genome.fa.s7832.2.7.7.80.10.50.1000.16.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: VEPZ01007832.1 Hibiscus syriacus cultivar Beakdansim tig00110174_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4020056

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  ( 2482 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)
2902862--2902914	21	2.5	23	77	17	62	32	16	26	24	1.97
2913359--2913421	3	21.3	3	72	15	51	69	0	3	26	1.03
2914828--2914856	14	2.1	14	100	0	58	13	20	13	51	1.75
2915159--2915352	84	2.3	85	86	3	257	23	18	25	32	1.97
2915345--2915462	33	3.6	34	89	7	190	30	10	18	40	1.84
2915448--2915800	36	10.1	36	75	16	309	37	14	20	27	1.91
2915445--2915636	67	2.8	69	82	10	207	38	14	20	26	1.91
2915582--2915612	15	2.1	15	93	0	53	35	9	19	35	1.85
2915515--2915800	71	4.1	72	76	13	292	38	13	19	27	1.90
2915524--2915787	101	2.5	105	76	12	290	39	14	20	26	1.90
2915457--2915795	173	1.9	175	88	4	508	38	14	20	26	1.91
2915697--2915825	36	3.6	34	85	9	159	37	13	20	27	1.91
2924023--2924105	22	3.7	22	85	3	112	24	30	25	20	1.99
2924029--2924085	23	2.5	23	88	2	80	22	33	21	22	1.97
2925680--2925720	18	2.3	18	91	0	64	46	21	31	0	1.52
2929651--2929714	30	2.2	30	78	10	71	70	0	6	23	1.10
2929629--2929739	40	2.7	42	80	14	108	65	0	5	28	1.14
2931095--2931137	15	3.1	14	90	9	63	74	0	0	25	0.82
2931104--2931138	3	12.0	3	93	6	63	68	0	0	31	0.90
2931290--2931318	15	1.9	15	100	0	58	20	0	27	51	1.47
2938511--2938555	3	15.3	3	95	4	83	33	0	0	66	0.92
2942180--2942362	94	2.0	92	86	4	260	34	16	17	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2943542--2945017	84	17.9	82	80	4	1371	31	24	18	25	1.98
2943542--2944984	165	8.8	161	79	6	1399	31	24	19	25	1.98
2943542--2945002	249	5.9	245	84	4	1515	31	24	19	25	1.98
2945706--2946009	37	8.7	35	84	10	308	46	3	3	46	1.37
2945688--2945974	37	7.9	37	85	9	337	45	3	4	45	1.41
2946017--2946071	11	5.2	10	76	23	51	38	1	3	56	1.28
2947284--2947331	21	2.3	21	85	7	62	33	4	0	62	1.14
2949116--2949338	45	5.1	45	88	6	307	15	21	28	34	1.93
2949121--2949338	87	2.5	87	90	2	319	15	21	28	34	1.94
2953854--2953891	18	2.1	19	90	5	60	34	2	21	42	1.67
2954911--2954938	13	2.2	13	100	0	56	46	14	25	14	1.82
2956612--2956646	16	2.1	16	89	5	52	20	17	0	62	1.32
2956704--2956764	19	3.0	21	79	11	74	44	3	13	39	1.60
2956719--2956830	46	2.4	45	84	8	129	47	3	8	40	1.52
2956769--2956802	17	1.9	18	94	5	61	47	0	11	41	1.40
2956888--2956935	3	16.0	3	82	8	62	27	2	0	70	0.98
2959068--2959179	31	3.6	31	88	0	161	40	20	17	21	1.92
2962503--2962545	22	2.0	22	85	0	59	46	18	16	18	1.84
2963328--2963513	31	6.0	31	89	1	248	39	20	17	22	1.92
2963331--2963513	61	3.0	62	85	3	235	39	20	16	22	1.92
2963341--2963512	92	1.9	92	87	2	256	41	20	16	21	1.90
2965009--2965141	31	4.3	31	92	0	212	39	18	19	22	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2966637--2966769	31	4.3	31	87	0	185	39	17	18	24	1.91
2966627--2966769	62	2.3	62	90	0	214	39	18	18	23	1.92
2967890--2967928	18	2.2	17	90	4	60	23	25	0	51	1.49
2968241--2968395	31	5.0	31	81	5	154	38	20	16	25	1.92
2968241--2968395	62	2.5	62	85	5	190	38	20	16	25	1.92
2968632--2968669	17	2.3	17	86	4	51	39	21	10	28	1.86
2974999--2975028	13	2.3	13	94	0	51	30	3	13	53	1.56
2982705--2982784	23	3.7	22	82	8	85	23	32	25	18	1.97
2982705--2982766	23	2.7	23	90	2	90	22	32	24	20	1.98
2987982--2988018	12	3.2	12	92	3	58	64	2	8	24	1.34
2988540--2988573	16	2.1	16	94	0	59	79	0	11	8	0.94
2992160--2992197	15	2.5	15	91	0	58	7	26	0	65	1.19
2995949--2995997	13	3.7	13	94	2	80	24	48	0	26	1.51
2996239--2996286	6	7.7	6	81	9	60	79	6	14	0	0.92
2996239--2996286	13	3.8	12	81	10	60	79	6	14	0	0.92
2996236--2996286	25	2.0	25	88	7	77	78	7	13	0	0.96
2996239--2996286	19	2.5	19	83	6	62	79	6	14	0	0.92
2999243--2999292	13	3.8	13	89	0	82	24	48	0	28	1.52
3001470--3001513	2	22.0	2	100	0	88	50	0	0	50	1.00
3002130--3002181	19	2.6	19	82	14	61	71	3	5	19	1.22
3003125--3003158	16	2.1	16	94	0	59	79	0	11	8	0.94
3011723--3011778	27	2.1	27	100	0	112	28	19	17	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3017978--3018011	10	3.4	10	83	0	50	38	35	0	26	1.57
3017978--3018021	20	2.2	20	84	8	54	40	34	0	25	1.56
3038892--3038941	20	2.5	20	100	0	100	28	26	14	32	1.94
3039890--3039935	24	1.9	24	95	0	83	28	17	17	36	1.92
3042206--3042241	18	2.0	18	94	0	63	55	25	2	16	1.55
3042484--3042539	29	1.9	29	96	0	103	28	16	23	32	1.96
3042582--3042642	20	3.0	20	75	0	68	21	19	19	39	1.93
3044569--3044616	21	2.3	21	85	0	60	31	35	12	20	1.90
3046272--3046314	19	2.3	19	91	0	68	53	16	16	13	1.73
3046305--3046352	20	2.4	19	86	6	60	62	16	6	14	1.51
3046886--3046923	20	2.0	20	84	5	51	44	13	15	26	1.83
3046930--3046975	20	2.3	20	96	0	83	17	13	26	43	1.85
3047592--3047690	21	4.8	20	72	6	72	36	23	19	21	1.95
3047658--3047851	40	4.8	39	83	3	199	36	26	18	18	1.94
3047658--3047850	60	3.2	60	82	3	235	36	26	18	18	1.94
3047658--3047848	20	9.5	20	86	2	96	36	26	18	18	1.94
3048230--3048300	33	2.2	33	94	0	124	11	23	16	47	1.79
3048380--3048487	21	5.7	20	74	15	95	45	19	24	11	1.82
3048380--3048456	21	3.8	20	82	5	100	45	16	24	12	1.83
3048379--3048456	41	1.9	41	97	0	147	44	16	25	12	1.83
3048392--3048498	19	5.7	19	71	16	80	46	20	22	10	1.80
3048494--3048607	19	6.1	19	75	13	94	11	23	18	46	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3048523--3048601	20	4.0	20	80	6	106	11	24	17	46	1.81
3050306--3050495	93	2.1	92	95	1	344	23	12	18	45	1.83
3050540--3050668	19	7.3	19	77	17	134	48	27	15	8	1.74
3050575--3050668	33	2.8	33	90	4	145	50	26	15	7	1.71
3050626--3050652	14	1.9	14	100	0	54	48	29	14	7	1.71
3050540--3050668	52	2.5	52	76	12	147	48	27	15	8	1.74
3050664--3050836	19	9.6	19	75	12	150	10	17	24	46	1.80
3050664--3050836	33	4.8	38	80	5	150	10	17	24	46	1.80
3052761--3052796	14	2.6	14	95	0	63	33	0	22	44	1.53
3052903--3052996	19	5.2	19	81	13	126	45	17	21	15	1.85
3052903--3053019	53	2.2	53	95	1	209	45	17	22	14	1.85
3053015--3053178	33	4.8	33	74	16	163	14	22	17	45	1.84
3053066--3053245	86	2.1	84	86	12	242	13	22	18	46	1.83
3053047--3053245	33	5.7	34	75	17	185	13	22	18	46	1.83
3053009--3053231	19	12.7	19	76	19	234	14	21	17	45	1.85
3053009--3053231	53	4.2	53	95	1	380	14	21	17	45	1.85
3055726--3055772	24	2.0	24	87	8	69	38	21	14	25	1.92
3056465--3056673	20	10.4	20	87	2	231	19	17	25	37	1.93
3058027--3058054	12	2.3	12	100	0	56	50	0	0	50	1.00
3058256--3058420	51	3.3	50	84	8	228	25	15	15	43	1.86
3066119--3066161	17	2.3	19	84	15	54	46	2	2	48	1.27
3073099--3073161	25	2.5	25	94	0	108	26	19	7	46	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3073457--3073521	28	2.4	28	92	2	105	18	20	10	50	1.76
3074778--3074815	15	2.5	15	88	12	60	28	0	0	71	0.87
3077267--3077299	17	2.0	17	88	5	50	6	12	21	60	1.53
3085767--3085831	29	2.2	29	88	0	94	47	18	20	13	1.82
3085825--3085878	20	2.6	21	91	5	92	31	7	5	55	1.51
3085833--3085879	20	2.3	20	100	0	94	27	8	4	59	1.45
3085833--3085891	20	2.9	20	89	2	55	35	6	3	54	1.44
3086478--3086866	36	10.8	35	81	9	421	44	4	6	44	1.50
3086478--3086904	73	5.9	72	83	8	455	44	3	6	44	1.49
3086479--3086905	37	11.8	36	74	13	188	45	3	6	44	1.48

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