genome.fa.s412.2.7.7.80.10.50.1000.19.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: Scaffold412
Parameters: 2 7 7 80 10 50 1000
Length:  4645160

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   

This is table  19  of  32  ( 3728 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)
2526383--2526424	21	2.0	21	86	9	59	59	2	0	38	1.10
2526717--2526766	18	2.8	18	88	11	68	40	0	0	60	0.97
2526797--2526836	20	2.0	20	85	9	55	55	0	0	45	0.99
2526783--2526848	34	2.0	33	82	11	82	57	0	1	40	1.08
2527160--2527201	22	1.9	22	85	9	59	64	0	0	35	0.94
2527380--2527424	20	2.3	20	88	7	67	46	0	2	51	1.13
2527466--2527503	20	1.9	19	89	5	58	65	0	0	34	0.93
2527480--2527575	17	5.4	18	71	12	56	46	1	0	52	1.07
2527536--2527583	16	2.8	16	81	12	51	39	0	0	60	0.97
2527550--2527593	16	2.7	16	85	3	52	38	0	0	61	0.96
2527544--2527607	24	2.7	24	77	20	71	40	0	0	59	0.97
2527753--2527797	20	2.3	19	85	11	56	37	0	6	55	1.26
2528586--2528663	27	3.0	27	73	15	67	55	0	3	41	1.18
2528670--2528733	21	3.0	21	84	11	62	45	4	3	46	1.39
2528689--2528733	21	2.2	20	92	4	72	44	6	0	48	1.29
2535248--2535291	19	2.4	18	85	11	54	27	9	0	63	1.24
2537036--2537083	2	24.0	2	100	0	96	50	0	0	50	1.00
2538033--2538175	70	2.0	70	91	2	234	32	16	10	40	1.83
2540887--2540972	43	2.0	43	100	0	172	53	9	9	27	1.63
2542156--2542655	268	1.9	266	81	4	621	35	14	17	32	1.90
2546522--2546604	29	2.7	30	74	20	82	45	0	1	53	1.08
2546655--2546702	23	2.1	23	92	0	78	58	4	0	37	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2547337--2547425	36	2.5	36	86	0	124	28	14	47	10	1.77
2552134--2552168	18	1.9	18	94	0	61	51	0	0	48	1.00
2552295--2552341	20	2.3	22	79	20	66	40	0	0	59	0.97
2553420--2553470	8	6.0	8	76	19	50	43	1	0	54	1.11
2553493--2553538	23	2.0	23	83	8	58	54	4	0	41	1.20
2553808--2553853	15	3.1	15	76	14	51	67	0	0	32	0.91
2554441--2554478	2	19.0	2	100	0	76	0	50	0	50	1.00
2557116--2557215	50	2.0	51	98	2	193	49	2	8	41	1.44
2557637--2557691	11	4.9	11	80	12	67	69	1	1	27	1.09
2557917--2557950	17	2.0	17	88	0	50	55	2	11	29	1.50
2558189--2558253	32	2.1	31	85	8	87	67	0	0	32	0.91
2568115--2568148	15	2.3	15	100	0	68	32	5	14	47	1.69
2568187--2568222	17	2.1	18	89	5	56	25	8	8	58	1.55
2568264--2568316	26	2.0	27	81	3	63	37	0	5	56	1.23
2568853--2568916	31	2.1	30	82	11	76	42	4	3	50	1.39
2568968--2569024	21	2.5	22	86	11	64	61	0	0	38	0.96
2568975--2569024	21	2.3	22	89	6	75	60	0	0	40	0.97
2570140--2570223	14	6.4	12	72	21	55	61	0	2	35	1.09
2570137--2570215	35	2.4	32	82	13	99	62	0	1	36	1.04
2572331--2572356	13	2.0	13	100	0	52	30	23	7	38	1.83
2577451--2577486	18	2.1	17	89	5	54	50	0	0	50	1.00
2578088--2578120	9	3.7	9	95	0	57	57	0	33	9	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2579516--2579543	3	9.3	3	100	0	56	32	0	0	67	0.91
2581551--2581700	79	1.9	81	90	2	241	40	8	6	45	1.60
2581551--2581718	79	2.1	80	86	6	234	40	8	5	45	1.59
2582255--2583539	484	2.7	482	90	3	1969	35	7	5	52	1.53
2584148--2584172	13	1.9	13	100	0	50	36	16	16	32	1.90
2584128--2584193	32	2.0	33	91	2	107	33	12	18	36	1.88
2584235--2584260	13	2.0	13	100	0	52	30	15	15	38	1.88
2584248--2584372	52	2.4	52	97	0	232	35	18	18	28	1.94
2591303--2591526	98	2.3	98	82	3	267	34	18	21	24	1.96
2591303--2591474	49	3.5	49	93	0	263	34	19	22	23	1.97
2591298--2591577	49	6.0	45	82	5	177	34	18	22	24	1.96
2591599--2591895	29	10.3	29	79	8	304	20	15	28	35	1.94
2591599--2591897	57	5.2	58	79	9	319	20	15	28	34	1.94
2591580--2591895	86	3.7	86	90	2	490	21	16	28	33	1.95
2613068--2613126	18	3.2	18	68	22	50	55	1	0	42	1.09
2614871--2614902	12	2.8	12	95	4	57	62	0	0	37	0.95
2615204--2615272	22	3.2	21	82	12	77	40	0	0	59	0.97
2615686--2615734	18	2.8	18	84	9	57	51	0	0	48	1.00
2615801--2615835	17	2.1	17	89	10	54	42	0	0	57	0.99
2615957--2616008	16	2.8	19	72	19	56	40	0	7	51	1.30
2615959--2616015	20	3.0	20	75	14	59	40	0	7	52	1.28
2616048--2616081	13	2.7	12	86	13	50	17	0	2	79	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2616270--2616404	63	2.1	62	84	12	170	42	3	0	52	1.24
2616326--2616381	21	2.6	21	70	10	51	44	3	0	51	1.18
2616516--2616628	58	1.9	58	89	0	172	46	13	11	29	1.78
2616753--2616822	14	5.1	14	76	11	65	34	0	2	62	1.10
2616896--2616944	11	3.9	13	75	15	50	51	0	0	48	1.00
2618185--2618212	6	4.7	6	100	0	56	17	50	0	32	1.47
2622893--2622927	17	2.1	17	100	0	70	42	17	11	28	1.83
2625513--2625562	26	1.9	26	100	0	100	18	16	16	50	1.79
2628263--2628303	21	2.0	21	100	0	82	34	21	14	29	1.93
2632117--2632145	14	2.0	15	93	6	51	58	0	0	41	0.98
2632609--2632633	4	6.2	4	100	0	50	76	0	0	24	0.80
2632819--2632848	2	15.0	2	100	0	60	50	0	0	50	1.00
2633171--2633197	2	13.5	2	100	0	54	48	0	0	51	1.00
2634382--2634420	19	2.1	19	90	4	62	61	2	0	35	1.10
2637391--2637452	29	2.1	29	82	14	74	8	20	3	67	1.31
2637757--2637799	2	21.5	2	86	9	61	46	2	2	48	1.27
2637832--2637863	2	16.0	2	93	0	55	50	0	3	46	1.17
2638149--2638185	17	2.3	16	86	13	58	35	2	2	59	1.26
2649504--2649606	30	3.4	30	78	6	102	37	17	6	37	1.76
2650885--2650909	3	8.3	3	100	0	50	32	0	0	68	0.90
2661847--2661872	13	2.0	13	100	0	52	38	7	0	53	1.30
2662336--2662377	22	1.9	22	90	9	68	61	0	0	38	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2662943--2662987	23	2.0	24	86	8	67	64	4	0	31	1.13
2663660--2663709	23	2.2	23	85	0	64	44	12	10	34	1.75
2665823--2665857	18	2.1	18	89	10	56	51	8	0	40	1.33
2667539--2667662	62	2.0	62	84	1	160	30	8	19	41	1.80
2667679--2667795	2	58.5	2	91	0	189	46	0	3	50	1.18
2670552--2670642	29	3.1	29	98	0	173	21	6	32	38	1.80
2673623--2673747	52	2.4	52	97	0	232	27	17	18	36	1.93
2673623--2673767	52	2.8	52	92	2	202	29	17	17	35	1.93
2673753--2673780	13	2.2	13	100	0	56	39	17	14	28	1.89
2673819--2673876	20	3.0	20	84	2	73	46	13	10	29	1.77
2674203--2674569	185	2.0	184	91	2	592	41	20	5	31	1.76
2675988--2676103	38	3.1	36	74	8	106	43	21	7	26	1.79
2675988--2676140	75	2.0	76	81	8	179	43	21	9	26	1.82
2679587--2679631	24	1.9	24	86	13	67	31	0	2	66	1.04
2684036--2684074	2	20.0	2	94	5	71	51	0	0	48	1.00
2690465--2690523	19	3.1	19	70	0	55	55	0	0	44	0.99
2690455--2690532	38	2.1	38	85	4	104	53	0	0	46	1.00
2690718--2690753	18	2.0	18	89	10	56	72	0	0	27	0.85
2691095--2691138	18	2.3	18	88	7	61	70	0	0	29	0.88
2691095--2691141	19	2.5	19	80	13	60	70	0	0	29	0.88
2691322--2691355	14	2.3	15	90	5	52	44	0	0	55	0.99
2691333--2691384	19	2.9	18	81	13	54	38	0	0	61	0.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2691336--2691396	17	3.4	18	78	13	56	40	0	1	57	1.08
2692267--2692377	52	2.2	49	79	9	116	65	1	2	29	1.16
2692389--2692431	23	1.9	23	85	4	61	67	2	2	27	1.15
2693593--2693635	12	3.7	12	81	15	54	55	0	0	44	0.99
2694201--2694250	23	2.2	23	82	7	57	70	8	2	20	1.23
2694487--2694515	15	1.9	15	100	0	58	3	6	0	89	0.57
2695496--2695584	44	2.0	44	82	4	108	34	14	24	25	1.94
2696177--2696202	6	4.3	6	100	0	52	84	0	0	15	0.62
2698231--2698276	24	1.9	24	95	0	83	50	4	0	45	1.21
2698233--2698284	24	2.2	24	82	0	59	55	5	0	38	1.24

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