genome.fa.s11.2.7.7.80.10.50.1000.18.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: Scaffold11
Parameters: 2 7 7 80 10 50 1000
Length:  5230303

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   

This is table  18  of  29  ( 3461 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)
2613024--2613064	2	20.5	2	100	0	82	51	0	0	48	1.00
2620536--2620560	2	12.5	2	100	0	50	52	0	0	48	1.00
2623181--2623212	2	16.0	2	93	0	55	50	3	0	46	1.17
2625144--2625194	22	2.4	21	80	3	57	50	0	3	45	1.20
2625144--2625194	7	7.1	7	77	4	57	50	0	3	45	1.20
2627103--2627181	20	4.0	20	76	20	76	41	0	0	58	0.98
2627083--2627147	26	2.5	25	77	5	67	38	1	1	58	1.17
2627115--2627162	21	2.5	18	81	18	53	35	0	0	64	0.94
2627399--2627424	3	8.7	3	100	0	52	69	0	0	30	0.89
2635496--2635556	2	30.5	2	93	0	104	50	0	49	0	1.00
2636953--2636977	12	2.1	12	100	0	50	56	0	8	36	1.29
2639822--2639861	20	2.0	21	85	5	55	52	12	0	35	1.39
2642363--2642388	2	13.0	2	100	0	52	50	0	0	50	1.00
2642573--2642640	31	2.2	32	79	15	79	20	13	14	51	1.76
2642583--2642646	32	2.0	32	93	6	112	17	10	15	56	1.67
2642802--2642845	23	1.9	23	86	9	63	43	0	0	56	0.99
2647031--2647069	19	2.2	18	86	9	53	35	7	2	53	1.43
2647938--2647991	25	2.3	22	84	9	63	48	1	0	50	1.11
2648000--2648036	2	18.5	2	89	10	58	48	0	2	48	1.15
2648354--2648392	16	2.5	15	87	4	51	53	2	0	43	1.14
2648472--2648525	22	2.5	21	85	8	72	22	3	33	40	1.71
2648649--2648757	9	11.9	9	70	17	64	50	2	0	46	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2648661--2648725	17	3.8	17	74	11	62	55	4	0	40	1.21
2648709--2648760	26	2.0	27	96	3	97	44	0	0	55	0.99
2648835--2648941	10	9.9	11	68	23	59	57	0	0	42	0.98
2648851--2648976	37	3.4	37	78	14	116	55	0	1	42	1.15
2648828--2648954	19	6.6	20	73	20	101	56	0	0	43	0.99
2653838--2653888	22	2.6	19	87	12	68	47	0	0	52	1.00
2654679--2654739	14	4.1	14	79	10	68	49	0	0	50	1.00
2654679--2654738	30	2.0	31	86	3	86	48	0	0	51	1.00
2655155--2655210	25	2.3	25	87	9	80	42	0	0	57	0.99
2655149--2655221	33	2.1	34	83	14	89	42	1	0	56	1.08
2655154--2655226	16	4.9	15	71	20	55	42	1	0	56	1.08
2655258--2655311	12	4.7	11	80	13	56	66	1	0	31	1.02
2655258--2655309	11	4.5	12	77	15	56	65	1	0	32	1.04
2664984--2665032	21	2.3	22	85	3	64	36	4	0	59	1.17
2668086--2668114	4	7.2	4	100	0	58	0	24	0	75	0.80
2668551--2668586	11	3.4	11	88	7	56	58	0	0	41	0.98
2668544--2668586	10	4.3	10	80	8	52	62	0	0	37	0.95
2668909--2668944	4	9.0	4	100	0	72	50	25	0	25	1.50
2669560--2669633	32	2.3	32	97	0	139	24	28	5	41	1.77
2672372--2672431	30	1.9	33	83	10	81	55	0	0	45	0.99
2672376--2672421	23	2.0	22	83	4	56	56	0	0	43	0.99
2676317--2676349	2	16.5	2	100	0	66	51	48	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2677901--2677925	13	1.9	13	100	0	50	32	0	4	64	1.12
2677983--2678011	14	2.1	14	93	6	51	44	3	0	51	1.18
2686005--2686040	2	18.0	2	100	0	72	50	0	0	50	1.00
2698599--2698650	6	8.7	6	91	8	70	19	50	9	21	1.76
2704229--2704258	1	30.0	1	93	0	51	0	3	0	96	0.21
2704745--2704785	12	3.5	12	87	9	50	51	0	0	48	1.00
2704751--2704826	29	2.7	29	76	12	77	48	1	0	50	1.09
2704827--2704863	18	2.0	19	89	5	58	54	0	0	45	1.00
2704920--2704993	11	6.7	11	75	17	64	37	1	2	58	1.21
2704920--2704959	20	2.0	20	90	0	62	35	0	0	65	0.93
2705010--2705055	23	2.0	23	87	8	67	58	0	0	41	0.98
2705394--2705444	23	2.3	22	83	10	59	54	0	0	45	0.99
2705413--2705460	24	2.1	23	88	7	71	50	0	2	47	1.12
2706757--2706800	3	14.7	3	95	0	79	34	2	0	63	1.07
2707075--2707119	3	15.0	3	100	0	90	33	0	0	66	0.92
2707198--2707222	2	12.5	2	100	0	50	48	0	0	52	1.00
2707544--2707578	17	2.2	17	90	10	56	40	0	0	60	0.97
2708619--2708647	2	14.5	2	100	0	58	51	0	0	48	1.00
2708781--2708822	15	3.0	14	80	10	50	40	0	2	57	1.12
2709098--2709144	16	3.1	15	82	8	60	48	0	2	48	1.13
2709098--2709169	32	2.2	33	80	7	85	45	0	1	52	1.09
2709839--2709899	16	3.9	16	71	26	51	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2709816--2709942	36	3.8	32	69	20	91	43	0	1	55	1.09
2709829--2709900	30	2.6	27	78	22	78	41	0	0	58	0.98
2709856--2709955	36	2.6	38	76	17	100	48	0	2	50	1.12
2710990--2711059	32	2.2	31	80	14	79	58	1	0	40	1.07
2711012--2711090	24	3.4	23	78	5	88	50	1	0	48	1.08
2713754--2713787	17	1.9	18	88	5	52	52	11	0	35	1.38
2714189--2714221	2	17.0	2	87	6	50	45	0	0	54	0.99
2717267--2717328	31	2.0	31	96	0	115	27	25	3	43	1.70
2732393--2732434	21	2.0	21	86	13	61	59	0	0	40	0.97
2732449--2732476	13	2.2	13	100	0	56	60	0	0	39	0.97
2734635--2734667	17	2.0	17	88	5	50	45	0	0	54	0.99
2734755--2734821	27	2.4	27	85	9	82	46	2	0	50	1.16
2735069--2735118	21	2.3	23	80	13	61	48	0	0	52	1.00
2735469--2735592	50	2.5	50	82	1	151	29	15	20	34	1.94
2739946--2740215	50	5.4	50	81	5	289	31	17	17	34	1.93
2739940--2740215	99	2.8	99	79	6	317	31	17	17	33	1.93
2743247--2743294	16	3.1	16	81	3	62	52	0	0	47	1.00
2744040--2744105	29	2.3	30	84	12	93	48	3	0	48	1.17
2744318--2744360	13	3.1	13	78	18	50	37	0	2	60	1.10
2744306--2744370	29	2.2	29	83	0	85	44	0	3	52	1.16
2746069--2746094	2	13.0	2	100	0	52	50	0	0	50	1.00
2746783--2746812	2	15.0	2	100	0	60	50	0	50	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2749599--2749647	24	2.0	24	100	0	98	44	16	4	34	1.66
2749599--2749639	13	3.3	13	73	13	50	43	14	4	36	1.67
2750603--2750638	17	2.1	17	89	0	54	50	2	0	47	1.15
2752531--2752557	2	13.5	2	100	0	54	48	0	0	51	1.00
2752821--2752858	19	2.0	20	89	5	60	52	2	2	42	1.29
2758072--2758097	3	8.7	3	100	0	52	0	0	30	69	0.89
2758432--2758460	2	14.5	2	100	0	58	48	0	51	0	1.00
2760288--2760317	2	15.0	2	92	0	51	50	3	0	46	1.18
2760288--2760702	208	2.0	210	84	4	554	48	5	7	38	1.55
2761107--2761152	17	2.8	16	80	6	56	54	0	0	45	0.99
2761935--2761972	19	2.0	19	90	10	60	60	0	0	39	0.97
2761938--2761982	17	2.4	19	82	10	58	55	0	0	44	0.99
2763865--2764262	201	2.0	201	91	1	654	28	20	19	31	1.97
2764165--2764747	300	1.9	300	85	1	792	28	20	22	28	1.98
2768074--2768115	16	2.8	16	86	13	54	33	0	0	66	0.92
2768074--2768119	18	2.6	18	86	13	60	34	0	0	65	0.93
2768134--2768177	18	2.3	20	80	7	56	54	0	0	45	0.99
2771513--2771553	2	20.5	2	94	0	73	46	0	2	51	1.14
2776211--2776263	27	2.0	27	88	0	79	49	15	7	28	1.71
2779719--2779754	3	12.0	3	93	0	63	66	2	30	0	1.06
2780300--2780375	30	2.5	31	80	6	102	47	0	10	42	1.38
2780349--2780414	29	2.3	28	76	2	69	53	3	9	34	1.48
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2782003--2782037	11	3.2	11	87	0	52	0	0	11	88	0.51
2786642--2786682	19	2.2	18	86	8	55	46	0	0	53	1.00
2786642--2786697	18	3.0	19	84	7	62	44	0	0	55	0.99
2786672--2786715	17	2.5	19	89	10	67	38	0	0	61	0.96
2787153--2787235	28	3.1	27	68	22	68	37	0	0	62	0.95
2787149--2787218	28	2.5	28	74	4	70	38	0	0	61	0.96
2787152--2787229	24	3.0	23	72	20	66	38	0	0	61	0.96
2789102--2789135	2	17.0	2	100	0	68	50	0	0	50	1.00
2789398--2789430	2	16.5	2	100	0	66	48	0	51	0	1.00
2789711--2789757	2	23.5	2	100	0	94	48	0	0	51	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   28   29