genome.fa.s60.2.7.7.80.10.50.1000.16.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: Scaffold60
Parameters: 2 7 7 80 10 50 1000
Length:  3815296

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  16  of  21  ( 2419 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)
2508947--2508984	18	2.1	18	100	0	76	55	0	0	44	0.99
2509064--2509218	17	9.0	18	69	20	66	40	1	1	56	1.19
2509114--2509196	19	4.3	19	77	7	69	38	0	1	60	1.05
2509142--2509209	31	2.3	29	87	7	93	39	0	0	60	0.97
2509142--2509189	11	4.5	11	75	19	57	37	0	0	62	0.95
2509143--2509209	28	2.3	31	87	7	95	40	0	0	59	0.97
2519316--2519349	3	11.3	3	100	0	68	64	0	35	0	0.94
2519898--2519926	15	2.0	15	93	6	51	72	0	0	27	0.85
2523052--2523089	19	2.0	19	85	10	51	28	0	10	60	1.30
2523107--2523168	32	1.9	32	90	6	99	45	1	0	53	1.10
2523082--2523190	17	6.4	17	73	16	75	43	0	0	55	1.05
2523284--2523314	2	15.5	2	93	0	53	48	0	3	48	1.17
2524977--2525015	3	13.0	3	94	0	69	64	33	2	0	1.08
2524977--2525051	9	8.0	9	74	14	53	56	33	8	2	1.43
2525977--2526014	19	1.9	19	85	15	51	57	7	0	34	1.28
2527003--2527069	15	4.5	15	71	3	55	58	0	0	41	0.98
2527005--2527049	14	3.1	14	80	3	54	60	0	0	40	0.97
2526993--2527080	25	3.5	24	78	12	79	57	1	0	40	1.06
2527028--2527074	20	2.3	20	75	7	51	55	0	0	44	0.99
2527284--2527316	2	16.5	2	93	0	57	45	0	0	54	0.99
2530382--2530449	33	2.1	33	97	0	127	38	22	11	27	1.89
2543297--2543390	35	2.8	33	78	13	86	46	0	0	53	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2543751--2543793	3	14.3	3	100	0	86	65	0	0	34	0.93
2549109--2549137	3	9.7	3	100	0	58	31	34	0	34	1.58
2555490--2555532	21	2.0	22	86	4	61	46	0	0	53	1.00
2558652--2558730	38	2.1	38	83	4	97	51	1	0	46	1.08
2558678--2558753	19	4.1	19	75	11	59	59	1	1	38	1.14
2559857--2559912	3	18.7	3	100	0	112	33	0	0	66	0.92
2560514--2560551	2	19.0	2	88	0	58	44	0	0	55	0.99
2561931--2561971	20	2.0	22	90	9	68	68	0	0	31	0.90
2564158--2564196	19	2.0	21	85	10	55	48	5	5	41	1.47
2567081--2567117	19	1.9	19	94	0	65	37	0	0	62	0.96
2567197--2567234	14	2.9	14	92	7	62	50	0	0	50	1.00
2568462--2568519	26	2.1	28	84	12	77	53	0	0	46	1.00
2568476--2568522	16	3.0	16	78	12	53	53	0	0	46	1.00
2569411--2569493	24	3.6	22	71	22	64	65	2	3	28	1.22
2569413--2569500	45	2.0	45	82	13	110	67	2	3	27	1.19
2569684--2569748	8	7.6	8	76	19	60	60	0	0	40	0.97
2569684--2569750	16	4.5	15	75	19	68	61	0	0	38	0.96
2571594--2571663	27	2.6	28	75	6	72	57	0	4	38	1.19
2574684--2574787	18	5.7	18	71	17	65	63	2	0	33	1.09
2574716--2574776	6	10.5	6	76	13	56	63	1	0	34	1.04
2574737--2574796	21	2.9	21	79	18	63	70	1	0	28	0.97
2574738--2574792	15	3.9	14	78	19	60	72	1	0	25	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2574738--2574795	26	2.1	27	87	6	82	72	1	0	25	0.94
2577858--2577914	19	3.3	16	78	16	53	68	0	0	31	0.90
2577857--2577898	15	2.5	17	81	11	52	66	0	0	33	0.92
2577930--2578046	53	2.2	52	95	1	207	43	18	0	37	1.51
2578240--2578265	2	13.0	2	100	0	52	50	0	0	50	1.00
2585411--2585440	3	10.0	3	92	0	51	3	0	33	63	1.11
2586029--2586071	13	3.2	13	83	3	50	44	0	2	53	1.13
2588002--2588055	27	2.0	27	88	0	81	27	11	3	57	1.50
2601764--2601796	2	16.5	2	93	0	57	45	3	0	51	1.16
2607710--2607900	61	3.1	61	88	2	267	28	14	14	42	1.85
2610247--2610313	33	2.0	33	88	5	100	37	19	25	17	1.94
2611152--2611204	2	27.0	2	96	3	99	49	0	0	50	1.00
2617469--2617527	24	2.4	25	77	2	75	38	0	0	61	0.96
2617491--2617534	19	2.3	19	80	4	52	40	0	2	56	1.11
2617611--2617686	20	3.8	20	81	11	93	52	1	1	44	1.17
2620866--2620922	13	4.2	14	75	20	59	40	0	1	57	1.09
2621491--2621526	9	3.8	10	89	10	58	58	0	0	41	0.98
2621546--2621620	23	3.3	21	74	9	60	42	1	2	53	1.23
2621388--2621620	16	14.6	16	68	17	103	45	1	2	50	1.23
2621561--2621620	22	2.7	23	73	17	63	46	0	1	51	1.10
2622845--2622874	12	2.6	11	90	10	51	80	0	0	20	0.72
2623069--2623107	13	3.0	13	76	0	51	20	33	12	33	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2626157--2626212	20	2.9	19	77	15	60	53	0	1	44	1.11
2631920--2631992	35	2.2	33	83	9	87	38	2	4	54	1.34
2639279--2639312	2	17.0	2	100	0	68	50	0	0	50	1.00
2639432--2639484	26	2.1	25	85	3	70	58	1	3	35	1.27
2644870--2644934	22	2.7	23	82	15	71	35	0	0	64	0.94
2644990--2645039	16	3.1	16	73	23	50	30	6	0	64	1.18
2644966--2645049	43	2.0	43	87	0	123	27	8	1	63	1.31
2645422--2645447	13	2.0	13	100	0	52	15	23	30	30	1.95
2646102--2646151	23	2.1	23	88	3	73	38	0	0	62	0.96
2646110--2646145	16	2.3	16	90	4	56	38	0	0	61	0.96
2646180--2646247	6	11.7	6	74	14	54	33	0	0	66	0.92
2646178--2646217	11	3.3	12	89	10	64	22	0	0	77	0.77
2646180--2646228	17	3.0	17	80	11	50	28	0	0	71	0.86
2646178--2646227	23	2.2	23	89	7	75	26	0	0	74	0.83
2646179--2646247	12	6.0	11	79	14	68	33	0	0	66	0.92
2646178--2646234	23	2.4	24	85	8	64	29	0	0	70	0.88
2646280--2646335	26	2.3	26	84	9	73	32	1	0	66	1.03
2647293--2647336	19	2.2	20	88	4	63	29	0	0	70	0.88
2647280--2647346	32	2.1	32	82	0	80	26	0	2	70	1.02
2659861--2659983	60	2.0	60	96	0	228	22	17	27	31	1.97
2678206--2678249	21	2.2	20	88	8	63	63	0	0	36	0.95
2681640--2681674	3	11.7	3	100	0	70	34	34	0	31	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2681820--2681876	14	4.2	13	80	14	62	40	0	1	57	1.09
2681821--2681871	27	1.9	26	88	4	75	37	0	1	60	1.08
2682103--2682157	22	2.6	22	77	11	53	49	0	3	47	1.19
2682257--2682287	14	2.2	14	100	0	62	38	6	6	48	1.55
2682325--2682375	14	3.4	14	80	19	66	49	0	0	50	1.00
2682293--2682392	51	1.9	53	86	8	143	46	1	1	52	1.14
2682303--2682386	32	2.6	33	83	14	113	46	0	0	53	1.00
2682364--2682409	20	2.2	21	88	3	67	30	0	0	69	0.89
2682381--2682410	15	2.1	15	93	6	53	23	0	0	76	0.78
2689411--2689492	42	2.0	42	92	0	137	28	19	18	34	1.95
2691250--2691292	18	2.4	18	76	0	50	23	18	6	51	1.70
2694872--2694939	34	2.0	34	85	8	93	50	0	0	50	1.00
2698799--2698830	2	16.0	2	100	0	64	50	0	0	50	1.00
2703683--2703707	5	5.0	5	100	0	50	20	0	0	80	0.72
2705057--2705115	20	3.0	20	73	9	59	28	1	3	66	1.18
2707882--2707928	15	3.1	15	75	0	58	29	21	12	36	1.91
2708000--2708051	17	3.2	16	77	20	54	42	0	0	57	0.98
2707998--2708039	18	2.3	18	84	8	50	40	0	0	59	0.97
2711289--2711339	21	2.4	20	81	12	57	47	0	0	52	1.00
2714085--2714127	22	2.0	22	90	4	70	67	2	0	30	1.03
2714085--2714141	22	2.5	23	81	18	66	64	3	0	31	1.10
2717602--2717643	15	2.6	16	85	7	59	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2717624--2717671	22	2.2	21	82	7	60	58	2	0	39	1.10
2717974--2718027	22	2.3	23	84	6	65	62	3	0	33	1.12
2721743--2721775	16	2.1	16	94	0	57	27	18	30	24	1.98
2728995--2729019	10	2.5	10	100	0	50	60	8	0	32	1.26
2728713--2729173	228	2.0	229	92	2	766	47	11	9	31	1.71
2733316--2733349	11	3.2	11	91	4	52	52	0	0	47	1.00
2745026--2745074	23	2.1	23	85	7	64	44	0	0	55	0.99
2745729--2745762	5	6.8	5	93	0	59	20	38	38	2	1.68
2745896--2745929	6	6.0	6	93	6	54	64	0	0	35	0.94
2745898--2745972	16	4.6	17	73	18	70	58	0	1	40	1.06

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21