genome.fa.s20.2.7.7.80.10.50.1000.23.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: Scaffold20
Parameters: 2 7 7 80 10 50 1000
Length:  3599867

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  23  of  25  ( 2919 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)
3357806--3357888	31	2.6	31	86	3	103	54	28	4	12	1.58
3358196--3358241	20	2.4	19	79	13	51	39	2	2	56	1.24
3358196--3358248	19	2.8	20	78	16	60	33	1	1	62	1.17
3359065--3359192	52	2.5	52	89	1	186	32	16	11	39	1.85
3360812--3360851	21	1.9	21	85	10	55	40	7	0	52	1.30
3364109--3364133	12	2.1	12	100	0	50	16	0	0	84	0.63
3364899--3364947	23	2.1	23	81	7	55	46	0	2	51	1.12
3365279--3365314	17	2.2	16	90	5	54	55	2	0	41	1.14
3365580--3365659	32	2.6	31	78	16	87	48	2	3	45	1.33
3366297--3366338	22	2.0	21	85	4	57	47	0	7	45	1.30
3366361--3366398	16	2.4	17	82	13	53	44	0	7	47	1.32
3367125--3367225	30	3.4	29	80	9	116	38	0	0	60	1.04
3367142--3367229	30	3.0	30	86	8	126	35	0	0	64	0.94
3368198--3368244	14	3.4	14	82	5	60	74	0	2	23	0.93
3368204--3368253	19	2.7	19	84	3	57	72	0	2	26	0.96
3368229--3368296	18	3.7	18	76	5	57	63	0	0	36	0.95
3368189--3368304	14	8.0	14	68	23	53	63	0	0	35	1.00
3368987--3369016	2	15.0	2	100	0	60	0	50	0	50	1.00
3373773--3373832	30	2.0	30	87	6	86	38	0	1	60	1.07
3373832--3373857	13	2.0	13	100	0	52	38	0	7	53	1.30
3373989--3374067	12	6.4	13	70	16	53	56	0	0	43	0.99
3373993--3374067	11	6.4	11	72	23	55	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3373993--3374067	23	3.2	23	80	17	91	57	0	0	42	0.98
3373993--3374067	24	3.2	24	82	17	95	57	0	0	42	0.98
3375421--3375468	3	16.0	3	85	8	53	60	2	2	35	1.20
3375428--3375474	15	3.1	15	82	11	60	55	2	0	42	1.12
3375440--3375476	18	2.1	18	94	0	65	51	2	0	45	1.15
3375798--3375846	16	3.1	16	74	11	55	40	0	0	59	0.98
3375772--3375839	18	3.7	18	73	23	61	42	0	0	57	0.98
3375802--3375872	32	2.2	33	87	7	101	39	0	1	59	1.06
3375796--3375893	18	5.4	19	74	15	84	35	0	1	63	1.02
3375952--3376028	27	2.8	24	75	22	64	41	1	1	55	1.16
3376484--3376549	29	2.4	26	80	12	78	60	0	1	37	1.06
3379342--3379412	22	3.1	22	76	8	54	56	4	1	38	1.28
3382416--3382445	15	2.0	15	93	0	51	53	0	3	43	1.17
3382815--3382954	20	7.6	20	65	23	58	42	0	0	56	1.04
3382811--3382856	23	2.0	23	86	0	65	36	0	0	63	0.95
3382861--3382912	15	3.1	18	72	27	60	51	0	0	48	1.00
3382856--3382929	18	4.2	19	72	22	72	48	0	0	51	1.00
3382924--3382961	19	2.0	20	89	5	60	28	2	0	68	1.03
3383642--3383723	28	3.0	27	72	12	76	43	3	0	52	1.18
3385186--3385210	3	8.3	3	100	0	50	36	0	64	0	0.94
3386389--3386432	16	2.7	16	78	3	52	68	2	4	25	1.20
3386994--3387024	2	15.5	2	93	0	53	48	0	3	48	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3388196--3388229	17	2.0	17	88	0	50	2	17	2	76	1.04
3388656--3388701	3	15.3	3	100	0	92	34	0	0	65	0.93
3388880--3388933	21	2.5	22	77	14	67	44	0	0	55	0.99
3388886--3388929	22	2.0	22	86	4	61	45	0	0	54	0.99
3390317--3390433	47	2.5	47	81	5	130	53	1	6	37	1.38
3389948--3390433	231	2.1	225	79	9	522	51	3	7	38	1.46
3390988--3391029	15	2.6	16	81	7	50	78	2	2	16	0.96
3391296--3391369	21	3.4	21	83	5	85	58	1	4	36	1.26
3391556--3391615	20	3.1	20	73	21	65	61	3	0	35	1.12
3391561--3391634	18	4.0	17	75	17	67	58	2	1	37	1.21
3393037--3393097	25	2.4	25	78	8	70	42	3	3	50	1.34
3393062--3393127	32	2.1	32	85	2	89	39	3	1	56	1.24
3393774--3393815	20	2.0	20	86	4	57	50	2	7	40	1.43
3393781--3393825	20	2.2	20	88	7	65	42	4	6	46	1.50
3394169--3394261	17	5.6	16	72	18	75	51	4	1	43	1.28
3394686--3394734	16	3.3	15	76	18	50	55	0	2	42	1.11
3394972--3395004	13	2.4	14	90	5	50	60	0	0	39	0.97
3395189--3395312	59	2.1	59	86	7	173	31	12	8	47	1.71
3396327--3396397	33	2.2	32	85	7	90	56	2	0	40	1.14
3396273--3396445	15	11.0	15	69	21	81	60	2	1	34	1.22
3396370--3396445	8	10.1	8	73	18	58	65	0	0	34	0.93
3398818--3399070	126	2.0	126	96	0	470	34	10	29	25	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3402513--3402538	2	13.0	2	100	0	52	0	0	50	50	1.00
3404741--3404774	10	3.4	10	91	0	59	47	0	0	52	1.00
3407016--3407041	2	13.0	2	100	0	52	50	0	50	0	1.00
3408560--3408608	20	2.3	20	82	6	53	20	4	8	67	1.34
3410266--3410304	20	2.0	20	85	5	53	41	5	5	48	1.47
3410718--3410784	6	11.5	6	71	23	54	61	1	0	37	1.05
3410714--3410772	11	4.2	14	73	26	54	61	0	0	38	0.96
3410711--3410769	16	3.6	16	80	13	59	59	0	0	40	0.97
3411338--3411390	24	2.2	24	80	12	65	33	3	0	62	1.13
3411617--3411716	29	3.6	28	76	9	98	63	0	4	33	1.13
3411617--3411687	17	4.6	16	73	16	60	64	0	5	29	1.16
3411691--3411741	14	3.5	15	73	26	56	52	0	1	45	1.12
3412243--3412328	44	2.0	44	83	0	109	39	9	5	45	1.60
3413197--3413244	16	3.1	16	80	11	55	37	2	0	60	1.09
3413543--3413581	6	6.5	6	90	0	60	20	33	15	30	1.94
3413734--3413762	2	14.5	2	100	0	58	48	0	51	0	1.00
3414800--3414827	2	14.0	2	100	0	56	50	0	0	50	1.00
3416435--3416462	2	14.0	2	100	0	56	50	0	0	50	1.00
3416648--3416676	2	14.5	2	100	0	58	51	0	0	48	1.00
3417167--3417231	3	22.0	3	96	3	123	66	0	0	33	0.92
3418260--3418310	24	2.1	25	82	10	61	41	0	1	56	1.10
3418263--3418345	21	3.8	21	76	10	60	50	0	1	48	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3418556--3418611	18	3.1	18	82	10	78	44	0	0	55	0.99
3418555--3418605	18	2.8	19	85	8	79	41	0	0	58	0.98
3418556--3418618	18	3.5	17	81	10	72	44	0	0	55	0.99
3418677--3418734	25	2.3	25	84	0	71	41	1	0	56	1.09
3419918--3419988	35	2.1	34	81	7	81	59	0	2	38	1.12
3420026--3420059	16	2.2	15	89	5	50	50	0	0	50	1.00
3420488--3420538	20	2.6	20	87	3	68	54	1	5	37	1.36
3420551--3420595	22	2.0	23	82	4	56	55	0	0	44	0.99
3420641--3420682	22	1.9	22	85	0	57	52	2	0	45	1.13
3420768--3420818	16	3.2	16	77	5	59	47	0	0	52	1.00
3420775--3420819	23	2.0	22	87	12	65	48	0	0	51	1.00
3421156--3421257	39	2.6	39	87	1	141	34	18	20	26	1.96
3421418--3421528	16	6.9	16	69	13	75	59	0	0	40	0.97
3421420--3421532	11	11.0	11	66	20	66	59	0	0	40	0.97
3421426--3421505	20	4.1	19	75	10	63	57	0	0	42	0.98
3421757--3421813	18	3.0	20	71	19	50	57	1	1	38	1.19
3422716--3422751	11	3.4	11	88	7	56	38	0	0	61	0.96
3422721--3422784	21	3.0	21	77	22	71	35	0	1	62	1.05
3422732--3422782	24	2.1	24	85	7	68	35	0	1	62	1.06
3423666--3423708	14	3.3	13	78	9	52	48	0	0	51	1.00
3423996--3424035	21	1.9	21	85	10	55	35	0	2	62	1.09
3424699--3424732	13	2.7	13	90	4	52	73	0	0	26	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3425050--3425092	18	2.5	17	85	14	61	34	0	0	65	0.93
3425051--3425212	20	8.2	20	66	23	69	35	1	3	60	1.20
3425049--3425112	11	6.3	10	81	18	55	34	0	0	65	0.93
3425180--3425222	14	3.1	14	80	10	52	39	0	2	58	1.11
3425181--3425219	20	2.0	20	85	10	53	38	0	2	58	1.12
3426861--3426978	9	14.4	8	67	25	52	59	0	2	37	1.17
3426867--3426978	19	5.9	18	71	17	77	58	0	2	37	1.18
3426846--3426986	13	10.8	13	65	27	59	60	0	2	36	1.17
3427225--3427283	26	2.2	26	87	3	82	69	0	0	30	0.89
3433528--3433565	2	19.0	2	91	0	58	44	0	2	52	1.14

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