genome.fa.s7800.2.7.7.80.10.50.1000.16.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: VEPZ01007800.1 Hibiscus syriacus cultivar Beakdansim tig00110114_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4652821

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  16  of  23  ( 2671 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)
3059935--3060417	122	3.9	128	89	7	791	32	19	24	23	1.97
3060406--3060458	26	2.1	26	96	3	99	35	15	18	30	1.92
3060512--3060552	8	5.2	8	82	5	57	36	29	0	34	1.58
3064749--3064783	17	2.1	17	100	0	70	48	17	11	22	1.79
3066675--3066726	24	2.1	25	82	3	61	76	0	3	19	0.93
3066755--3066789	15	2.4	15	90	4	54	77	0	8	14	0.99
3068093--3068390	68	4.3	69	77	11	265	45	7	2	44	1.46
3068093--3068325	69	3.4	70	78	12	232	47	6	2	43	1.44
3068103--3068389	33	8.4	34	74	18	206	44	7	2	44	1.47
3068093--3068429	35	9.8	34	74	18	186	45	7	3	43	1.50
3069064--3069229	84	2.0	85	84	1	217	25	20	24	29	1.99
3069391--3070412	106	9.6	106	94	0	1693	21	17	26	33	1.96
3074359--3074392	16	2.2	15	89	5	50	76	0	8	14	1.01
3075716--3075789	32	2.3	31	80	13	78	45	6	1	45	1.38
3075775--3075985	38	5.8	36	80	14	165	45	6	3	45	1.46
3075783--3075848	33	2.1	31	85	5	87	46	3	6	43	1.43
3075706--3076080	36	10.4	36	75	14	244	44	6	3	44	1.47
3075816--3076027	74	2.8	74	83	6	248	42	6	3	47	1.47
3075814--3076075	74	3.5	73	80	7	226	43	7	3	45	1.49
3079687--3079731	23	2.0	23	86	0	63	17	26	26	28	1.98
3082105--3082152	19	2.5	19	100	0	96	27	22	29	20	1.99
3083445--3083569	31	4.1	31	76	13	132	29	19	20	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3095261--3095307	23	2.0	23	83	0	58	4	31	6	57	1.43
3102514--3102540	10	2.7	10	100	0	54	51	0	33	14	1.43
3103281--3103428	72	2.0	75	83	7	187	43	6	4	45	1.49
3110785--3110905	62	2.0	60	87	6	172	37	21	0	40	1.59
3111034--3111618	136	4.3	136	92	4	913	32	24	21	22	1.98
3114468--3114517	25	2.0	25	84	11	66	32	8	8	52	1.60
3114573--3114635	22	3.1	20	79	6	65	49	0	0	50	1.00
3119772--3120225	80	5.7	80	91	1	680	32	25	20	21	1.98
3119772--3120225	239	1.9	239	89	1	714	32	25	20	21	1.98
3124887--3125341	80	5.7	80	91	2	684	31	25	20	22	1.98
3138954--3139015	21	2.8	23	90	4	92	24	32	20	22	1.98
3139408--3139436	14	2.1	14	100	0	58	62	0	0	37	0.96
3139480--3139520	13	3.1	13	92	3	64	36	14	7	41	1.74
3143830--3143918	46	1.9	46	90	0	142	50	3	4	41	1.39
3143849--3143913	23	2.9	22	68	22	53	52	1	4	41	1.31
3146081--3146126	24	2.0	23	87	8	67	50	0	21	28	1.49
3146077--3146120	24	1.9	24	90	9	74	52	0	25	22	1.48
3146284--3146317	13	2.6	13	85	0	50	67	20	2	8	1.31
3147134--3147170	19	1.9	19	94	0	65	37	0	13	48	1.43
3147773--3147857	34	2.5	34	96	0	152	42	0	0	57	0.98
3160556--3160647	43	2.2	43	80	3	107	28	16	17	38	1.91
3171481--3171539	26	2.2	27	85	8	77	49	0	13	37	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3171821--3171859	2	20.0	2	94	5	71	51	0	0	48	1.00
3172411--3172451	20	2.0	20	100	0	82	41	14	9	34	1.79
3179293--3179364	25	2.9	25	93	2	119	26	15	19	38	1.91
3179480--3179536	3	18.3	3	86	13	80	68	0	0	31	0.90
3179472--3179536	28	2.3	28	89	10	98	67	1	0	30	1.00
3179472--3179536	25	2.6	25	86	13	82	67	1	0	30	1.00
3179831--3180196	40	8.4	42	67	19	150	23	18	32	26	1.97
3179731--3180177	134	3.3	134	93	0	736	25	17	30	25	1.97
3180547--3180642	36	2.7	36	79	10	108	40	12	16	30	1.86
3181008--3181133	63	2.0	63	90	1	200	43	11	13	31	1.79
3181032--3181254	120	1.9	118	81	7	272	42	12	14	30	1.83
3181693--3181795	36	2.9	36	81	4	122	34	11	20	33	1.89
3182124--3182156	3	10.7	3	93	6	57	30	0	0	69	0.88
3182473--3182514	14	2.9	14	92	3	66	26	2	21	50	1.61
3182745--3182881	66	2.1	66	98	0	265	30	10	10	47	1.73
3183758--3183956	13	14.5	13	70	23	92	1	19	8	71	1.17
3183747--3183902	35	4.4	33	67	25	79	1	18	8	71	1.19
3183774--3183923	35	4.2	35	69	22	98	1	18	9	71	1.20
3183767--3183874	44	2.5	45	80	10	118	0	19	8	71	1.17
3183819--3183957	44	3.0	46	78	14	133	1	17	8	71	1.18
3183860--3183956	28	3.4	28	79	18	103	1	16	8	74	1.11
3183761--3183964	107	1.9	106	90	3	329	0	18	9	71	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3183856--3183977	59	2.1	58	83	11	160	0	18	9	72	1.16
3183925--3183972	13	3.5	13	83	10	51	0	14	10	75	1.06
3186946--3187008	32	2.0	32	93	6	110	61	9	14	14	1.55
3190942--3191013	25	2.9	25	93	2	119	26	15	19	38	1.91
3191131--3191187	3	18.3	3	86	13	80	68	0	0	31	0.90
3191131--3191187	19	3.1	19	87	12	91	68	0	0	31	0.90
3191131--3191187	28	2.0	28	93	6	98	68	0	0	31	0.90
3194500--3194526	11	2.5	11	100	0	54	92	0	7	0	0.38
3204710--3204761	26	2.0	26	92	0	86	36	21	1	40	1.64
3211603--3211773	66	2.6	64	90	4	252	23	27	28	21	1.99
3211602--3211779	88	2.0	87	95	1	320	24	26	28	20	1.99
3211603--3211773	22	7.8	21	85	7	216	23	27	28	21	1.99
3217886--3217957	31	2.3	31	90	4	110	26	13	25	34	1.93
3218104--3218132	15	1.9	15	100	0	58	62	6	0	31	1.22
3221004--3221076	16	4.7	16	88	6	105	57	19	12	10	1.64
3220996--3221121	16	8.6	16	76	16	103	57	15	11	14	1.64
3221036--3221126	41	2.2	41	96	2	164	57	14	12	16	1.66
3222505--3222645	55	2.6	55	94	2	239	22	16	11	49	1.77
3234303--3234353	14	3.7	14	72	12	52	41	0	17	41	1.50
3234288--3234350	28	2.2	28	100	0	126	46	0	19	34	1.50
3234775--3234811	16	2.4	16	90	4	58	62	0	2	35	1.10
3236777--3237343	124	4.6	123	85	3	676	26	19	15	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3236800--3237339	246	2.2	247	84	3	703	26	20	15	37	1.92
3237343--3238061	353	2.0	353	91	1	1172	29	20	17	32	1.95
3237346--3238061	176	4.1	177	91	0	1121	29	20	17	32	1.95
3238420--3238528	54	2.0	54	90	0	173	25	24	11	38	1.88
3238993--3239194	52	3.9	52	84	1	246	23	23	16	36	1.94
3240678--3240767	19	4.8	19	82	15	100	0	20	0	80	0.72
3240695--3240766	9	7.8	9	78	9	65	0	20	0	79	0.74
3240694--3240769	27	2.8	27	95	0	134	0	22	0	77	0.77
3244470--3244511	14	2.8	15	82	7	50	73	4	9	11	1.22
3244476--3244509	16	2.1	17	94	5	61	79	5	5	8	1.05
3248692--3248726	3	12.0	3	93	6	63	68	0	0	31	0.90
3249521--3249583	27	2.3	27	81	5	65	20	23	14	41	1.89
3256784--3257470	343	2.0	343	99	0	1349	37	14	14	33	1.87
3260505--3260570	3	22.0	3	83	6	80	60	0	3	36	1.12
3260949--3261038	37	2.5	37	90	5	139	18	21	11	48	1.78
3261092--3261348	38	6.6	38	69	14	148	28	19	11	40	1.86
3260932--3261459	154	3.5	153	91	3	817	29	19	12	39	1.88
3261289--3261707	113	3.7	113	91	1	637	27	19	14	38	1.90
3262556--3263031	83	5.6	83	87	7	663	38	22	12	26	1.90
3262504--3263031	175	3.1	174	89	6	815	36	21	12	28	1.90
3262556--3263031	258	1.9	248	89	6	731	38	22	12	26	1.90
3264178--3264219	6	6.8	6	84	15	59	0	16	0	83	0.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3264171--3264216	13	3.4	14	88	11	69	0	17	0	82	0.67
3276995--3277069	3	25.0	3	84	0	96	58	1	4	36	1.25
3283365--3283444	29	2.8	29	96	0	151	35	16	16	32	1.91
3292414--3292444	13	2.4	13	94	0	53	35	22	19	22	1.96
3308292--3308319	2	14.0	2	100	0	56	50	0	0	50	1.00
3308805--3308832	14	2.0	14	100	0	56	50	7	0	42	1.30
3309457--3309504	3	15.7	3	95	4	87	35	0	0	64	0.94
3309617--3309736	34	3.3	36	76	16	133	21	16	23	38	1.93
3314306--3314371	33	2.0	34	90	3	107	25	15	22	36	1.93
3318243--3318275	17	1.9	17	100	0	66	36	24	12	27	1.91

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23