genome.fa.s65.2.7.7.80.10.50.1000.16.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: Scaffold65
Parameters: 2 7 7 80 10 50 1000
Length:  3097370

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

This is table  16  of  17  ( 1956 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)
2892643--2892681	20	2.0	20	85	10	53	58	2	0	38	1.12
2895925--2895949	13	1.9	13	100	0	50	48	4	0	48	1.20
2896573--2896622	20	2.4	21	80	10	57	46	0	0	54	1.00
2896583--2896621	20	1.9	21	89	5	62	38	0	0	61	0.96
2901051--2901123	32	2.3	33	85	4	96	39	2	2	54	1.29
2901114--2901163	11	4.5	11	79	16	50	26	0	2	72	0.96
2901114--2901153	13	3.3	13	83	10	50	27	0	2	70	1.01
2904898--2905306	209	2.0	209	89	0	631	37	20	15	26	1.92
2906891--2906943	3	17.7	3	96	0	97	0	35	0	64	0.94
2908054--2908103	25	2.0	25	84	11	66	42	0	0	58	0.98
2909397--2909437	21	2.0	21	85	9	57	39	9	7	43	1.65
2915347--2915402	13	4.3	13	78	12	53	44	0	1	53	1.11
2915510--2915572	12	5.3	12	73	16	51	53	3	1	41	1.26
2917813--2917854	21	2.0	21	85	4	57	61	2	0	35	1.09
2918270--2918315	22	2.1	21	84	11	58	54	0	6	39	1.26
2919315--2919370	29	1.9	28	85	7	76	5	16	3	75	1.13
2919272--2919388	5	22.4	5	72	18	55	5	14	3	76	1.08
2919290--2919411	27	4.7	23	70	23	59	7	13	2	77	1.08
2919372--2919416	23	2.0	22	86	4	63	13	8	0	77	0.98
2919311--2919416	27	4.0	25	70	19	63	9	13	1	75	1.12
2921113--2921142	6	5.0	6	95	0	51	36	0	0	63	0.95
2921198--2921244	24	2.0	24	84	12	62	38	4	0	57	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2922185--2922219	18	1.9	18	88	0	52	48	0	2	48	1.16
2926403--2926436	2	17.0	2	100	0	68	50	0	0	50	1.00
2926894--2926918	4	6.2	4	100	0	50	48	0	0	52	1.00
2927900--2927933	7	4.5	8	89	10	54	20	0	0	79	0.73
2927900--2927932	15	2.3	15	94	5	59	21	0	0	78	0.75
2928266--2928301	17	2.1	17	94	0	63	69	0	5	25	1.10
2928553--2928590	17	2.2	18	86	9	53	65	0	0	34	0.93
2932529--2932563	16	2.1	16	89	5	52	60	2	2	34	1.26
2933821--2933865	19	2.4	19	85	7	56	48	13	0	37	1.42
2936110--2936141	2	15.5	2	93	6	55	46	0	3	50	1.17
2940381--2940415	14	2.3	15	85	14	54	45	0	0	54	0.99
2940388--2940415	14	2.0	14	100	0	56	42	0	0	57	0.99
2940494--2940543	22	2.4	22	80	6	59	34	2	8	56	1.40
2940535--2940583	21	2.3	20	86	6	62	59	2	2	36	1.21
2940541--2940598	26	2.3	26	82	11	77	62	1	0	36	1.06
2941095--2941199	29	3.5	30	74	11	81	59	1	0	39	1.09
2941582--2941627	9	5.2	9	79	10	51	73	2	15	8	1.16
2942972--2943002	16	1.9	16	93	0	53	61	6	3	29	1.37
2942972--2943010	16	2.3	16	86	8	51	61	5	2	30	1.31
2943098--2943144	24	2.0	25	87	8	71	36	6	10	46	1.64
2945142--2945176	11	3.1	11	88	8	52	34	0	2	62	1.10
2945414--2945460	23	2.0	23	92	8	78	63	0	0	36	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2946890--2946931	17	2.6	16	85	7	57	38	2	0	59	1.10
2946890--2946942	16	3.3	15	77	15	52	32	3	0	64	1.12
2946890--2946943	17	3.2	16	76	5	54	31	3	0	64	1.11
2947487--2947559	36	2.0	37	84	7	96	54	2	2	39	1.29
2948865--2948953	39	2.3	38	94	3	151	51	10	8	29	1.66
2948991--2950065	538	2.0	538	100	0	2150	28	25	17	28	1.97
2950542--2950742	100	2.0	100	90	0	312	41	18	14	24	1.88
2953451--2953479	12	2.3	13	94	5	51	75	0	0	24	0.80
2953916--2953952	18	2.1	18	89	0	56	56	0	2	40	1.13
2956666--2956700	16	2.2	16	90	5	54	57	8	5	28	1.52
2963812--2963847	2	18.5	2	88	5	56	47	0	2	50	1.15
2963819--2963851	10	3.3	10	95	0	57	42	0	6	51	1.26
2966700--2966741	21	2.0	21	86	9	59	54	2	0	42	1.13
2967273--2967332	26	2.3	27	77	13	72	53	0	3	43	1.17
2967979--2968057	3	26.7	3	97	2	151	32	0	0	67	0.91
2968816--2968888	36	2.0	37	83	2	94	52	1	4	42	1.29
2968806--2968962	75	2.1	76	80	10	180	54	1	3	40	1.24
2968928--2968986	23	2.5	24	78	13	68	62	0	1	35	1.05
2968923--2968986	24	2.8	23	79	13	78	62	0	1	35	1.05
2979761--2979787	2	13.5	2	100	0	54	48	0	0	51	1.00
2981070--2981102	11	2.8	12	86	9	50	69	0	3	27	1.03
2981059--2981096	18	2.1	18	85	9	51	71	0	2	26	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2988806--2988851	12	3.8	12	83	8	58	21	65	10	2	1.35
2990826--2991018	71	2.7	71	82	4	212	19	39	9	31	1.83
2992656--2992707	25	2.1	25	100	0	86	38	11	21	28	1.88
2992849--2992879	2	15.5	2	100	0	62	51	0	0	48	1.00
2993216--2993241	12	2.2	12	100	0	52	42	50	7	0	1.31
2993289--2993325	2	19.0	2	94	5	67	48	0	0	51	1.00
2994268--2994310	13	3.1	13	78	15	50	39	0	0	60	0.97
2994241--2994315	25	2.8	28	78	17	95	44	0	0	56	0.99
2996631--2996675	22	2.0	23	82	4	56	33	6	0	60	1.23
2997215--2997295	29	2.7	29	79	11	101	45	1	0	53	1.08
2997208--2997321	30	3.6	32	72	21	91	48	1	0	50	1.11
2997419--2997513	37	2.5	39	73	9	92	42	3	2	52	1.29
2999054--2999133	26	3.2	25	75	12	83	47	0	2	50	1.14
2999197--2999237	16	2.7	16	85	7	50	43	0	2	53	1.13
2999229--2999340	35	3.2	33	76	15	93	42	3	0	52	1.24
3003426--3003550	52	2.4	52	95	0	223	28	17	18	36	1.94
3003426--3003570	52	2.8	51	89	4	211	29	17	18	34	1.94
3003559--3003583	13	1.9	13	100	0	50	36	16	16	32	1.90
3003624--3003693	33	2.1	33	89	0	104	40	14	11	34	1.82
3003649--3003673	13	1.9	13	100	0	50	32	16	16	36	1.90
3004139--3004171	3	11.0	3	100	0	66	66	0	0	33	0.92
3006633--3006657	13	1.9	13	100	0	50	36	16	16	32	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3006613--3006678	32	2.0	33	94	2	116	34	12	16	36	1.86
3006731--3006859	52	2.5	52	96	0	231	35	17	17	29	1.93
3013695--3013733	15	2.4	16	87	8	53	46	5	0	48	1.24
3016840--3016879	19	2.1	19	85	0	53	57	0	0	42	0.98
3016915--3016958	17	2.6	18	89	7	65	29	4	4	61	1.36
3017024--3017057	11	3.0	11	83	8	50	32	0	0	67	0.91
3017024--3017068	14	3.6	14	82	17	55	35	0	0	64	0.94
3031191--3031348	58	2.7	58	77	2	174	49	14	8	27	1.72
3031191--3031379	58	3.2	57	73	5	155	48	13	9	28	1.73
3032327--3032355	15	1.9	15	100	0	58	0	20	0	79	0.74
3032329--3032378	13	4.2	12	82	14	52	2	14	0	84	0.72
3034190--3034226	2	18.5	2	100	0	74	51	0	0	48	1.00
3034259--3034295	11	3.8	10	82	17	51	32	0	0	67	0.91
3034259--3034299	18	2.3	18	91	8	66	31	0	0	68	0.90
3034259--3034299	9	4.6	9	77	22	50	31	0	0	68	0.90
3035259--3035353	45	2.1	45	79	11	106	49	0	0	50	1.00
3035293--3035355	21	2.9	21	86	9	83	46	0	0	53	1.00
3035284--3035355	23	3.2	23	79	15	87	48	0	0	51	1.00
3036451--3036493	5	8.2	5	82	7	50	44	0	2	53	1.13
3036451--3036493	16	2.8	16	82	3	52	44	0	2	53	1.13
3037458--3037515	26	2.3	25	81	3	71	65	1	31	1	1.13
3037947--3037994	12	4.2	11	76	7	51	25	0	4	70	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3038699--3038732	12	3.0	12	91	8	54	32	0	0	67	0.91
3038707--3038767	22	3.0	20	77	11	63	29	6	0	63	1.19
3038920--3038964	22	2.1	21	95	4	81	71	17	2	8	1.23
3042740--3042784	2	22.5	2	100	0	90	48	0	0	51	1.00
3042927--3042979	24	2.2	24	100	0	106	39	11	3	45	1.58
3043635--3043683	22	2.2	22	85	7	64	26	0	8	65	1.20
3044215--3044256	14	2.9	15	86	6	61	40	4	0	54	1.21
3045393--3045437	21	2.0	21	87	8	63	55	0	0	44	0.99
3046705--3046975	50	5.4	50	84	2	321	29	17	19	33	1.95
3051349--3051514	50	3.3	50	85	3	199	31	16	17	33	1.93

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