genome.fa.s407.2.7.7.80.10.50.1000.27.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: Scaffold407
Parameters: 2 7 7 80 10 50 1000
Length:  4418299

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   

This is table  27  of  28  ( 3302 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)
4165993--4166017	12	2.1	12	100	0	50	48	16	0	36	1.46
4167585--4167665	40	2.0	40	92	0	135	38	4	16	40	1.70
4167749--4167809	29	2.1	30	93	3	106	40	3	29	26	1.72
4168525--4168562	20	1.9	20	100	0	76	50	10	7	31	1.66
4169682--4169718	18	2.0	20	89	10	60	48	13	8	29	1.71
4170328--4170372	22	2.0	23	83	12	58	0	35	0	64	0.94
4170984--4171322	168	2.0	167	80	6	382	49	9	10	30	1.69
4172004--4172043	20	2.0	20	100	0	80	20	30	10	40	1.85
4172613--4172662	24	2.2	23	82	10	59	30	14	16	40	1.87
4180016--4180054	11	3.7	10	86	10	51	66	2	0	30	1.05
4180027--4180053	11	2.5	11	100	0	54	70	0	0	29	0.88
4180192--4180223	16	2.0	16	93	0	55	71	0	0	28	0.86
4182442--4182473	16	2.0	16	93	0	55	25	6	9	59	1.52
4182664--4182727	27	2.3	29	79	17	73	54	0	1	43	1.09
4182840--4182889	14	3.4	14	79	15	64	34	4	8	54	1.49
4183900--4183937	14	2.5	15	87	8	51	28	0	0	71	0.87
4186108--4186147	21	1.9	21	84	0	53	27	7	17	47	1.74
4188295--4188352	21	2.8	21	82	12	75	32	12	17	37	1.86
4188537--4188595	21	2.7	22	86	2	75	30	11	6	50	1.65
4189156--4189189	17	1.9	17	88	5	50	58	8	8	23	1.56
4190754--4190920	79	2.1	79	87	2	246	35	13	22	28	1.92
4190822--4191196	130	2.9	131	85	7	437	34	12	24	29	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4191006--4191115	51	2.2	51	81	6	125	31	12	26	29	1.93
4191050--4191535	79	6.2	79	83	7	578	32	11	26	30	1.91
4191050--4191536	157	3.1	154	83	7	579	32	11	26	30	1.91
4191493--4191547	28	2.0	28	92	0	92	30	16	27	25	1.96
4193831--4193960	50	2.6	50	83	2	163	41	14	16	27	1.87
4196839--4196945	51	2.1	51	92	1	180	26	14	12	47	1.78
4197307--4197339	13	2.4	14	85	15	50	36	15	12	36	1.84
4197313--4197338	13	2.0	13	100	0	52	30	15	15	38	1.88
4197372--4197438	20	3.3	20	87	4	91	34	16	8	40	1.80
4205016--4205201	79	2.4	79	86	3	257	32	12	27	26	1.93
4205133--4205252	51	2.3	52	80	4	127	31	10	26	30	1.90
4205105--4205343	130	1.8	129	82	4	293	35	13	24	26	1.92
4206058--4206110	24	2.2	25	93	3	90	33	20	15	30	1.93
4207683--4207711	13	2.2	13	100	0	58	37	13	17	31	1.89
4207693--4207748	20	2.8	20	83	0	85	42	12	16	28	1.84
4218222--4218440	79	2.8	78	72	8	185	34	14	24	26	1.93
4218375--4218471	51	1.9	51	82	0	122	38	8	21	31	1.83
4220930--4220983	20	2.7	20	94	0	99	42	14	16	25	1.87
4226122--4226207	38	2.3	38	97	2	165	25	15	15	44	1.85
4226566--4227091	28	18.6	28	80	9	479	32	30	17	19	1.95
4226572--4227091	56	9.2	56	82	6	559	32	30	17	19	1.95
4226566--4227045	199	2.4	197	82	7	580	31	30	17	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4226572--4227091	84	6.1	85	85	5	608	32	30	17	19	1.95
4227113--4227243	49	2.9	45	82	6	158	26	23	18	31	1.97
4227155--4227296	49	2.8	50	80	5	153	25	23	17	33	1.96
4227155--4227370	52	4.2	50	77	9	179	25	24	15	34	1.95
4228129--4228156	13	2.2	13	100	0	56	28	14	17	39	1.89
4229076--4229121	21	2.2	20	82	14	58	21	17	19	41	1.90
4234349--4234407	31	1.9	31	96	0	109	83	11	3	1	0.85
4234336--4234400	14	4.5	15	79	9	64	81	13	3	1	0.88
4235967--4236206	32	7.6	31	86	2	309	28	30	19	21	1.97
4235960--4236235	63	4.3	63	86	2	356	28	31	18	21	1.97
4235960--4236206	95	2.6	94	88	4	352	28	30	18	21	1.97
4244976--4245020	19	2.3	19	80	7	54	42	13	11	33	1.79
4248198--4248224	13	2.1	13	100	0	54	29	14	14	40	1.86
4248179--4248243	32	2.0	32	90	3	103	26	16	16	40	1.90
4248209--4248265	19	2.9	19	89	5	87	31	14	17	36	1.89
4248205--4248264	20	3.0	20	85	4	86	31	13	18	36	1.89
4248309--4248339	13	2.4	13	94	0	53	35	16	12	35	1.87
4248293--4248359	33	2.0	32	86	11	91	34	13	17	34	1.89
4248587--4248634	18	2.7	17	78	9	51	35	20	10	33	1.87
4254510--4254551	13	3.2	13	83	16	59	30	16	14	38	1.89
4256431--4256455	12	2.1	12	100	0	50	36	0	0	64	0.94
4257021--4257073	20	2.7	20	91	2	81	30	15	18	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4260611--4260635	13	1.9	13	100	0	50	36	16	16	32	1.90
4265590--4265646	20	2.8	20	89	0	78	35	14	12	38	1.83
4267931--4268138	95	2.2	95	85	8	273	27	26	12	33	1.92
4268895--4269161	141	1.9	145	83	4	355	28	25	16	30	1.96
4272077--4272119	21	2.1	20	86	4	59	34	9	16	39	1.80
4273951--4274021	19	3.8	19	70	25	62	38	0	1	60	1.06
4274086--4274122	19	1.9	19	89	10	58	32	0	0	67	0.91
4274520--4274571	16	3.3	16	81	13	63	42	0	0	57	0.98
4274540--4274579	6	7.2	6	78	16	50	50	0	0	50	1.00
4274834--4274911	39	2.0	40	84	2	104	46	0	0	53	1.00
4276276--4276316	16	2.4	18	84	11	52	68	0	0	31	0.90
4277554--4277609	13	4.3	13	75	8	60	33	1	3	60	1.24
4278714--4278765	18	2.9	17	82	5	59	40	0	0	59	0.97
4280452--4280497	16	2.9	16	78	15	51	43	0	0	56	0.99
4280580--4280626	17	2.5	20	83	13	64	68	2	0	29	1.02
4280642--4280726	35	2.3	38	82	8	104	51	1	0	47	1.08
4280670--4280708	16	2.6	14	85	14	60	43	2	0	53	1.14
4280765--4280808	11	4.2	11	85	11	56	29	2	0	68	1.02
4282354--4282451	7	13.4	7	74	18	76	40	3	1	55	1.22
4282331--4282451	33	3.5	33	74	21	97	41	2	0	55	1.19
4286412--4286458	23	2.1	23	84	4	60	51	0	0	48	1.00
4286848--4286899	28	2.0	25	88	11	77	44	3	13	38	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4287261--4287311	3	19.0	3	77	18	51	27	0	0	72	0.85
4287261--4287306	11	4.3	11	83	10	60	28	0	0	71	0.86
4287262--4287330	5	12.6	5	77	13	57	26	0	2	71	1.00
4287262--4287332	16	4.6	16	79	15	69	26	0	2	70	1.01
4287265--4287330	28	2.3	29	86	7	98	25	0	3	71	1.01
4287855--4287921	15	4.3	15	78	14	73	56	4	0	38	1.19
4287855--4287918	16	4.1	16	83	4	85	56	4	0	39	1.20
4288768--4288802	18	2.0	18	88	5	54	51	0	0	48	1.00
4289152--4289189	14	2.5	15	83	12	51	39	2	5	52	1.38
4292032--4292077	20	2.2	22	84	7	60	67	2	2	28	1.14
4297795--4297984	52	3.7	52	84	1	238	36	20	24	17	1.94
4315113--4315251	51	2.7	52	83	3	192	38	15	16	29	1.89
4315113--4315251	52	2.7	51	85	1	179	38	15	16	29	1.89
4315288--4315355	20	3.3	20	79	4	64	29	14	11	44	1.81
4316333--4316389	13	3.9	13	74	24	51	35	12	17	35	1.87
4316313--4316413	32	3.1	32	95	1	175	34	10	17	36	1.85
4316311--4316408	19	5.8	18	69	28	81	33	11	17	37	1.85
4316484--4316612	52	2.5	52	97	0	240	35	17	18	27	1.94
4324525--4324654	52	2.5	52	89	0	206	38	17	16	27	1.91
4331522--4331563	2	21.0	2	100	0	84	50	0	0	50	1.00
4333925--4333965	22	1.9	22	95	5	75	68	0	0	31	0.90
4334642--4334679	20	1.9	20	88	0	58	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)
4334948--4335008	22	2.7	23	80	9	81	47	0	4	47	1.23
4335013--4335070	20	2.8	21	89	5	91	50	0	1	48	1.11
4335013--4335073	21	3.0	21	90	4	97	49	0	1	49	1.10
4342943--4343014	16	4.7	15	75	16	67	36	0	1	62	1.04
4343084--4343165	41	2.0	41	100	0	164	29	21	12	36	1.90
4343416--4343454	18	2.1	18	85	4	51	51	2	2	43	1.29
4345899--4345989	40	2.3	40	88	1	130	40	7	12	39	1.71
4345972--4346011	20	2.0	20	95	0	71	37	0	5	57	1.21
4347755--4347787	2	16.5	2	100	0	66	51	0	0	48	1.00
4348496--4348598	33	3.1	31	70	19	84	55	1	1	40	1.22

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