genome.fa.s117.2.7.7.80.10.50.1000.15.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: Scaffold117
Parameters: 2 7 7 80 10 50 1000
Length:  3231771

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  15  of  18  ( 2101 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)
2507425--2507475	16	3.2	16	75	5	50	50	0	0	49	1.00
2507504--2507550	17	2.6	19	87	9	64	42	2	4	51	1.33
2513111--2513197	42	2.1	42	82	6	106	45	1	4	48	1.30
2513616--2513663	19	2.3	19	79	13	51	31	0	2	66	1.03
2515017--2515064	18	2.7	18	75	9	53	39	0	0	60	0.97
2516011--2516063	18	2.8	19	83	11	65	66	0	0	33	0.92
2516129--2516179	17	2.9	17	75	13	50	37	0	0	62	0.95
2516124--2516178	24	2.2	24	87	9	76	38	0	0	61	0.96
2516760--2516784	5	5.0	5	100	0	50	20	0	0	80	0.72
2517168--2517226	27	2.3	25	82	8	73	52	6	1	38	1.38
2517241--2517295	23	2.3	25	78	12	62	41	0	1	56	1.10
2517234--2517290	22	2.5	22	82	8	69	40	0	1	57	1.09
2517319--2517364	24	1.9	24	82	8	58	52	4	0	43	1.21
2517958--2517992	18	2.0	17	88	5	52	65	5	0	28	1.15
2518247--2518281	17	2.1	16	89	5	52	37	0	2	60	1.12
2518877--2518912	2	18.0	2	100	0	72	50	0	0	50	1.00
2520698--2520731	15	2.3	15	90	10	52	52	23	0	23	1.47
2522248--2522309	5	12.6	5	74	16	58	59	0	0	40	0.97
2522249--2522311	14	4.2	16	76	13	71	60	0	0	39	0.97
2522203--2522309	54	2.0	54	90	0	169	57	0	1	41	1.10
2522266--2522362	32	2.8	33	76	9	106	52	1	2	44	1.19
2522632--2522685	12	4.5	12	79	11	58	44	1	0	53	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2522644--2522689	23	2.0	24	91	4	76	45	2	0	52	1.13
2523890--2523918	12	2.3	13	94	5	51	13	0	0	86	0.58
2523911--2523946	17	2.1	18	89	5	56	38	11	0	50	1.38
2525676--2525726	25	2.0	25	96	0	93	35	31	7	25	1.85
2530225--2530257	2	16.5	2	100	0	66	51	0	0	48	1.00
2530391--2530419	2	14.5	2	100	0	58	51	0	0	48	1.00
2530233--2530522	156	1.9	155	91	2	483	41	6	6	45	1.57
2542862--2542967	54	2.0	54	94	0	185	36	13	16	33	1.88
2544567--2544647	35	2.3	35	79	10	94	54	1	1	43	1.16
2545867--2545920	20	2.6	21	83	16	69	61	0	1	37	1.07
2547123--2547155	15	2.3	15	89	5	50	60	0	0	39	0.97
2554023--2554125	52	2.0	52	100	0	206	24	13	17	44	1.85
2555056--2555244	95	2.0	95	91	2	308	34	16	19	29	1.93
2556044--2556074	1	31.0	1	93	0	53	0	3	0	96	0.21
2556044--2556078	8	4.4	8	96	0	52	0	5	0	94	0.32
2556406--2556461	23	2.4	24	76	8	62	62	0	3	33	1.12
2558475--2558529	22	2.4	22	84	6	65	65	3	1	29	1.20
2558510--2558566	17	3.4	17	81	16	66	68	1	0	29	1.00
2558515--2558563	25	2.0	25	88	8	73	69	2	0	28	1.00
2558509--2558567	20	3.2	18	79	15	66	69	1	0	28	0.98
2559347--2559380	3	11.3	3	100	0	68	67	0	0	32	0.91
2559665--2559720	25	2.2	26	81	9	62	46	1	1	50	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2562233--2562257	2	12.5	2	100	0	50	52	0	0	48	1.00
2563457--2563500	23	2.0	22	86	8	63	40	0	0	59	0.98
2563481--2563506	13	2.0	13	100	0	52	38	0	0	61	0.96
2564386--2564418	14	2.4	14	94	0	57	51	0	0	48	1.00
2565798--2565868	27	2.6	27	86	6	90	46	22	7	23	1.76
2569722--2569769	21	2.3	21	96	0	87	31	22	18	27	1.97
2571786--2571828	16	2.8	14	80	19	50	74	0	2	23	0.93
2571788--2571828	21	1.9	21	85	14	57	73	0	2	24	0.96
2573180--2573222	19	2.2	20	87	8	61	67	4	0	27	1.10
2575243--2575298	13	3.9	14	75	22	53	50	0	0	50	1.00
2575235--2575298	31	2.0	33	88	11	98	50	0	0	50	1.00
2575253--2575303	16	3.2	16	75	20	54	49	0	0	50	1.00
2577923--2577977	17	2.8	20	76	23	62	50	0	0	49	1.00
2577951--2578020	30	2.4	30	85	2	88	57	1	1	40	1.17
2578321--2578371	16	3.3	15	79	15	50	64	1	0	33	1.05
2578331--2578385	24	2.3	23	81	9	58	58	3	0	38	1.16
2580173--2580202	2	15.0	2	100	0	60	50	50	0	0	1.00
2582559--2582588	2	15.0	2	100	0	60	50	0	0	50	1.00
2584626--2584683	19	2.9	19	70	9	53	55	0	1	43	1.10
2584614--2584688	14	5.8	14	66	23	56	57	1	1	40	1.16
2584697--2584748	18	2.9	18	81	16	63	32	1	1	63	1.16
2584680--2584757	12	6.4	12	70	22	56	35	1	1	61	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2585034--2585065	4	8.0	4	92	0	55	21	0	3	75	0.95
2585035--2585070	12	3.0	12	91	0	54	16	0	8	75	1.04
2585162--2585190	14	2.0	15	93	6	51	24	0	0	75	0.80
2587890--2587934	21	2.2	21	88	11	67	31	20	0	48	1.49
2588168--2588210	21	2.2	20	87	8	61	32	0	0	67	0.91
2589406--2589451	18	2.5	18	89	10	67	58	0	0	41	0.98
2589394--2589451	26	2.2	26	82	11	66	53	0	1	44	1.10
2597654--2597730	34	2.4	31	78	16	84	36	2	2	58	1.26
2597778--2597853	21	3.6	21	72	19	68	56	0	0	43	0.99
2598754--2598800	13	3.7	13	80	2	60	48	2	0	48	1.13
2598759--2598889	50	2.6	51	86	6	151	46	1	3	48	1.26
2598794--2598892	50	2.0	50	97	0	189	44	1	4	50	1.27
2604027--2604068	19	2.2	19	87	8	59	38	0	4	57	1.20
2604132--2604204	21	3.5	21	74	10	69	47	6	4	41	1.49
2604111--2604202	42	2.2	42	82	3	114	46	8	4	40	1.54
2604305--2604343	10	3.7	11	80	13	55	46	10	7	35	1.67
2604305--2604359	20	2.7	20	88	5	74	45	10	7	36	1.67
2604370--2604423	17	3.3	17	76	23	62	46	3	3	46	1.38
2604767--2604886	21	5.8	20	75	12	84	55	2	1	40	1.23
2604767--2604847	31	2.6	31	82	2	90	59	2	1	37	1.19
2604750--2604856	52	2.1	52	89	0	160	57	2	2	36	1.28
2604750--2604882	10	12.9	9	70	25	70	55	3	2	39	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2604756--2604882	52	2.5	52	84	1	157	55	3	1	40	1.25
2604767--2604886	42	2.9	42	80	8	122	55	2	1	40	1.23
2605179--2605306	21	6.2	20	76	12	109	57	8	0	33	1.35
2605207--2605307	11	9.8	11	70	24	69	57	8	0	33	1.30
2605190--2605306	61	1.9	62	84	5	157	57	8	0	33	1.35
2607304--2607346	21	2.0	22	86	4	61	44	4	2	48	1.36
2612137--2612172	3	12.0	3	100	0	72	66	0	0	33	0.92
2616386--2616426	13	3.3	13	83	10	50	58	4	0	36	1.20
2617654--2617950	50	6.2	50	87	9	420	29	19	20	30	1.97
2617680--2617752	38	1.9	38	100	0	146	35	10	24	28	1.90
2622335--2622593	50	5.2	50	87	1	340	30	19	18	31	1.96
2624449--2624853	203	2.0	203	99	0	792	32	20	18	29	1.96
2634492--2634527	2	18.0	2	100	0	72	50	0	0	50	1.00
2636589--2636641	22	2.4	22	87	0	70	54	0	0	45	0.99
2636600--2636636	12	3.2	12	81	11	51	56	0	0	43	0.99
2636600--2636650	14	3.8	13	80	15	50	60	0	0	39	0.97
2638708--2638772	32	2.0	32	82	8	78	32	1	3	63	1.19
2639809--2639844	2	18.0	2	100	0	72	50	0	0	50	1.00
2640280--2640343	32	2.0	33	87	3	94	53	1	0	45	1.10
2640305--2640353	17	2.8	18	77	22	59	53	0	0	46	1.00
2640294--2640354	27	2.3	27	75	16	63	54	0	0	45	1.00
2640403--2640478	36	2.1	36	97	0	143	28	23	13	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2641839--2641880	20	2.0	21	86	13	61	38	2	0	59	1.10
2643358--2643411	21	2.7	21	78	16	60	57	0	1	40	1.09
2643957--2644012	22	2.5	22	76	2	58	35	0	1	62	1.06
2644188--2644226	2	19.5	2	100	0	78	48	0	0	51	1.00
2644378--2644408	13	2.4	13	88	0	53	38	0	3	58	1.15
2645007--2645048	20	2.2	20	91	4	68	45	0	2	52	1.13
2645567--2645602	17	2.1	17	90	10	56	61	0	5	33	1.19
2646028--2646085	25	2.4	24	76	2	62	34	1	3	60	1.24
2646436--2646499	31	2.0	34	81	9	80	56	6	1	35	1.34
2646629--2646667	21	2.0	20	90	10	62	69	2	0	28	1.02

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18