genome.fa.s57.2.7.7.80.10.50.1000.19.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: Scaffold57
Parameters: 2 7 7 80 10 50 1000
Length:  4071704

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  19  of  27  ( 3137 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)
2490954--2490998	15	3.0	15	84	9	56	40	0	0	60	0.97
2491055--2491102	22	2.2	22	84	0	60	33	0	0	66	0.92
2491088--2491137	9	5.3	9	76	9	55	24	0	0	76	0.80
2491089--2491147	10	5.9	10	76	11	59	25	0	0	74	0.82
2491086--2491137	19	2.8	19	94	2	88	23	0	0	76	0.78
2491084--2491147	31	2.1	31	82	11	78	28	0	0	71	0.86
2496027--2496063	2	19.0	2	94	5	67	0	48	0	51	1.00
2496116--2496194	38	2.1	38	83	4	97	22	13	27	35	1.93
2497930--2497980	23	2.3	23	89	3	77	27	7	25	39	1.83
2498051--2498077	13	2.1	13	100	0	54	40	0	14	44	1.46
2500808--2500863	22	2.5	22	76	0	67	46	7	3	42	1.48
2502783--2502821	17	2.4	16	84	16	53	38	0	0	61	0.96
2503246--2503290	12	3.7	12	88	5	72	33	0	0	66	0.92
2503245--2503292	13	3.8	13	78	15	55	33	0	0	66	0.92
2503291--2503453	29	5.6	29	75	18	135	42	1	1	53	1.19
2503290--2503371	15	5.1	15	69	22	60	42	1	2	53	1.21
2503311--2503401	35	2.8	35	80	11	104	39	1	3	56	1.23
2503351--2503461	27	4.0	29	75	12	92	43	1	0	54	1.17
2504502--2504557	27	2.1	27	83	6	69	41	0	1	57	1.09
2505068--2505107	21	1.9	21	89	0	62	45	0	0	55	0.99
2505092--2505126	16	2.3	16	90	9	56	37	0	0	62	0.95
2505686--2505742	23	2.5	23	80	8	73	33	0	1	64	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2506699--2506730	2	16.0	2	100	0	64	0	50	0	50	1.00
2506730--2506758	2	14.5	2	100	0	58	48	0	0	51	1.00
2509056--2509104	16	3.1	16	77	11	55	51	8	6	34	1.57
2514135--2514166	16	2.0	16	100	0	64	25	56	0	18	1.42
2513894--2514429	276	1.9	276	99	0	1054	40	22	12	24	1.89
2517138--2517187	18	2.8	17	84	6	64	40	0	4	56	1.18
2517138--2517188	17	2.9	18	88	2	68	41	0	3	54	1.19
2517885--2517927	14	3.0	14	86	3	59	51	0	2	46	1.13
2523824--2523868	18	2.6	18	85	3	65	37	0	0	62	0.96
2523988--2524052	25	2.6	25	81	11	64	38	0	1	60	1.07
2524039--2524095	11	4.9	12	74	21	50	40	3	0	56	1.17
2526063--2526127	23	2.7	23	80	15	69	58	0	3	38	1.14
2526485--2526700	34	6.4	34	83	2	240	26	6	24	42	1.78
2526485--2526702	67	3.2	67	83	2	267	26	5	24	42	1.77
2526485--2526700	101	2.1	101	86	2	299	26	6	24	42	1.78
2527053--2527103	25	2.0	25	85	7	68	52	1	1	43	1.23
2529327--2529363	19	2.0	19	89	5	58	59	0	5	35	1.20
2529863--2529961	48	2.1	47	92	1	162	58	7	6	28	1.48
2530559--2530589	2	15.5	2	100	0	62	48	0	0	51	1.00
2531072--2531109	15	2.5	15	87	12	60	55	0	0	44	0.99
2532130--2532189	28	2.2	28	82	11	72	31	8	8	51	1.62
2533974--2534027	26	2.0	26	86	10	74	68	0	0	31	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2534017--2534052	4	8.5	4	90	9	54	72	2	0	25	0.98
2533961--2534052	9	10.6	9	73	16	52	66	2	0	31	1.04
2534441--2534479	19	2.1	19	90	0	60	58	0	0	41	0.98
2538834--2538880	21	2.2	21	100	0	94	38	19	10	31	1.86
2541021--2541053	16	2.1	16	88	11	50	60	3	0	36	1.12
2541200--2541240	21	1.9	21	90	5	64	48	7	2	41	1.44
2542111--2542185	28	2.8	28	75	4	73	49	0	0	50	1.00
2542540--2542592	14	3.7	14	82	5	70	62	0	1	35	1.06
2542534--2542599	29	2.3	27	77	10	78	54	1	1	42	1.18
2543261--2543295	9	3.9	9	88	0	52	20	11	0	68	1.20
2544860--2544903	2	22.0	2	100	0	88	50	0	0	50	1.00
2545073--2545103	16	1.9	16	93	0	53	64	0	0	35	0.94
2545774--2545805	16	1.9	17	93	6	57	31	0	0	68	0.90
2546423--2546452	10	3.0	10	95	0	51	23	0	0	76	0.78
2546935--2546983	15	3.3	15	80	2	55	34	4	2	59	1.28
2546959--2547053	29	3.2	28	78	15	95	53	2	0	44	1.12
2550396--2550462	32	2.1	31	83	2	80	43	1	2	52	1.25
2550586--2550628	19	2.2	20	80	12	54	67	4	2	25	1.22
2550711--2550759	24	2.0	26	84	8	66	59	0	0	40	0.98
2551360--2551398	20	1.9	21	89	5	62	51	10	0	38	1.36
2552180--2552236	14	3.9	15	80	13	57	57	3	0	38	1.16
2552229--2552293	25	2.6	25	80	4	78	44	1	0	53	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2552385--2552414	3	10.0	3	100	0	60	33	0	0	66	0.92
2553547--2553577	2	15.5	2	100	0	62	51	0	0	48	1.00
2554876--2554905	2	15.0	2	100	0	60	50	0	0	50	1.00
2555212--2555247	19	2.0	18	89	10	56	72	0	0	27	0.85
2555885--2555927	2	21.5	2	95	0	77	51	0	0	48	1.00
2557684--2557719	14	2.6	14	95	0	63	52	19	0	27	1.46
2557929--2557954	5	5.2	5	100	0	52	76	0	23	0	0.78
2559115--2559147	2	16.5	2	93	0	57	51	3	0	45	1.16
2563950--2564027	20	4.4	19	73	20	64	47	0	0	52	1.00
2563949--2564009	22	2.9	21	77	17	56	47	0	0	52	1.00
2563980--2564023	16	2.9	15	76	6	52	45	0	0	54	0.99
2568416--2568457	22	1.9	22	90	9	68	61	0	0	38	0.96
2568911--2568988	38	2.1	38	83	9	97	28	15	16	39	1.89
2573206--2573246	18	2.3	18	82	0	55	19	7	29	43	1.78
2577314--2577359	22	2.0	23	84	12	60	58	0	2	39	1.10
2578230--2578259	5	6.0	5	92	0	51	43	0	0	56	0.99
2578231--2578263	10	3.3	10	91	0	57	45	0	0	54	0.99
2578212--2578272	20	3.2	19	84	13	72	42	0	1	55	1.09
2581254--2581288	11	3.2	11	91	0	52	40	11	8	40	1.72
2581259--2581289	11	2.8	11	95	0	53	45	12	9	32	1.75
2581977--2582008	6	5.3	6	92	0	55	71	0	12	15	1.14
2583996--2584024	3	9.7	3	100	0	58	65	0	34	0	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2593161--2593199	3	13.0	3	84	10	53	64	5	30	0	1.15
2593161--2593199	15	2.6	15	91	0	69	64	5	30	0	1.15
2594013--2594046	8	4.1	8	85	7	50	0	91	0	8	0.43
2594013--2594046	17	2.0	17	94	0	59	0	91	0	8	0.43
2599727--2599758	2	16.0	2	100	0	64	50	0	0	50	1.00
2599837--2599866	14	2.1	15	93	6	53	46	0	3	50	1.18
2599843--2599896	20	2.8	18	79	17	56	46	0	1	51	1.11
2600187--2600216	6	5.0	6	95	0	51	46	0	3	50	1.18
2600615--2600709	26	3.5	26	67	20	61	57	0	0	42	0.98
2600583--2600687	55	1.9	55	82	7	133	52	0	0	45	1.13
2600617--2600688	29	2.4	31	77	11	78	54	0	0	45	0.99
2608280--2608403	64	1.9	64	100	0	248	29	12	18	40	1.87
2608701--2608737	2	19.0	2	88	5	58	48	0	2	48	1.15
2608854--2608925	36	2.0	36	97	0	135	22	20	11	45	1.82
2609960--2610064	54	1.9	54	96	0	192	32	19	11	37	1.87
2614758--2614846	26	3.5	26	76	13	87	41	1	2	55	1.20
2614774--2614865	14	7.1	14	69	23	51	46	0	1	52	1.07
2614756--2614853	50	2.0	50	82	8	119	41	1	2	55	1.18
2614845--2614921	36	2.2	34	84	9	93	53	0	0	46	1.00
2614894--2614949	22	2.5	25	72	21	61	53	0	0	46	1.00
2614845--2614924	35	2.3	36	80	10	94	53	0	0	46	1.00
2615847--2615911	21	2.9	24	78	15	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)
2615862--2615915	25	2.3	24	78	18	60	66	0	0	33	0.92
2615865--2615915	23	2.2	24	80	16	63	66	0	0	33	0.92
2616144--2616189	18	2.7	18	83	6	60	54	0	2	43	1.12
2616592--2616625	15	2.3	15	89	0	50	47	0	0	52	1.00
2616688--2616764	24	3.0	23	74	18	73	58	2	0	38	1.12
2616688--2616717	15	2.0	15	93	0	51	63	0	0	36	0.95
2636952--2636990	20	2.0	19	85	5	51	28	0	0	71	0.86
2636976--2637014	20	2.0	20	85	10	53	48	0	0	51	1.00
2636997--2637089	29	3.2	28	69	15	73	37	0	2	60	1.09
2637797--2637821	2	12.5	2	100	0	50	52	0	0	48	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