genome.fa.s8.2.7.7.80.10.50.1000.18.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: Scaffold8
Parameters: 2 7 7 80 10 50 1000
Length:  6381039

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   

This is table  18  of  33  ( 3942 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)
2606799--2606870	25	2.9	25	75	19	71	45	0	0	54	0.99
2606804--2606864	29	2.0	32	87	12	92	47	0	0	52	1.00
2606776--2606868	49	1.9	48	82	6	116	44	1	0	54	1.07
2606830--2606912	41	1.9	46	83	11	113	40	0	1	57	1.06
2606821--2606911	33	2.7	33	77	11	105	42	0	1	56	1.06
2606898--2606963	11	6.0	11	71	13	55	34	0	0	65	0.93
2606785--2606955	19	9.2	19	68	18	69	40	0	0	57	1.07
2606840--2606963	47	2.8	44	75	13	119	38	0	0	60	1.02
2615496--2615521	2	13.0	2	100	0	52	50	0	0	50	1.00
2616065--2616132	9	7.6	9	71	11	50	30	0	2	66	1.07
2616080--2616137	18	3.2	18	80	4	71	24	0	3	72	1.00
2616070--2616132	27	2.3	28	84	13	87	28	0	3	68	1.05
2616080--2616137	19	3.1	19	73	11	57	24	0	3	72	1.00
2623001--2623060	4	15.0	4	96	0	66	0	60	0	40	0.97
2628317--2628541	123	1.8	123	100	0	450	28	16	27	28	1.97
2632028--2632053	9	2.9	9	100	0	52	23	34	42	0	1.54
2633597--2633622	2	13.0	2	100	0	52	50	0	0	50	1.00
2637697--2637732	18	2.0	18	100	0	72	33	22	16	27	1.95
2639242--2639334	20	4.8	20	69	27	67	41	0	1	56	1.06
2639257--2639306	19	2.7	18	77	14	57	48	0	0	52	1.00
2639986--2640017	2	16.0	2	100	0	64	50	0	0	50	1.00
2642884--2642927	15	2.9	15	86	0	52	4	15	34	45	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2642884--2642937	21	2.6	21	85	5	65	3	18	35	42	1.68
2644181--2644234	3	18.0	3	100	0	108	33	0	0	66	0.92
2645789--2645813	3	8.3	3	100	0	50	36	32	32	0	1.58
2646111--2646145	3	11.7	3	100	0	70	0	0	34	65	0.93
2649733--2649769	2	18.5	2	94	0	65	0	51	0	48	1.00
2652496--2652585	39	2.2	44	80	13	102	58	4	0	36	1.18
2652585--2652628	13	3.5	13	84	3	54	43	0	0	56	0.99
2659399--2659426	9	3.1	9	100	0	56	0	10	0	89	0.49
2663492--2663531	3	13.0	3	84	5	53	0	32	0	67	0.91
2665371--2665447	37	2.1	37	100	0	154	20	19	20	38	1.93
2668754--2668784	2	15.5	2	100	0	62	51	0	0	48	1.00
2669014--2669053	19	2.1	19	90	0	62	40	12	7	40	1.71
2669892--2669919	6	4.7	6	100	0	56	14	0	0	85	0.59
2671270--2671358	16	4.8	19	75	12	71	51	1	2	44	1.21
2671324--2671370	13	3.5	13	80	16	51	55	0	2	42	1.12
2673029--2673095	28	2.3	29	80	15	75	38	1	0	59	1.06
2673078--2673115	20	1.9	20	89	10	60	28	0	0	71	0.87
2673043--2673123	25	3.3	25	74	17	80	34	0	0	65	0.93
2674248--2674277	2	15.5	2	93	6	53	53	0	46	0	1.00
2674248--2674281	12	3.1	11	91	8	52	55	0	44	0	0.99
2674775--2674895	61	2.0	62	86	1	172	38	4	9	47	1.57
2674890--2674927	19	2.0	19	89	0	58	36	2	0	60	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2675209--2675240	13	2.4	14	94	5	57	25	0	6	68	1.12
2681680--2681850	5	36.0	5	63	25	52	60	0	0	38	1.06
2681688--2681735	19	2.5	20	80	10	55	68	0	0	31	0.90
2681675--2681734	22	2.8	22	82	12	72	68	0	0	31	0.90
2681680--2681769	34	2.6	35	83	10	98	64	0	0	35	0.94
2681743--2681801	16	3.7	16	75	20	61	52	0	0	47	1.00
2681743--2681815	18	4.3	18	73	25	61	52	0	0	47	1.00
2683035--2683076	12	3.5	12	86	0	57	26	33	0	40	1.56
2683606--2683663	24	2.4	25	79	2	64	58	5	0	36	1.20
2683692--2683736	18	2.6	18	86	10	58	64	0	0	35	0.94
2686258--2686318	32	1.9	31	86	6	86	49	0	1	49	1.10
2686294--2686346	23	2.2	24	80	6	63	41	0	1	56	1.10
2686503--2686533	12	2.6	12	94	0	53	22	12	0	64	1.27
2686691--2686727	2	18.5	2	100	0	74	48	0	0	51	1.00
2693864--2693896	3	11.0	3	93	0	57	66	3	0	30	1.06
2698229--2698264	11	3.2	11	88	4	54	63	0	0	36	0.94
2698548--2698593	24	1.9	24	86	8	67	54	0	0	45	0.99
2698564--2698621	18	3.3	18	72	16	59	58	1	0	39	1.08
2698559--2698628	33	2.1	33	84	10	90	57	1	0	41	1.08
2698548--2698585	13	3.1	13	85	7	53	55	0	0	44	0.99
2698581--2698637	29	2.0	29	82	6	71	57	5	0	36	1.21
2707673--2707700	1	28.0	1	100	0	56	100	0	0	0	0.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2710888--2710931	21	2.1	21	100	0	88	18	18	18	45	1.86
2713661--2713690	2	15.0	2	100	0	60	50	0	0	50	1.00
2713905--2713930	12	2.2	12	100	0	52	46	0	11	42	1.40
2714066--2714140	23	3.4	23	74	22	72	61	0	0	38	0.96
2714066--2714113	23	2.0	24	88	11	73	64	0	0	35	0.94
2714100--2714161	24	2.5	24	85	15	74	58	1	0	40	1.08
2714082--2714169	22	3.8	21	75	19	61	59	1	0	39	1.05
2715012--2715045	2	17.5	2	93	6	61	47	0	0	52	1.00
2719012--2719060	2	24.5	2	100	0	98	48	0	0	51	1.00
2732314--2732421	5	21.2	5	73	16	80	37	1	0	60	1.08
2732286--2732403	38	3.3	33	73	15	110	38	0	0	60	1.03
2732286--2732371	43	2.1	43	85	10	119	38	0	0	61	0.96
2732311--2732409	41	2.4	41	84	6	119	37	1	0	61	1.03
2732608--2732689	39	2.1	39	86	4	112	35	24	19	20	1.96
2732808--2732844	2	18.5	2	100	0	74	51	0	0	48	1.00
2741042--2741093	24	2.2	24	96	0	95	42	13	7	36	1.73
2744687--2744759	31	2.4	31	86	6	96	36	2	1	58	1.21
2747729--2747760	3	10.3	3	93	6	55	34	0	0	65	0.93
2748595--2748645	22	2.3	22	83	10	68	49	1	0	49	1.12
2752940--2753039	32	3.1	32	76	13	91	43	4	2	51	1.32
2752957--2753049	17	5.7	17	66	20	56	40	4	1	53	1.27
2754693--2754754	14	4.5	14	76	13	58	59	0	0	40	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2754657--2754816	34	4.8	33	68	17	91	59	1	0	39	1.06
2754682--2754733	19	2.8	20	75	18	58	65	0	0	34	0.93
2754691--2754789	28	3.4	29	78	11	96	59	0	0	40	0.97
2755555--2755596	22	2.0	21	86	9	59	50	11	19	19	1.78
2759352--2759381	4	7.5	4	92	0	51	46	3	0	50	1.18
2760065--2760093	14	2.0	15	93	6	51	51	0	0	48	1.00
2760100--2760176	17	4.6	17	69	15	54	59	0	2	37	1.11
2760712--2760750	2	20.5	2	89	10	64	46	0	0	53	1.00
2761493--2761525	12	2.8	12	95	0	57	36	0	3	60	1.12
2762015--2762039	3	8.3	3	100	0	50	68	0	0	32	0.90
2769457--2769481	3	8.3	3	100	0	50	32	0	0	68	0.90
2773316--2773404	30	3.0	30	73	21	80	56	0	0	43	0.99
2774992--2775052	19	3.2	19	73	2	59	36	0	0	63	0.94
2775008--2775044	17	2.1	17	90	5	56	37	0	0	62	0.96
2775802--2775827	2	13.0	2	100	0	52	50	0	0	50	1.00
2783513--2783611	49	2.0	49	100	0	198	49	12	14	24	1.77
2789984--2790029	21	2.0	22	84	12	58	67	4	0	28	1.10
2799753--2799811	18	2.7	23	70	26	65	45	0	1	52	1.10
2800635--2800679	18	2.4	19	88	3	65	42	2	0	55	1.12
2800673--2800724	19	2.7	19	82	14	63	61	0	1	36	1.07
2800673--2800720	13	3.8	12	78	8	51	62	0	2	35	1.07
2802210--2802273	29	2.3	27	83	8	74	59	1	0	39	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2802232--2802297	14	4.8	14	72	20	50	65	0	0	34	0.93
2802231--2802293	27	2.3	27	78	10	76	65	0	0	34	0.93
2802649--2802736	31	2.8	31	76	20	94	60	0	1	38	1.04
2802665--2802703	13	2.8	14	84	11	53	66	0	0	33	0.92
2802688--2802736	18	2.8	18	77	20	59	59	0	0	40	0.98
2802696--2802736	17	2.4	17	87	0	64	63	0	0	36	0.95
2802919--2802986	15	4.6	15	71	14	52	58	2	0	38	1.13
2803705--2803792	18	4.9	17	75	16	81	46	0	0	53	1.00
2804944--2805035	15	6.3	15	68	20	54	54	1	1	43	1.14
2805354--2805455	29	3.3	29	74	17	91	50	0	0	49	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   26   27   28   29   30   31   32   
          33