genome.fa.s247.2.7.7.80.10.50.1000.28.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: Scaffold247
Parameters: 2 7 7 80 10 50 1000
Length:  4737410

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   

This is table  28  of  29  ( 3470 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)
4395615--4395670	21	2.7	21	97	0	103	41	14	17	26	1.88
4399578--4399602	12	2.1	12	100	0	50	76	0	0	24	0.80
4400450--4400490	19	2.2	18	86	4	55	14	2	2	80	0.92
4401203--4401596	65	6.1	65	77	4	341	20	20	15	43	1.88
4401213--4401590	130	2.9	129	82	5	442	20	19	16	43	1.88
4401418--4401524	34	3.2	33	65	21	89	22	22	15	39	1.92
4401202--4401603	194	2.1	194	80	3	452	20	20	15	43	1.88
4401799--4402027	41	5.6	41	78	3	183	20	22	14	41	1.89
4402538--4402624	40	2.1	41	85	2	113	22	19	14	42	1.88
4404983--4405033	19	2.6	20	81	3	68	33	17	11	37	1.86
4413832--4413865	13	2.6	13	90	0	59	32	11	14	41	1.82
4413882--4413965	43	2.0	43	95	0	150	32	21	15	30	1.94
4419862--4419898	14	2.9	12	85	14	56	10	24	8	56	1.60
4420159--4420214	23	2.4	23	85	5	69	26	0	1	71	0.96
4420159--4420223	31	2.1	30	83	13	80	24	0	1	73	0.91
4420177--4420223	15	3.1	14	85	14	67	23	0	0	76	0.78
4420171--4420224	23	2.3	24	90	3	83	25	0	0	74	0.83
4423396--4423431	16	2.2	16	90	9	56	88	2	8	0	0.59
4423407--4423436	13	2.3	13	94	0	51	90	0	10	0	0.47
4424810--4425006	88	2.2	88	80	1	216	22	18	13	45	1.85
4425037--4425078	19	2.3	19	84	12	52	11	16	11	59	1.61
4425776--4426076	92	3.3	92	75	5	245	26	27	15	30	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4426471--4426728	35	7.5	35	77	6	195	24	22	12	41	1.87
4426499--4426728	70	3.3	69	80	6	252	23	21	13	41	1.88
4426471--4426728	101	2.5	102	84	3	304	24	22	12	41	1.87
4432261--4432478	79	2.7	79	81	6	237	27	16	32	24	1.96
4432243--4432516	79	3.4	79	76	7	232	28	13	30	27	1.94
4434984--4435051	19	3.9	18	73	23	65	38	11	11	38	1.79
4435006--4435030	13	1.9	13	100	0	50	32	16	16	36	1.90
4434987--4435049	32	2.0	32	90	0	99	36	12	12	38	1.82
4436191--4436216	13	2.0	13	100	0	52	30	15	15	38	1.88
4436171--4436234	33	2.0	32	84	3	83	28	12	18	40	1.87
4438786--4438821	13	2.8	13	91	0	54	30	16	19	33	1.94
4444979--4445004	13	2.0	13	100	0	52	30	15	15	38	1.88
4444959--4445022	33	2.0	32	90	3	101	26	14	20	39	1.90
4446811--4446875	34	1.9	34	84	12	89	27	12	13	46	1.79
4456384--4456735	28	12.0	28	78	11	307	30	30	17	21	1.96
4456384--4456733	60	5.9	59	79	10	344	30	30	17	22	1.96
4456384--4456735	148	2.4	147	84	6	414	30	30	17	21	1.96
4457575--4457627	20	2.7	20	84	0	70	30	13	15	41	1.85
4457562--4457748	71	2.6	71	88	1	259	30	16	12	40	1.85
4459353--4459383	10	2.9	11	90	9	55	35	9	0	54	1.33
4465184--4465214	12	2.6	12	100	0	62	87	6	6	0	0.68
4465651--4465700	14	3.6	14	74	15	50	30	2	2	66	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4467278--4467727	156	2.9	154	80	7	523	26	17	18	38	1.92
4467337--4467829	156	3.1	156	75	9	461	26	18	17	37	1.93
4469599--4469641	20	2.2	20	83	4	52	25	4	16	53	1.62
4471270--4471553	152	1.9	153	81	3	349	28	15	16	38	1.90
4471267--4471594	152	2.1	153	77	5	331	28	15	17	37	1.91
4473154--4473183	14	2.1	14	93	0	51	36	10	13	40	1.78
4475018--4475073	20	2.7	21	75	5	60	41	12	16	30	1.85
4475617--4475642	13	2.0	13	100	0	52	38	15	15	30	1.88
4481894--4482025	52	2.6	51	85	1	165	40	12	16	30	1.86
4481894--4482032	51	2.7	52	85	1	163	39	12	16	31	1.85
4482088--4482142	20	2.7	21	82	5	76	34	16	9	40	1.80
4482698--4482722	13	1.9	13	100	0	50	24	16	4	56	1.57
4484611--4484649	20	1.9	20	89	5	60	17	7	5	69	1.32
4484910--4484952	18	2.4	18	80	3	52	27	4	0	67	1.10
4485288--4485326	10	4.0	10	93	3	62	79	0	20	0	0.73
4485288--4485326	19	2.0	19	90	5	60	79	0	20	0	0.73
4487058--4487099	22	1.9	22	100	0	84	80	0	7	11	0.88
4487107--4487163	21	2.7	21	97	0	105	33	10	19	36	1.86
4487219--4487286	19	3.9	19	78	21	85	35	11	14	38	1.83
4487240--4487264	13	1.9	13	100	0	50	36	16	16	32	1.90
4487221--4487283	32	2.0	32	96	0	117	34	12	15	36	1.86
4487326--4487351	13	2.0	13	100	0	52	30	15	15	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4487306--4487372	33	2.0	33	88	0	98	25	14	16	43	1.86
4489818--4489987	52	3.3	51	79	12	186	29	24	12	32	1.93
4489971--4490047	28	2.8	28	87	0	100	23	33	19	23	1.97
4490081--4490135	28	1.9	29	88	3	85	23	27	16	32	1.96
4490001--4490203	77	2.6	78	81	4	223	25	30	16	28	1.96
4496005--4496100	20	4.7	19	75	14	77	31	18	11	38	1.87
4496045--4496099	21	2.6	22	83	16	73	32	16	12	38	1.86
4498420--4498621	79	2.6	80	82	7	220	31	19	8	40	1.83
4501681--4501707	13	2.1	13	100	0	54	29	14	14	40	1.86
4508213--4508257	24	1.9	23	86	9	56	42	31	6	20	1.77
4509539--4509563	13	1.9	13	100	0	50	32	16	16	36	1.90
4509635--4509685	20	2.6	20	84	3	68	41	17	11	29	1.85
4511259--4511292	9	3.8	9	96	0	59	38	0	35	26	1.57
4511259--4511292	3	11.3	3	87	0	50	38	0	35	26	1.57
4515818--4515858	22	2.0	22	86	13	61	34	21	4	39	1.75
4516122--4516163	20	2.0	21	90	4	68	19	47	28	4	1.69
4517976--4518030	20	2.8	19	83	8	65	40	10	14	34	1.81
4518019--4518043	13	1.9	13	100	0	50	32	16	16	36	1.90
4518115--4518165	20	2.6	20	90	3	77	39	19	13	27	1.90
4518902--4518955	20	2.7	19	88	5	72	29	16	12	40	1.86
4521307--4521421	51	2.3	51	86	7	162	31	24	12	32	1.92
4521548--4521661	51	2.2	50	86	10	160	31	28	8	31	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4521595--4521820	79	2.9	78	83	2	283	27	25	13	33	1.94
4526720--4527666	155	6.1	150	79	8	791	37	21	16	23	1.93
4526709--4527600	462	1.9	464	83	6	1146	37	21	16	23	1.93
4528146--4528250	20	4.7	20	75	22	102	29	18	10	41	1.83
4529101--4529140	20	1.9	22	85	10	57	22	10	12	55	1.67
4532622--4532649	13	2.2	13	100	0	56	50	35	0	14	1.43
4533224--4533271	21	2.3	20	82	6	60	58	4	2	35	1.29
4535515--4535846	79	4.2	77	74	12	261	29	21	10	39	1.86
4540060--4540462	78	5.2	77	75	7	316	36	12	21	29	1.90
4540060--4540433	156	2.4	155	83	3	432	37	11	21	29	1.88
4540112--4540473	156	2.3	157	81	5	421	37	12	20	29	1.89
4544313--4544352	20	2.0	20	90	0	62	32	17	7	42	1.77
4546504--4546550	24	2.0	24	82	0	58	38	4	27	29	1.76
4546607--4546671	33	2.0	33	87	3	96	41	18	13	26	1.88
4550762--4550801	21	1.9	21	84	0	53	2	15	12	70	1.28
4550754--4550811	22	2.6	21	81	8	62	6	13	8	70	1.32
4561183--4561260	28	2.9	27	81	12	88	24	19	32	24	1.98
4561245--4561578	51	6.4	51	70	12	212	32	11	25	30	1.91
4561187--4561578	211	1.9	210	86	4	565	30	12	27	29	1.93
4563996--4564095	19	5.9	19	69	25	80	39	15	11	35	1.82
4564018--4564042	13	1.9	13	100	0	50	32	16	16	36	1.90
4563999--4564093	32	3.0	32	88	0	154	37	15	11	34	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4564914--4565700	59	13.9	54	87	7	696	24	21	28	26	1.99
4564991--4565227	55	4.5	48	86	11	208	19	21	30	28	1.98
4565040--4565732	59	11.9	59	92	2	941	24	21	28	25	1.99
4566699--4566759	1	61.0	1	73	0	50	0	6	6	86	0.69
4566705--4566749	8	5.5	8	85	12	56	0	4	8	86	0.69
4566699--4566759	22	2.8	20	83	16	77	0	6	6	86	0.69
4566705--4566749	17	2.8	16	86	10	56	0	4	8	86	0.69
4579161--4579235	28	2.7	27	87	8	98	24	17	33	25	1.96
4579223--4579390	52	3.3	50	80	5	183	32	10	26	31	1.89
4579257--4579390	50	2.6	51	84	2	171	32	11	26	29	1.91

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