genome.fa.s258.2.7.7.80.10.50.1000.21.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: Scaffold258
Parameters: 2 7 7 80 10 50 1000
Length:  5730937

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   

This is table  21  of  25  ( 2900 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)
4939941--4939968	8	3.5	8	100	0	56	89	10	0	0	0.49
4940745--4940806	19	3.4	19	75	18	60	35	1	0	62	1.05
4941095--4941155	14	4.4	14	77	6	61	57	1	0	40	1.08
4941087--4941128	15	2.7	16	81	7	59	57	0	0	42	0.99
4942541--4942573	15	2.2	15	100	0	66	87	0	12	0	0.53
4942609--4942665	17	3.2	17	71	14	53	28	0	3	68	1.06
4942646--4942676	12	2.7	11	90	9	53	25	0	6	67	1.14
4942648--4942674	12	2.2	12	100	0	54	22	0	7	70	1.12
4942731--4942780	19	2.7	18	78	9	55	36	0	4	60	1.16
4942747--4942789	19	2.3	19	88	8	61	32	0	0	67	0.91
4943155--4943216	24	2.6	25	80	12	67	35	1	0	62	1.05
4943605--4943701	40	2.2	46	78	17	125	45	0	0	54	0.99
4949751--4949776	6	4.3	6	100	0	52	34	0	0	65	0.93
4952004--4952031	4	7.0	4	100	0	56	75	0	0	25	0.81
4953310--4953378	28	2.5	28	81	9	79	66	0	1	31	1.00
4954963--4954993	16	2.0	16	93	6	55	61	0	0	38	0.96
4958204--4958230	13	2.1	13	100	0	54	48	14	14	22	1.81
4961557--4961619	15	4.1	15	71	24	51	47	0	0	52	1.00
4961924--4961976	10	5.6	10	72	20	51	60	1	1	35	1.19
4962118--4962151	17	2.0	17	94	0	59	44	11	2	41	1.56
4963775--4963849	26	2.7	27	79	8	71	52	1	8	38	1.40
4967447--4967564	56	2.1	56	95	1	211	44	4	6	44	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4968948--4969023	25	2.9	24	73	13	62	64	0	3	31	1.12
4968957--4968990	18	1.9	17	94	5	59	64	0	2	32	1.08
4968962--4969075	35	3.2	35	79	10	99	61	0	2	35	1.10
4969962--4970043	41	2.0	41	84	9	107	40	0	0	59	0.97
4971237--4971269	3	11.0	3	100	0	66	66	0	0	33	0.92
4977751--4977790	14	2.9	14	84	0	53	50	0	0	50	1.00
4992358--4992406	17	2.8	17	81	9	62	53	0	2	44	1.12
4992376--4992427	9	5.9	9	77	4	61	53	3	0	42	1.19
4992373--4992431	26	2.3	26	82	8	75	54	3	0	42	1.17
4992358--4992426	35	1.9	36	85	8	97	53	2	1	42	1.24
4993263--4993333	35	2.0	35	83	5	90	53	0	0	46	1.00
4993286--4993333	16	2.7	18	75	18	64	58	0	0	41	0.98
4993286--4993334	17	2.8	17	75	25	57	57	0	0	42	0.99
4993687--4993742	25	2.2	26	78	15	64	39	3	0	57	1.16
4994220--4994366	72	2.0	73	94	1	260	38	10	10	40	1.74
4994425--4994522	31	2.9	32	75	15	92	30	1	6	62	1.26
4995947--4995987	20	2.0	20	85	0	55	58	0	0	41	0.98
4996029--4996135	45	2.4	45	80	3	126	24	1	7	66	1.28
4996202--4996242	17	2.6	16	81	11	57	43	0	0	56	0.99
4996163--4996242	15	4.9	16	72	18	58	41	0	0	58	0.98
4996533--4996567	18	1.9	18	88	0	52	37	11	5	45	1.64
4996831--4996860	15	2.0	15	93	0	51	83	0	0	16	0.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4997130--4997157	3	9.3	3	100	0	56	0	32	0	67	0.91
5001027--5001099	29	2.5	29	73	10	67	41	0	1	57	1.07
5001890--5001923	3	11.3	3	100	0	68	64	0	0	35	0.94
5002461--5002541	24	3.4	23	72	26	62	59	0	0	40	0.98
5002479--5002541	13	5.1	13	74	12	53	58	0	0	41	0.98
5002982--5003009	3	9.3	3	100	0	56	35	0	0	64	0.94
5010299--5010360	27	2.3	27	83	5	72	51	3	3	41	1.34
5010894--5010937	22	2.0	22	86	0	61	40	4	4	50	1.43
5012108--5012148	2	21.0	2	95	5	75	51	0	0	48	1.00
5016275--5016326	22	2.4	22	90	0	77	26	15	1	55	1.50
5018492--5018567	38	2.0	38	100	0	152	18	21	10	50	1.76
5024180--5024213	2	17.0	2	93	0	59	50	2	0	47	1.16
5026119--5026212	39	2.4	40	90	1	145	28	5	1	64	1.22
5027469--5027497	2	14.5	2	100	0	58	51	0	0	48	1.00
5031813--5031840	2	14.0	2	100	0	56	50	0	0	50	1.00
5033206--5033231	2	13.0	2	100	0	52	50	0	0	50	1.00
5034447--5034534	16	5.4	17	72	18	62	60	0	2	37	1.10
5037734--5037797	12	5.4	12	80	10	78	50	0	0	50	1.00
5037749--5037838	30	3.1	29	76	13	94	53	1	0	45	1.07
5044414--5044447	18	1.9	17	88	5	50	61	0	0	38	0.96
5045505--5045581	15	5.0	15	90	4	64	24	0	0	75	0.81
5045525--5045590	3	21.7	3	90	3	105	30	1	0	68	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5049569--5049598	15	2.0	15	93	0	51	43	16	6	33	1.74
5051546--5051740	97	2.0	97	85	2	266	41	22	11	25	1.87
5054643--5054680	15	2.4	16	86	4	51	78	2	7	10	1.04
5058596--5058630	2	17.5	2	100	0	70	51	0	48	0	1.00
5060815--5060877	32	1.9	32	87	3	90	53	3	4	38	1.38
5061488--5061528	19	2.2	19	86	4	57	68	9	2	19	1.29
5062567--5062617	22	2.3	22	96	0	93	31	3	11	52	1.56
5062906--5062935	12	2.4	13	94	5	53	83	0	16	0	0.65
5062895--5062934	19	2.0	20	90	4	64	80	0	20	0	0.72
5063209--5063242	11	3.0	12	91	8	54	32	0	0	67	0.91
5063669--5063781	58	1.9	59	82	5	140	31	10	7	50	1.64
5063914--5063973	19	2.9	20	80	14	77	80	0	20	0	0.72
5063916--5063960	23	1.9	23	90	4	72	75	0	24	0	0.80
5063907--5063970	4	16.5	4	71	12	53	78	0	20	1	0.84
5064784--5064836	14	3.4	15	71	19	54	41	0	0	58	0.98
5064802--5064851	20	2.5	22	78	18	63	38	0	2	60	1.09
5064794--5064847	15	3.2	17	70	21	51	42	0	1	55	1.10
5064912--5064959	22	2.2	22	85	7	62	37	2	0	60	1.09
5065379--5065416	20	1.9	20	89	10	60	42	0	5	52	1.24
5065378--5065421	17	2.3	20	81	11	58	36	0	4	59	1.18
5065886--5065948	14	4.4	14	71	21	51	57	0	0	42	0.99
5072334--5072382	24	2.1	22	85	7	62	65	4	2	28	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5072637--5072663	13	2.1	13	100	0	54	62	0	0	37	0.95
5072640--5072771	12	11.0	12	65	22	55	62	4	0	32	1.15
5072643--5072767	49	2.5	51	75	10	134	62	4	0	32	1.16
5072965--5073004	21	1.9	21	90	10	64	72	5	0	22	1.04
5073240--5073285	24	2.0	23	82	4	56	60	2	4	32	1.28
5073409--5073496	35	2.6	34	84	15	114	64	2	0	32	1.06
5073418--5073471	26	2.1	26	82	6	65	62	1	0	35	1.06
5076277--5076316	13	3.0	14	82	10	57	52	0	0	47	1.00
5076305--5076379	30	2.5	30	79	14	75	56	2	2	38	1.28
5076357--5076402	13	3.6	13	77	16	51	54	4	0	41	1.20
5076997--5077024	2	14.0	2	100	0	56	50	0	0	50	1.00
5077189--5077214	3	8.7	3	100	0	52	69	0	0	30	0.89
5077788--5077870	36	2.3	34	77	18	80	50	3	1	44	1.27
5082878--5082921	22	2.0	22	100	0	88	54	4	9	31	1.52
5084189--5084229	19	2.2	19	86	8	57	53	2	2	41	1.27
5088753--5088837	20	4.4	20	72	10	63	45	1	0	52	1.08
5089155--5089208	16	3.2	16	76	5	54	55	5	1	37	1.34
5089218--5089256	18	2.2	17	90	4	60	48	5	0	46	1.24
5090885--5090917	16	2.0	16	94	5	57	84	0	15	0	0.61
5101771--5101800	13	2.2	14	94	5	53	30	0	0	70	0.88
5103772--5103829	2	30.0	2	89	6	84	46	0	1	51	1.11
5109822--5109949	20	6.3	20	89	1	175	50	10	0	39	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5109822--5109951	22	6.3	22	83	13	168	50	10	0	39	1.42
5109822--5109952	4	32.8	4	84	0	136	49	9	0	39	1.42
5109822--5109952	6	21.8	6	83	0	136	49	9	0	39	1.42
5115863--5115902	16	2.5	16	95	0	71	35	20	2	42	1.65
5116012--5116043	15	2.1	15	94	0	55	31	18	43	6	1.75
5123413--5123455	18	2.4	18	80	3	52	62	0	0	37	0.95
5123499--5123531	14	2.5	13	90	9	50	60	0	0	39	0.97
5125514--5125568	27	2.0	27	92	0	92	40	0	1	58	1.09
5125521--5125578	27	2.1	27	80	0	62	44	1	3	50	1.29
5126254--5126288	2	17.5	2	100	0	70	51	0	0	48	1.00

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