genome.fa.s127.2.7.7.80.10.50.1000.16.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: Scaffold127
Parameters: 2 7 7 80 10 50 1000
Length:  4281254

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   

This is table  16  of  26  ( 3103 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)
2598800--2598871	23	3.2	22	84	7	67	45	0	1	52	1.09
2598831--2598917	45	1.9	46	86	6	124	55	1	1	42	1.15
2598805--2598918	25	4.6	25	77	8	90	50	0	1	46	1.17
2598800--2598918	11	11.1	11	75	16	90	50	0	1	47	1.17
2598991--2599035	19	2.4	18	85	14	56	15	4	2	77	1.02
2602340--2603259	89	10.3	89	83	5	999	31	15	14	37	1.89
2602340--2603384	89	11.8	89	81	4	995	32	15	14	37	1.88
2602340--2603387	267	3.9	265	82	4	1096	32	15	14	38	1.87
2603230--2603421	89	2.2	88	80	5	210	36	11	7	44	1.69
2603510--2603599	2	50.5	2	70	25	69	45	1	1	52	1.15
2603510--2603598	16	5.2	16	75	20	83	44	1	1	52	1.15
2603644--2603726	35	2.5	31	82	7	94	31	0	0	68	0.90
2603644--2603734	8	11.0	8	75	10	76	31	0	0	68	0.90
2603650--2603736	9	9.2	9	71	21	54	34	0	0	65	0.93
2609771--2609818	25	1.9	25	83	8	62	47	0	0	52	1.00
2614295--2614343	11	4.5	11	82	10	55	40	0	2	57	1.10
2614309--2614345	6	6.5	6	96	3	60	48	0	0	51	1.00
2614874--2614916	23	1.9	22	85	4	59	51	6	0	41	1.29
2614892--2614923	17	1.9	16	93	6	55	50	6	0	43	1.27
2615738--2615796	16	3.5	17	74	21	52	42	1	1	54	1.20
2622241--2622278	2	19.0	2	100	0	76	50	0	50	0	1.00
2622559--2622612	20	2.6	21	77	11	58	42	0	1	55	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2622553--2622587	15	2.3	15	95	0	61	48	0	0	51	1.00
2622570--2622642	28	2.7	27	78	16	71	41	0	1	57	1.07
2623046--2623088	11	3.9	11	81	6	52	62	2	0	34	1.08
2624567--2624630	23	2.9	22	76	17	69	42	0	0	57	0.98
2626683--2626721	7	5.3	7	82	11	51	51	0	0	48	1.00
2626683--2626731	16	3.2	16	83	8	59	48	0	0	51	1.00
2627200--2627260	29	2.1	31	87	9	92	40	0	0	59	0.98
2627247--2627289	17	2.3	19	80	11	54	62	0	2	34	1.08
2627249--2627295	18	2.5	19	80	16	53	65	0	2	31	1.04
2627572--2627622	24	2.1	24	82	7	59	31	0	5	62	1.19
2628507--2628554	20	2.4	21	80	19	59	33	0	2	64	1.05
2628778--2628836	28	2.1	27	84	9	75	50	0	0	49	1.00
2628794--2628863	23	3.2	22	74	18	67	52	0	0	47	1.00
2628822--2628896	32	2.2	33	81	9	80	56	0	0	44	0.99
2628927--2628955	2	14.5	2	100	0	58	48	0	0	51	1.00
2629376--2629405	15	1.9	16	93	6	53	46	0	0	53	1.00
2629418--2629469	12	4.1	12	78	11	50	51	0	0	48	1.00
2629418--2629468	26	1.9	27	84	11	70	52	0	0	47	1.00
2629429--2629482	19	3.2	18	80	17	62	50	0	0	50	1.00
2629536--2629598	14	4.8	13	77	16	58	49	0	0	50	1.00
2629546--2629598	12	4.1	12	76	23	54	49	0	0	50	1.00
2629595--2629664	25	2.8	26	80	8	74	54	0	4	41	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2631824--2631852	2	15.0	2	92	7	51	48	0	0	51	1.00
2639752--2639784	10	3.4	10	95	4	59	15	0	0	84	0.61
2649332--2649372	3	13.7	3	100	0	82	31	0	0	68	0.90
2650216--2650548	172	1.9	176	88	3	514	46	6	5	41	1.54
2650775--2650812	15	2.4	16	86	8	60	47	0	0	52	1.00
2651012--2651072	32	1.9	32	93	0	104	45	1	6	45	1.39
2656702--2656909	58	3.6	58	87	0	299	15	22	33	28	1.95
2656656--2656909	116	2.2	117	84	4	318	15	21	34	28	1.94
2656702--2656943	58	4.2	58	85	0	286	16	21	32	28	1.95
2665005--2665042	13	2.9	13	100	0	76	36	15	15	31	1.90
2665066--2665151	32	2.7	32	90	0	145	37	13	12	36	1.84
2665093--2665147	13	3.8	13	75	25	56	32	16	14	36	1.89
2667864--2667904	14	2.9	14	85	0	55	60	0	0	39	0.96
2667891--2667950	29	2.1	29	84	6	77	53	0	1	45	1.10
2669020--2669082	31	2.0	31	90	6	101	30	0	1	68	0.99
2669755--2669788	17	2.1	16	88	5	50	61	5	0	32	1.20
2669823--2669914	40	2.3	40	75	7	96	56	1	1	41	1.13
2670100--2670171	29	2.4	30	81	6	74	52	1	1	44	1.18
2670125--2670201	35	2.2	37	81	11	90	53	1	3	41	1.27
2671449--2671528	40	2.0	40	97	0	151	31	10	33	25	1.89
2674039--2674071	2	16.5	2	100	0	66	0	48	0	51	1.00
2674071--2674119	2	24.5	2	91	0	80	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2675275--2675307	16	2.1	16	94	0	57	36	21	6	36	1.78
2677367--2677448	31	2.6	31	94	0	137	42	0	1	56	1.07
2677409--2677451	20	2.0	20	86	8	59	48	0	0	51	1.00
2677396--2677448	15	3.5	15	72	12	54	43	0	0	56	0.99
2677542--2677586	21	2.1	21	88	8	65	35	4	0	60	1.17
2682156--2682190	9	3.9	9	84	0	52	11	5	57	25	1.56
2682153--2682191	18	2.2	18	95	0	69	10	10	56	23	1.63
2683414--2683452	2	19.5	2	94	0	69	51	0	0	48	1.00
2687747--2687899	75	2.0	75	100	0	306	41	13	16	27	1.87
2689072--2689438	187	2.0	187	87	4	535	31	22	17	28	1.96
2691716--2691769	22	2.5	21	79	8	56	48	0	0	51	1.00
2692936--2692968	17	2.0	17	88	5	50	6	12	27	54	1.60
2701303--2701338	2	18.0	2	100	0	72	50	0	50	0	1.00
2705926--2706468	271	2.0	270	99	0	1077	37	12	24	26	1.90
2708054--2708116	3	21.0	3	80	0	72	1	31	0	66	1.01
2708737--2708813	31	2.7	28	76	20	79	41	0	1	57	1.07
2710110--2710165	25	2.3	24	84	9	69	58	0	0	41	0.98
2710355--2710380	12	2.2	12	100	0	52	38	0	0	61	0.96
2710392--2710443	24	2.2	24	82	6	61	57	7	0	34	1.27
2710799--2710867	31	2.2	30	77	7	75	50	0	1	47	1.09
2710810--2710852	16	2.8	16	85	3	61	58	0	0	41	0.98
2710814--2710855	8	5.4	8	77	5	50	57	0	0	42	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2721738--2721775	2	19.0	2	94	0	67	50	2	0	47	1.15
2721775--2721807	2	16.5	2	100	0	66	0	0	48	51	1.00
2725361--2725389	2	14.5	2	100	0	58	51	0	0	48	1.00
2725389--2725422	2	17.0	2	100	0	68	50	0	50	0	1.00
2726550--2726588	8	4.9	8	90	0	60	23	20	12	43	1.86
2726551--2726656	16	6.3	16	72	6	59	22	17	15	44	1.86
2726826--2726857	15	2.1	15	94	0	55	9	31	6	53	1.58
2726891--2726918	13	2.2	13	100	0	56	32	14	14	39	1.86
2729723--2729894	86	2.0	86	100	0	344	27	20	19	31	1.97
2732451--2732489	8	4.9	8	83	0	51	23	17	12	46	1.83
2732452--2732569	16	7.0	16	72	17	62	22	18	14	44	1.86
2732458--2732557	16	5.8	17	73	18	68	23	18	15	44	1.86
2732727--2732758	15	2.1	15	94	0	55	9	31	6	53	1.58
2736292--2736330	8	4.9	8	83	0	51	23	17	12	46	1.83
2736292--2736333	16	2.6	16	88	0	57	23	16	14	45	1.84
2736556--2736587	15	2.1	15	94	0	55	9	31	6	53	1.58
2740103--2740161	30	2.0	30	96	0	109	25	32	11	30	1.92
2748772--2748815	2	22.0	2	90	0	70	47	47	2	2	1.27
2751055--2751119	34	1.9	34	93	0	112	35	15	15	33	1.89
2752416--2752444	2	14.5	2	100	0	58	0	51	0	48	1.00
2753086--2753141	14	3.7	14	76	19	51	51	1	1	44	1.22
2753078--2753141	32	2.0	33	84	9	87	53	1	3	42	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2753133--2753180	20	2.4	20	82	6	53	54	10	0	35	1.35
2753258--2753525	144	1.9	144	82	7	339	51	4	5	38	1.46
2754689--2754760	39	1.9	39	86	8	105	45	0	1	52	1.09
2754741--2754775	18	1.9	18	88	11	54	34	0	0	65	0.93
2755746--2755798	22	2.4	21	84	6	61	39	0	0	60	0.97
2755746--2755803	21	2.7	21	84	7	64	39	0	0	60	0.97
2757069--2757137	16	3.8	19	72	25	60	36	0	1	62	1.04
2758131--2758191	26	2.2	27	82	8	70	57	1	0	40	1.08
2758555--2758600	12	3.4	14	77	17	51	65	0	0	34	0.93
2758559--2758588	13	2.4	13	94	5	53	60	0	0	40	0.97

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