genome.fa.s106.2.7.7.80.10.50.1000.16.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: Scaffold106
Parameters: 2 7 7 80 10 50 1000
Length:  4928209

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   

This is table  16  of  27  ( 3135 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)
2583519--2583585	33	2.0	33	97	0	125	38	22	8	29	1.85
2585088--2585128	4	10.8	4	82	10	50	82	0	17	0	0.66
2585086--2585128	15	2.9	15	92	0	68	83	0	16	0	0.64
2585086--2585124	18	2.1	18	95	4	69	84	0	15	0	0.62
2585137--2585171	15	2.3	15	90	0	52	34	0	0	65	0.93
2585755--2585809	11	4.9	11	78	10	58	21	1	7	69	1.23
2586042--2586097	8	6.2	9	80	17	55	37	1	3	57	1.27
2586045--2586095	19	2.6	19	93	3	84	35	1	3	58	1.28
2586042--2586113	27	2.6	28	81	14	71	34	4	2	58	1.32
2587517--2587569	16	3.2	16	80	17	63	54	0	0	45	0.99
2587508--2587556	17	2.9	17	77	20	57	57	0	0	42	0.99
2587526--2587607	27	3.1	24	75	24	76	56	0	0	43	0.99
2587662--2587696	2	17.5	2	100	0	70	0	51	0	48	1.00
2587775--2587812	14	2.8	13	84	7	58	31	10	0	57	1.32
2589364--2589393	15	1.9	16	93	6	53	16	0	10	73	1.09
2593527--2593567	21	2.0	20	85	4	55	31	0	0	68	0.90
2598825--2598883	21	2.7	21	75	15	57	42	0	0	57	0.98
2600137--2600163	2	13.5	2	100	0	54	51	0	0	48	1.00
2602412--2602479	31	2.2	32	84	10	95	60	0	0	39	0.97
2602992--2603046	24	2.2	24	74	3	56	27	5	10	56	1.56
2603683--2603744	29	2.1	29	85	11	83	40	0	1	58	1.08
2603738--2603802	20	3.3	20	73	14	64	58	0	1	40	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2603745--2603802	19	3.1	18	78	16	64	58	0	1	39	1.08
2603891--2603931	20	2.0	22	85	9	59	46	9	0	43	1.36
2609493--2609558	28	2.2	29	82	15	82	50	0	0	50	1.00
2609501--2609560	28	2.1	28	87	9	86	48	0	0	51	1.00
2612779--2612818	2	20.0	2	89	0	62	45	0	55	0	0.99
2613021--2613070	20	2.5	20	77	9	57	24	0	6	70	1.10
2616367--2616418	11	5.0	11	82	17	67	36	0	0	63	0.95
2616744--2616802	16	4.0	14	76	18	57	74	1	0	23	0.91
2616724--2616777	20	2.7	19	76	17	56	70	0	1	27	0.98
2616757--2616805	24	1.9	25	88	12	73	73	2	0	24	0.94
2616744--2616879	16	8.7	16	71	16	56	69	2	0	27	1.02
2616757--2616805	26	1.9	26	87	4	73	73	2	0	24	0.94
2616732--2616809	39	2.0	39	87	5	113	70	1	1	26	1.03
2616757--2616872	25	4.5	25	70	17	69	69	3	0	26	1.04
2616812--2616931	61	2.0	60	81	6	143	67	1	1	29	1.10
2616832--2616978	61	2.4	61	80	8	156	65	2	1	29	1.14
2616925--2616984	28	2.1	28	87	0	84	63	5	0	31	1.16
2616977--2617001	13	1.9	13	100	0	50	40	4	0	56	1.18
2617007--2617098	8	11.5	8	68	25	52	32	1	3	63	1.18
2617141--2617182	19	2.3	19	84	12	52	26	0	4	69	1.08
2617148--2617184	19	2.1	19	90	10	60	32	0	0	67	0.91
2617643--2617706	24	2.7	23	73	7	65	48	4	3	43	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2623597--2623631	2	17.5	2	100	0	70	0	48	0	51	1.00
2626478--2626504	2	13.5	2	100	0	54	0	51	0	48	1.00
2637092--2637134	2	21.5	2	100	0	86	51	0	0	48	1.00
2640826--2640871	19	2.5	19	96	3	85	54	4	8	32	1.51
2643702--2643728	5	5.4	5	100	0	54	81	0	0	18	0.69
2651404--2651435	2	16.0	2	100	0	64	50	0	0	50	1.00
2653485--2653703	34	6.5	34	83	2	253	27	6	24	41	1.80
2653485--2653703	102	2.2	101	87	1	312	27	6	24	41	1.80
2658112--2658369	34	7.5	34	83	6	277	26	7	24	41	1.81
2658180--2658291	39	3.0	39	89	6	162	29	8	20	41	1.83
2658146--2658356	107	2.0	107	83	1	271	25	8	25	41	1.82
2658113--2658368	141	1.8	140	89	0	404	26	7	24	41	1.81
2660771--2660800	11	2.7	11	89	0	51	56	6	6	30	1.51
2663522--2663569	22	2.2	22	81	7	53	58	0	0	41	0.98
2663529--2663583	27	2.1	27	93	3	94	52	0	0	47	1.00
2666157--2666182	13	2.0	13	100	0	52	30	7	23	38	1.83
2670715--2670758	19	2.2	20	88	11	65	68	0	0	31	0.90
2671681--2671717	17	2.1	18	85	14	51	62	0	0	37	0.96
2673461--2673497	2	18.5	2	100	0	74	48	0	0	51	1.00
2673580--2673622	20	2.1	21	86	4	61	53	0	2	44	1.13
2674115--2674198	16	5.4	16	72	22	54	42	0	0	57	0.99
2674149--2674185	12	3.0	12	88	4	56	37	0	0	62	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2674724--2674766	19	2.3	19	84	8	52	67	0	0	32	0.91
2674696--2674767	28	2.5	29	80	13	78	65	0	1	33	1.02
2674725--2674766	10	4.2	10	81	9	50	69	0	0	30	0.89
2675267--2675296	2	15.0	2	92	0	51	0	46	0	53	1.00
2676678--2676702	2	12.5	2	100	0	50	52	0	0	48	1.00
2677123--2677170	14	3.2	15	94	5	80	41	0	0	58	0.98
2677129--2677171	22	2.0	22	95	0	77	41	0	0	58	0.98
2677129--2677170	7	5.9	7	94	5	75	42	0	0	57	0.99
2677572--2677624	22	2.4	22	84	9	63	54	3	0	41	1.18
2679915--2679942	2	14.0	2	100	0	56	0	50	0	50	1.00
2680362--2680398	16	2.3	16	90	0	56	70	0	0	29	0.88
2680523--2680581	24	2.5	23	78	5	64	23	5	1	69	1.18
2680756--2680801	12	4.0	12	73	21	53	39	0	0	60	0.97
2680768--2680814	22	2.1	22	88	7	69	40	0	2	57	1.11
2682739--2682765	3	9.0	3	100	0	54	33	0	0	66	0.92
2682948--2683049	34	3.0	33	79	11	109	49	0	0	49	1.14
2682934--2682990	22	2.5	22	77	2	60	49	0	1	49	1.11
2682948--2683057	16	6.1	18	69	18	68	48	0	0	50	1.13
2683431--2683487	19	3.2	19	73	19	59	57	0	0	42	0.98
2686583--2686624	8	5.5	8	80	11	52	57	2	0	40	1.12
2686584--2686634	13	3.6	14	87	10	68	58	1	1	37	1.20
2687991--2688048	24	2.6	23	80	20	77	31	8	46	13	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2691302--2691345	14	3.1	14	80	0	52	52	2	0	45	1.13
2694738--2695023	141	2.0	142	95	2	513	39	22	14	23	1.90
2697795--2697825	13	2.4	13	94	0	53	16	0	3	80	0.83
2702200--2702254	25	2.2	26	90	3	85	27	14	25	32	1.95
2704700--2704808	30	3.6	31	97	2	204	30	15	7	46	1.73
2706429--2706836	205	2.0	197	90	6	642	34	11	18	36	1.86
2706691--2707234	277	2.0	267	89	4	829	29	14	19	36	1.91
2708463--2708498	17	2.1	17	89	0	54	38	0	5	55	1.23
2709808--2709839	16	1.9	17	93	6	57	34	0	0	65	0.93
2709807--2709907	10	9.9	10	68	12	62	38	0	0	60	1.04
2710121--2710159	18	2.2	18	86	9	53	35	2	0	61	1.10
2710869--2710900	15	2.1	15	94	0	55	21	68	3	6	1.26
2710890--2710972	39	2.1	39	93	0	139	20	54	9	15	1.69
2710944--2711092	72	2.1	72	90	0	235	19	56	8	16	1.64
2711064--2711116	6	8.8	6	89	0	52	16	67	0	15	1.23
2711070--2711123	9	6.0	9	86	0	54	18	66	0	14	1.25
2713209--2713250	21	2.0	22	85	4	59	50	0	0	50	1.00
2713763--2713835	35	2.1	35	85	10	96	35	4	0	60	1.16
2716135--2716187	28	2.0	26	85	14	72	56	0	0	43	0.99
2716129--2716241	34	3.4	31	77	16	79	56	0	0	41	1.11
2718505--2718540	2	18.5	2	94	5	65	52	0	0	47	1.00
2720240--2720266	2	13.5	2	100	0	54	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2720301--2720341	15	2.5	17	80	11	50	39	0	0	60	0.96
2720302--2720348	22	2.0	24	88	8	71	34	0	0	65	0.93
2723543--2723567	11	2.3	11	100	0	50	0	16	0	84	0.63
2724037--2724078	17	2.5	17	84	0	57	57	0	0	42	0.99
2725886--2725931	24	2.0	24	87	8	69	50	0	0	50	1.00
2725886--2725935	22	2.3	21	83	13	57	50	0	0	50	1.00
2727620--2727654	14	2.5	14	90	0	52	37	0	0	62	0.95
2727720--2727771	25	2.1	24	82	3	59	55	1	0	42	1.10
2732980--2733064	30	2.9	30	75	8	93	40	0	1	58	1.05
2732982--2733111	10	12.2	11	67	21	55	40	0	0	58	1.03

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