	0	34	1.04
4536187--4536256	27	2.6	27	80	15	83	61	1	0	37	1.05
4540811--4540835	3	8.3	3	100	0	50	0	32	0	68	0.90
4542894--4542996	14	8.2	13	67	18	58	41	0	2	55	1.15
4542870--4542955	32	2.9	29	77	16	77	41	0	2	55	1.12
4542893--4542982	25	3.6	24	73	16	69	41	0	3	55	1.16
4542976--4543020	17	2.6	17	80	16	56	46	0	0	53	1.00
4547152--4547180	2	15.0	2	92	7	51	51	0	0	48	1.00
4547968--4547993	2	13.0	2	100	0	52	50	0	0	50	1.00
4548221--4548259	13	2.8	14	80	11	53	35	2	0	61	1.10
4548940--4549009	29	2.4	29	83	4	97	57	0	2	40	1.14
4550430--4550474	23	2.0	22	83	12	56	48	0	0	51	1.00
4550416--4550494	38	2.1	36	88	9	115	51	0	0	48	1.00
4550445--4550486	15	2.9	15	82	7	50	50	0	0	50	1.00
4552530--4552559	14	2.1	14	100	0	60	50	6	6	36	1.55
4552671--4552719	18	2.8	18	79	17	59	69	0	0	30	0.89
4552671--4552783	34	3.4	33	75	10	97	62	2	0	34	1.09
4552764--4552816	20	2.6	20	85	8	63	58	0	0	41	0.98
4552733--4552817	38	2.3	35	77	18	82	60	1	0	38	1.05
4554707--4554916	50	4.2	50	85	0	258	32	20	16	30	1.95
4556991--4557024	16	2.1	16	88	5	50	44	17	14	23	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4559279--4559531	50	5.1	50	83	1	265	35	17	16	29	1.92
4559279--4559534	100	2.6	100	83	0	305	36	17	16	29	1.92
4559722--4559810	44	2.1	43	81	8	101	41	0	0	58	0.98
4559755--4559819	27	2.4	27	82	12	71	44	0	0	55	0.99
4559806--4559861	25	2.2	26	81	9	62	44	3	0	51	1.18
4559795--4559861	26	2.8	24	78	13	66	44	2	0	52	1.16
4561403--4561457	20	2.7	21	77	8	69	56	0	3	40	1.17
4562112--4562157	22	2.0	23	83	4	58	39	0	0	60	0.97
4563254--4563679	210	2.0	210	91	1	694	33	16	10	39	1.83
4565005--4565041	2	19.0	2	88	5	58	48	0	2	48	1.15

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