genome.fa.s32.2.7.7.80.10.50.1000.28.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: Scaffold32
Parameters: 2 7 7 80 10 50 1000
Length:  5587194

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   

This is table  28  of  33  ( 3877 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)
4068949--4069167	102	2.1	102	87	5	309	27	16	14	41	1.87
4069089--4069118	13	2.3	13	94	0	51	33	16	10	40	1.82
4071487--4071629	51	2.8	51	75	5	139	31	25	9	33	1.88
4071603--4071821	82	2.7	78	77	6	231	24	26	16	32	1.96
4076673--4076815	43	3.3	43	79	5	139	15	25	11	47	1.79
4076803--4076874	34	2.1	34	87	7	101	22	23	15	38	1.92
4076963--4077163	86	2.3	87	87	1	296	29	24	22	22	1.99
4077452--4077561	47	2.3	47	98	0	211	43	20	14	21	1.87
4078023--4078075	20	2.6	21	84	3	72	47	9	15	28	1.76
4079550--4079593	21	2.1	21	83	8	54	27	31	2	38	1.69
4079491--4079727	116	2.0	116	99	0	465	29	25	5	39	1.79
4079666--4079709	21	2.1	21	83	8	54	25	31	4	38	1.76
4080851--4080876	13	2.0	13	100	0	52	38	15	15	30	1.88
4083095--4083139	21	2.1	21	84	8	56	53	4	20	22	1.63
4084943--4084973	15	2.1	15	93	0	53	48	16	22	12	1.80
4089609--4089634	13	2.0	13	100	0	52	38	15	15	30	1.88
4095358--4095402	21	2.1	21	84	8	56	22	20	4	53	1.63
4097607--4097632	13	2.0	13	100	0	52	30	15	15	38	1.88
4109778--4109815	4	9.5	4	88	0	58	71	5	0	23	1.07
4112370--4112395	13	2.0	13	100	0	52	30	15	15	38	1.88
4112456--4112569	20	5.6	20	75	4	120	30	17	13	38	1.88
4112434--4112551	20	5.7	21	74	5	123	28	16	11	43	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4112434--4112569	41	3.3	41	98	1	263	29	16	12	41	1.85
4115008--4115046	13	3.0	13	96	0	69	35	15	17	30	1.91
4115033--4115110	20	3.7	20	76	18	77	43	15	15	25	1.86
4119170--4119212	22	2.0	22	86	4	61	18	11	13	55	1.68
4121218--4121243	13	2.0	13	100	0	52	30	15	15	38	1.88
4121304--4121417	20	5.6	20	75	4	120	30	17	13	38	1.88
4121282--4121399	20	5.7	21	74	5	123	28	16	11	43	1.83
4121282--4121417	41	3.3	41	98	1	263	29	16	12	41	1.85
4124317--4124374	27	2.3	26	85	11	84	34	12	29	24	1.91
4126150--4126183	1	34.0	1	100	0	68	0	100	0	0	0.00
4129781--4129810	4	7.5	4	92	0	51	73	3	0	23	0.98
4134863--4134920	27	2.3	26	85	11	84	24	29	12	34	1.91
4137842--4138041	79	2.5	79	82	3	224	36	13	23	27	1.91
4137995--4138092	51	1.9	51	81	4	117	35	12	23	28	1.91
4138098--4138170	28	2.6	28	85	10	87	23	20	32	23	1.98
4138152--4138285	51	2.6	51	84	1	169	29	10	29	30	1.90
4138453--4138596	51	2.8	50	76	4	153	33	11	24	31	1.90
4138281--4138517	107	2.2	108	77	1	253	33	14	23	28	1.94
4145154--4145421	102	2.6	101	81	4	313	35	11	23	29	1.91
4145188--4145421	51	4.6	51	75	4	184	36	11	22	29	1.89
4145399--4145448	27	1.9	26	88	8	75	34	20	24	22	1.97
4145514--4145586	28	2.6	28	81	12	96	27	17	31	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4145572--4145740	51	3.3	51	81	1	196	33	13	24	28	1.93
4148051--4148102	20	2.6	21	82	14	65	46	13	13	26	1.80
4148689--4148961	42	6.7	41	70	18	128	39	13	25	20	1.90
4148846--4148995	42	3.5	41	76	12	131	34	16	26	22	1.95
4148971--4149207	61	3.9	61	83	5	300	27	20	25	25	1.99
4149209--4149242	14	2.3	15	90	5	52	44	20	14	20	1.87
4149182--4149292	57	2.0	55	92	3	186	31	23	21	23	1.98
4149325--4149564	62	3.9	62	87	2	331	29	18	26	25	1.98
4149562--4149824	43	6.0	44	79	9	252	38	14	27	19	1.90
4149661--4149824	87	1.9	89	84	2	224	36	15	26	21	1.93
4149805--4150871	60	17.5	60	82	5	1200	27	20	27	24	1.99
4149808--4150860	183	5.8	183	84	3	1327	27	20	26	25	1.99
4150852--4150891	20	2.0	20	100	0	80	20	15	45	20	1.86
4150885--4156060	60	84.9	60	80	6	5305	28	19	27	25	1.99
4150872--4156060	183	28.4	181	82	5	5398	28	19	27	25	1.99
4149806--4156060	913	6.8	913	90	3	8880	28	19	27	25	1.99
4162221--4162445	79	2.8	79	77	12	189	33	16	25	24	1.95
4162380--4162527	51	2.9	50	77	4	154	34	10	25	30	1.89
4162689--4162823	51	2.7	51	78	1	155	34	12	22	30	1.92
4165166--4165344	33	5.4	33	97	1	315	40	13	18	27	1.89
4165199--4165331	20	7.7	20	68	31	119	39	14	18	27	1.89
4165185--4165345	13	14.2	13	69	27	136	39	14	18	27	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4169313--4169410	33	2.9	34	81	4	128	20	30	15	33	1.93
4169385--4169989	34	18.8	33	75	11	449	20	30	11	37	1.89
4169575--4169725	62	2.5	59	79	12	180	21	31	11	35	1.90
4169575--4169735	27	5.4	27	71	20	92	22	30	11	35	1.90
4169612--4169790	87	2.0	88	82	7	213	20	28	13	37	1.91
4169993--4170180	32	5.9	31	82	7	209	28	31	19	20	1.97
4170309--4170803	52	9.8	51	72	10	274	27	26	15	30	1.96
4170173--4170502	95	3.5	95	78	0	338	27	26	16	29	1.96
4170506--4170646	49	2.9	49	88	0	201	26	23	17	33	1.96
4170456--4170646	98	1.9	100	82	5	244	26	24	16	31	1.96
4170752--4170885	61	2.2	61	84	0	178	23	26	10	39	1.87
4172461--4172506	21	2.3	21	88	7	69	19	13	17	50	1.78
4176689--4177031	166	2.1	165	85	7	480	30	13	7	48	1.70
4177677--4177707	10	3.0	10	90	9	53	77	0	22	0	0.77
4180772--4180797	7	3.7	7	100	0	52	15	0	0	84	0.62
4181772--4181826	10	5.5	10	78	6	58	38	18	7	36	1.78
4181769--4181838	30	2.3	30	78	4	79	35	15	12	35	1.86
4187185--4187230	10	4.6	10	77	0	56	34	15	10	39	1.82
4191342--4191454	35	3.3	35	85	4	133	23	23	13	39	1.90
4191566--4191781	60	3.6	60	74	9	190	26	23	10	38	1.88
4191606--4191818	60	3.5	59	80	4	237	28	23	9	38	1.86
4191476--4191856	121	3.2	120	80	5	419	27	22	9	40	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4191916--4192099	48	3.8	48	84	2	253	21	19	17	41	1.90
4191914--4192099	96	1.9	96	90	0	291	21	19	17	41	1.90
4192130--4192482	88	4.0	88	81	4	356	22	21	15	40	1.90
4192115--4192482	176	2.1	175	80	4	411	22	22	15	39	1.91
4192597--4192822	43	5.3	43	76	5	197	17	27	16	38	1.91
4192578--4192822	86	2.8	86	82	4	255	18	27	16	37	1.93
4192966--4193079	42	2.7	42	87	2	158	18	27	14	40	1.89
4194572--4195020	165	2.7	166	82	4	505	29	11	10	48	1.73
4194630--4195020	166	2.4	166	84	3	502	28	11	10	49	1.72
4196701--4196727	11	2.5	11	100	0	54	74	0	0	25	0.83
4196701--4196740	17	2.4	16	87	8	53	72	0	2	25	0.97
4199189--4199241	20	2.6	21	87	6	81	45	9	16	28	1.79
4201130--4201367	97	2.5	97	82	2	300	28	28	10	31	1.91
4205685--4205710	13	2.0	13	100	0	52	30	15	15	38	1.88
4208253--4208278	13	2.0	13	100	0	52	38	15	15	30	1.88
4210349--4210390	15	2.7	15	85	3	57	14	19	19	47	1.82
4212190--4212234	21	2.1	21	84	8	56	22	20	4	53	1.63
4214487--4214512	13	2.0	13	100	0	52	30	15	15	38	1.88
4216134--4216779	42	15.2	42	69	6	185	32	19	29	19	1.96
4216087--4216356	127	2.1	128	82	3	312	31	20	29	19	1.97
4216214--4216758	170	3.2	169	82	1	662	31	19	28	19	1.96
4216200--4216764	255	2.2	255	81	3	663	32	19	28	19	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4216214--4216758	85	6.4	85	81	0	595	31	19	28	19	1.96
4216627--4216802	42	4.2	42	75	1	145	34	18	28	18	1.95
4216303--4216841	255	2.1	254	79	3	573	33	19	28	18	1.96
4216682--4216841	42	3.8	43	78	5	128	38	18	27	16	1.92
4216848--4216951	43	2.4	43	86	1	154	35	12	31	20	1.90
4216924--4217009	43	2.0	44	88	2	129	37	22	24	16	1.93
4216980--4217307	85	3.9	83	74	8	252	28	17	32	21	1.96
4216984--4217313	42	7.8	43	71	10	223	28	18	31	21	1.97
4217404--4217516	43	2.6	43	81	0	127	27	15	32	23	1.95
4217609--4217906	48	6.2	48	81	2	294	41	20	19	18	1.90

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