genome.fa.s89.2.7.7.80.10.50.1000.25.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: Scaffold89
Parameters: 2 7 7 80 10 50 1000
Length:  5168001

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  25  of  27  ( 3236 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)
4352799--4352825	2	13.5	2	100	0	54	51	0	0	48	1.00
4356074--4356104	4	7.5	4	96	3	53	25	0	0	74	0.82
4356463--4356517	2	28.5	2	81	7	51	40	0	1	58	1.09
4356474--4356524	25	2.0	25	84	3	66	39	0	3	56	1.18
4357446--4357487	22	1.9	22	85	9	59	42	0	0	57	0.99
4358559--4358583	2	12.5	2	100	0	50	52	0	0	48	1.00
4359769--4359818	23	2.1	24	85	3	66	56	0	0	44	0.99
4362995--4363032	15	2.4	16	82	4	51	44	0	0	55	0.99
4365729--4365754	2	13.0	2	100	0	52	50	0	0	50	1.00
4366352--4366384	2	16.5	2	100	0	66	48	0	0	51	1.00
4366869--4366961	47	2.0	47	89	0	141	31	13	3	51	1.57
4366876--4366974	47	2.1	47	82	0	117	32	14	5	48	1.65
4370413--4370450	2	19.0	2	94	0	67	50	0	2	47	1.15
4376389--4376435	23	2.0	23	84	8	60	25	2	6	65	1.27
4378297--4378329	4	8.2	4	100	0	66	75	0	0	24	0.80
4378768--4378811	2	22.0	2	100	0	88	50	0	0	50	1.00
4380845--4380885	2	20.5	2	89	0	64	2	46	2	48	1.28
4382402--4382441	2	20.0	2	94	0	71	47	2	0	50	1.14
4388052--4388081	12	2.4	12	94	5	51	6	10	10	73	1.25
4392241--4392274	16	2.2	16	94	5	61	32	5	0	61	1.20
4394762--4394805	12	3.7	12	87	0	52	29	0	0	70	0.88
4394763--4394801	18	2.2	18	90	0	60	28	0	0	71	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4395654--4395678	4	6.2	4	100	0	50	24	0	24	52	1.48
4409476--4409541	32	2.1	32	83	11	82	39	3	4	53	1.37
4410161--4410190	4	7.5	4	100	0	60	76	0	0	23	0.78
4415943--4415971	2	14.5	2	100	0	58	0	0	48	51	1.00
4416809--4416849	3	13.7	3	100	0	82	34	0	0	65	0.93
4421034--4421074	21	2.0	20	90	4	64	46	2	0	51	1.14
4421042--4421082	21	2.0	21	90	0	64	41	4	0	53	1.22
4421101--4421229	48	2.7	49	75	11	124	56	3	1	37	1.27
4422860--4422884	12	2.1	12	100	0	50	32	0	16	52	1.44
4425152--4425185	17	2.0	17	94	0	59	35	2	5	55	1.39
4426923--4426976	21	2.4	23	78	9	58	55	0	0	44	0.99
4426923--4426983	23	2.6	23	75	20	63	55	0	0	44	0.99
4434994--4435018	1	25.0	1	100	0	50	0	100	0	0	0.00
4436267--4436307	18	2.3	18	86	0	55	29	58	4	7	1.46
4436299--4436333	18	1.9	18	88	11	54	14	68	5	11	1.37
4436344--4436454	54	2.1	54	81	3	125	22	52	7	18	1.69
4436667--4436971	132	2.3	136	84	6	397	24	49	12	14	1.77
4437737--4437771	2	17.5	2	100	0	70	51	0	0	48	1.00
4438750--4438785	2	18.0	2	94	0	63	50	2	0	47	1.15
4439940--4439969	7	4.3	7	100	0	60	56	13	30	0	1.37
4440448--4440486	18	2.2	18	85	0	51	25	51	5	17	1.66
4440514--4440552	18	2.2	18	85	0	51	25	51	5	17	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4440413--4440619	66	3.1	66	97	1	380	24	52	6	16	1.68
4440611--4440675	27	2.4	27	89	5	96	29	60	6	4	1.41
4440413--4440655	66	3.7	62	90	5	261	25	53	6	14	1.65
4440611--4440658	3	16.0	3	82	0	60	31	62	4	2	1.26
4440751--4441079	111	3.0	109	87	5	473	21	51	9	17	1.73
4440981--4441097	48	2.4	50	73	8	125	21	51	11	16	1.75
4443124--4443148	2	12.5	2	100	0	50	52	0	48	0	1.00
4447779--4447817	2	19.5	2	100	0	78	48	0	0	51	1.00
4450543--4450585	19	2.2	19	87	8	59	53	2	4	39	1.34
4455914--4455950	15	2.4	16	90	4	58	45	0	0	54	1.00
4458819--4458847	1	29.0	1	100	0	58	0	100	0	0	0.00
4460707--4460738	17	1.9	17	93	6	57	53	0	15	31	1.43
4465969--4465998	2	15.0	2	100	0	60	50	0	0	50	1.00
4466385--4466445	30	2.0	30	87	0	86	50	3	1	44	1.28
4466413--4466475	21	3.5	17	70	21	56	52	1	0	46	1.10
4470144--4470186	15	2.9	15	93	3	70	48	0	2	48	1.14
4471302--4471333	13	2.5	13	94	0	55	81	0	15	3	0.82
4473376--4473410	3	11.7	3	93	0	52	25	0	5	68	1.11
4475677--4475718	20	2.1	20	100	0	84	57	19	4	19	1.58
4490200--4490266	22	3.0	21	77	12	64	55	1	0	43	1.09
4501371--4501406	3	12.0	3	100	0	72	66	0	33	0	0.92
4505382--4505451	2	35.0	2	97	0	131	48	0	1	50	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4509008--4509057	26	1.9	26	88	8	75	48	2	0	50	1.12
4509007--4509067	26	2.3	26	80	5	70	50	1	0	47	1.10
4509047--4509085	14	2.6	16	80	19	57	53	0	0	46	1.00
4510833--4510868	16	2.3	17	86	13	51	55	2	0	41	1.14
4513847--4513872	7	3.7	7	100	0	52	0	42	0	57	0.98
4513932--4514006	36	2.2	33	83	11	89	33	4	0	62	1.14
4513941--4514016	39	1.9	39	84	5	100	34	5	0	60	1.19
4521402--4521493	31	3.0	30	79	9	96	44	4	1	50	1.29
4521370--4521496	30	4.3	30	77	10	111	41	3	0	54	1.22
4521377--4521493	61	1.9	60	83	8	148	42	3	0	52	1.23
4521379--4521513	61	2.2	60	79	10	134	43	5	1	49	1.33
4521941--4521976	2	18.0	2	94	0	63	50	0	2	47	1.15
4527158--4527271	21	5.7	21	73	14	80	41	2	5	50	1.38
4527158--4527211	19	2.7	19	88	5	72	38	0	3	57	1.17
4527533--4527673	74	1.9	73	91	4	230	42	14	7	35	1.74
4527851--4527888	2	19.0	2	100	0	76	50	0	0	50	1.00
4530121--4530152	13	2.4	14	85	15	50	31	0	0	68	0.90
4530149--4530192	16	2.8	17	74	19	51	54	0	0	45	0.99
4530173--4530207	17	2.0	18	88	5	54	57	0	0	42	0.99
4539443--4539504	31	2.0	31	100	0	124	25	12	25	35	1.92
4556468--4556505	15	2.4	17	86	8	53	47	0	0	52	1.00
4557392--4557437	19	2.6	18	86	10	60	54	6	0	39	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4563198--4563230	4	8.2	4	93	0	57	0	24	3	72	0.98
4563549--4563582	2	17.0	2	100	0	68	50	0	0	50	1.00
4564651--4564691	21	2.0	21	90	0	64	70	0	2	26	0.99
4567929--4567967	2	19.5	2	100	0	78	51	0	48	0	1.00
4569062--4569137	27	2.6	30	85	12	113	35	0	0	64	0.94
4569062--4569137	29	2.6	28	82	17	102	35	0	0	64	0.94
4575384--4575443	3	20.0	3	100	0	120	33	0	0	66	0.92
4576214--4576238	2	12.5	2	100	0	50	52	48	0	0	1.00
4576813--4576839	13	2.1	13	100	0	54	37	22	7	33	1.82
4577161--4577186	2	13.0	2	100	0	52	50	0	0	50	1.00
4579103--4579143	2	20.5	2	89	0	64	51	4	0	43	1.23
4582003--4582041	2	19.5	2	100	0	78	0	48	0	51	1.00
4587491--4587557	35	1.9	35	93	0	116	44	14	16	23	1.85
4587585--4587610	6	4.3	6	100	0	52	46	0	38	15	1.46
4605081--4605131	14	3.6	14	76	17	52	56	1	3	37	1.29
4607830--4607875	24	2.0	23	83	12	58	43	2	2	52	1.25
4608360--4608385	2	13.0	2	100	0	52	50	0	0	50	1.00
4610756--4610784	2	14.5	2	100	0	58	48	0	0	51	1.00
4611369--4611415	19	2.5	18	78	18	51	57	0	4	38	1.18
4614597--4614635	18	2.2	18	86	9	53	5	25	0	69	1.09
4618016--4618242	113	2.0	113	88	1	339	37	14	22	25	1.92
4618232--4618264	6	5.5	6	100	0	66	15	36	15	33	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4621764--4621828	29	2.2	31	81	13	75	53	1	0	44	1.09
4626635--4626662	2	14.0	2	100	0	56	50	0	0	50	1.00
4627936--4627986	24	2.1	24	82	7	59	33	1	5	58	1.33
4627949--4627994	24	2.0	24	82	4	58	34	0	4	60	1.16
4632133--4632369	122	1.9	122	95	0	429	36	23	12	27	1.91
4636528--4636556	6	4.8	6	100	0	58	34	0	65	0	0.93
4637242--4637287	17	2.5	20	82	13	62	52	0	2	45	1.13
4637211--4637298	18	4.8	18	73	13	65	52	0	1	46	1.08
4637242--4637295	20	2.8	19	81	15	67	51	0	1	46	1.11
4637242--4637315	37	2.0	36	82	7	87	54	0	2	43	1.14

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