genome.fa.s29.2.7.7.80.10.50.1000.29.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: Scaffold29
Parameters: 2 7 7 80 10 50 1000
Length:  5511024

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   34   

This is table  29  of  34  ( 4030 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)
4556743--4556810	22	3.1	21	66	26	52	30	17	25	26	1.97
4556854--4557074	32	6.8	32	84	8	288	19	19	33	27	1.96
4556854--4557074	96	2.3	96	92	5	365	19	19	33	27	1.96
4557116--4557300	34	5.7	34	74	10	179	34	12	34	18	1.88
4557183--4557304	61	2.0	61	90	0	190	31	13	35	19	1.91
4557276--4557334	29	2.0	30	90	3	93	27	15	32	25	1.95
4572679--4572703	13	1.9	13	100	0	50	36	16	16	32	1.90
4572746--4572798	20	2.7	20	88	2	81	37	16	11	33	1.85
4575691--4575720	15	2.0	15	93	0	51	33	23	26	16	1.96
4578192--4578252	10	5.8	10	81	14	70	83	9	3	3	0.87
4579469--4579823	28	12.6	28	89	2	496	28	32	17	21	1.96
4579467--4579898	56	7.5	57	85	5	543	28	31	17	23	1.97
4579469--4579823	113	3.1	113	91	1	561	28	32	17	21	1.96
4579803--4579885	32	2.7	31	85	9	107	27	27	14	30	1.95
4579961--4580082	49	2.6	45	80	10	129	22	26	19	31	1.98
4580449--4580556	20	4.8	20	68	25	74	28	19	12	38	1.89
4580469--4580604	51	2.7	50	87	4	182	27	18	13	40	1.89
4584159--4584211	25	2.1	25	89	0	79	24	18	9	47	1.78
4585468--4585581	29	4.0	28	83	8	140	16	10	14	58	1.62
4585473--4585585	58	1.9	58	87	3	165	16	11	13	58	1.63
4590004--4590051	21	2.3	21	82	10	64	43	4	20	31	1.71
4597864--4597900	3	12.3	3	88	0	56	27	32	2	37	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4597847--4597900	15	3.9	14	79	18	51	25	35	1	37	1.67
4603926--4604429	164	3.1	162	81	6	488	31	10	8	49	1.68
4604065--4604429	159	2.3	162	82	5	418	32	9	8	49	1.66
4605134--4605180	4	11.8	4	77	8	51	80	0	19	0	0.70
4605132--4605182	16	3.2	16	86	13	70	82	0	17	0	0.67
4605133--4605180	12	3.9	12	83	10	62	81	0	18	0	0.70
4605132--4605176	13	3.5	13	87	9	65	82	0	17	0	0.68
4606027--4606051	5	5.0	5	100	0	50	80	0	0	20	0.72
4606106--4606312	111	1.9	111	83	4	274	27	11	16	44	1.82
4606714--4607132	148	2.8	148	88	3	630	26	22	20	31	1.98
4612431--4612560	68	1.9	68	90	0	206	40	15	17	26	1.90
4616812--4616930	51	2.4	51	85	2	161	28	15	12	43	1.83
4616884--4616961	31	2.5	32	77	10	90	29	15	12	42	1.84
4620111--4620141	13	2.4	13	94	0	53	35	12	16	35	1.87
4620089--4620157	33	2.1	33	86	5	95	36	17	13	33	1.88
4620773--4620848	21	3.7	21	76	3	91	32	28	2	35	1.71
4628715--4628765	20	2.5	21	84	9	70	35	19	11	33	1.88
4628794--4628848	20	2.8	20	88	2	76	38	18	10	32	1.85
4628850--4628899	20	2.5	20	96	0	91	46	16	12	26	1.81
4631116--4631183	8	8.2	8	75	15	59	80	2	2	13	0.93
4631127--4631181	10	5.5	10	76	21	53	83	3	0	12	0.77
4631127--4631182	22	2.7	20	84	13	76	83	3	0	12	0.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4634651--4634738	40	2.2	40	83	0	113	43	20	28	7	1.80
4634800--4634852	22	2.3	23	83	6	72	64	13	20	1	1.38
4636214--4636831	157	3.9	157	83	5	698	24	17	20	37	1.94
4639414--4639529	42	2.8	42	74	10	112	19	21	12	45	1.84
4639382--4640006	84	7.4	82	78	8	530	18	23	13	45	1.84
4639588--4639981	42	9.4	41	65	16	146	18	22	13	44	1.85
4639353--4639965	169	3.6	170	80	6	635	18	22	13	45	1.85
4639353--4640026	253	2.7	252	80	8	687	18	22	13	45	1.84
4639847--4640008	42	3.9	41	76	8	148	16	21	14	48	1.81
4640758--4640783	13	2.0	13	100	0	52	30	15	15	38	1.88
4640738--4640801	32	2.0	33	90	3	103	28	14	15	42	1.86
4641437--4641472	18	2.0	18	100	0	72	38	16	5	38	1.72
4643839--4643864	13	2.0	13	100	0	52	30	15	15	38	1.88
4646405--4646442	13	2.9	13	96	0	67	31	15	18	34	1.92
4646431--4646507	20	3.6	20	77	16	73	42	15	15	25	1.86
4648515--4648545	15	2.1	15	93	0	53	12	22	16	48	1.80
4650349--4650393	21	2.1	21	84	8	56	22	20	4	53	1.63
4652611--4652636	13	2.0	13	100	0	52	30	15	15	38	1.88
4655354--4655384	15	2.1	15	93	0	53	12	22	16	48	1.80
4658933--4659245	149	2.1	150	82	5	366	29	10	10	49	1.70
4660706--4660793	40	2.2	40	83	0	113	43	20	28	7	1.80
4660855--4660907	22	2.3	23	83	6	72	64	13	20	1	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4662266--4662883	157	3.9	156	83	5	694	24	17	20	37	1.94
4665467--4665582	42	2.8	42	74	10	112	19	21	12	45	1.84
4665406--4666080	84	8.0	82	78	8	542	18	22	13	45	1.84
4665646--4666034	42	9.2	42	65	16	144	18	22	13	45	1.84
4665406--4666079	253	2.7	252	81	8	705	18	22	13	45	1.84
4665406--4666018	169	3.6	170	78	8	628	18	22	13	45	1.85
4665900--4666061	42	3.9	41	76	8	148	16	21	14	48	1.81
4666833--4666896	32	2.0	33	87	3	94	29	14	14	42	1.84
4668290--4668704	163	2.5	162	80	7	430	30	11	7	49	1.67
4670195--4670219	5	5.0	5	100	0	50	80	0	0	20	0.72
4670242--4670618	143	2.6	144	82	5	433	34	10	11	44	1.74
4670900--4671338	148	3.0	147	84	3	533	27	21	20	31	1.97
4672089--4673784	681	2.5	681	95	0	2964	33	15	16	34	1.91
4676440--4676540	32	3.1	32	92	1	157	33	10	19	35	1.87
4676473--4676534	19	3.6	18	75	24	71	29	12	20	37	1.90
4676578--4676602	13	1.9	13	100	0	50	32	16	16	36	1.90
4676611--4676791	52	3.5	52	95	0	317	34	18	19	27	1.95
4689363--4689483	52	2.3	52	92	0	206	28	17	18	36	1.93
4689363--4689503	52	2.7	51	85	4	194	29	17	18	34	1.93
4689492--4689516	13	1.9	13	100	0	50	36	16	16	32	1.90
4689583--4689607	13	1.9	13	100	0	50	32	16	16	36	1.90
4689561--4689627	33	2.0	33	88	0	98	40	13	11	34	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4694203--4694257	24	2.4	24	87	6	78	83	7	7	1	0.87
4694203--4694260	23	2.5	22	83	8	80	82	8	6	1	0.90
4695711--4696173	59	7.8	59	94	0	791	29	30	16	23	1.96
4696241--4696652	43	9.0	43	77	13	376	26	24	17	31	1.97
4696334--4696705	92	4.0	92	88	2	539	26	23	17	32	1.96
4696235--4696696	141	3.3	138	80	10	476	26	24	17	32	1.96
4696499--4696559	21	2.9	21	68	20	54	26	24	19	29	1.99
4696606--4696727	52	2.3	55	81	7	153	27	23	12	36	1.91
4696781--4696962	43	4.1	43	86	8	265	25	25	18	30	1.98
4696780--4697006	43	4.9	44	82	11	260	25	24	18	31	1.97
4696778--4697015	92	2.5	94	91	2	381	25	25	17	31	1.97
4696894--4696961	21	3.2	21	64	25	52	27	27	16	27	1.97
4696467--4697120	310	2.1	310	93	0	1112	24	24	16	34	1.95
4697700--4697770	19	3.7	19	96	1	124	32	11	18	38	1.86
4697846--4698121	52	5.4	52	82	9	334	33	17	18	29	1.95
4697898--4697936	14	2.9	14	88	3	62	33	17	12	35	1.88
4697813--4698009	99	2.0	99	98	0	385	32	17	16	32	1.92
4697818--4698121	99	3.0	98	87	5	351	33	18	18	30	1.94
4702835--4703011	98	1.8	96	83	7	232	40	12	18	28	1.87
4704454--4704508	20	2.8	20	82	0	74	43	9	14	32	1.77
4705448--4705646	52	3.8	51	80	5	211	37	16	20	25	1.93
4705570--4705752	95	1.9	95	83	2	233	31	16	27	25	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4705794--4705951	58	2.7	58	77	3	156	37	15	20	25	1.92
4707337--4707380	18	2.3	20	88	7	65	13	0	6	79	0.92
4707337--4707381	19	2.3	20	81	11	58	13	0	6	80	0.91
4710058--4710090	17	1.9	17	100	0	66	12	30	0	57	1.35
4710092--4710126	7	5.0	7	100	0	70	42	42	0	14	1.45
4715418--4715779	79	4.5	79	82	5	408	34	12	24	27	1.92
4715417--4715779	158	2.3	160	85	3	473	34	12	24	27	1.92
4715712--4715825	51	2.3	51	89	1	185	33	10	26	29	1.90
4718187--4718241	20	2.8	20	81	8	67	47	12	10	29	1.76
4719963--4720023	23	2.6	23	81	2	77	36	22	9	31	1.87

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   34