genome.fa.s8531.2.7.7.80.10.50.1000.16.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: VEPZ01008531.1 Hibiscus syriacus cultivar Beakdansim tig00111409_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3817888

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

This is table  16  of  19  ( 2279 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)
3011199--3011267	21	3.5	21	70	22	67	21	26	27	24	1.99
3011180--3011275	38	2.5	38	93	0	165	22	28	23	25	2.00
3012471--3012495	12	2.1	12	100	0	50	40	16	0	44	1.47
3012592--3012681	45	2.0	45	100	0	180	40	17	6	35	1.76
3019077--3019175	43	2.3	43	85	7	128	29	18	24	28	1.98
3019093--3019193	43	2.4	42	86	8	141	34	17	20	26	1.95
3019077--3019303	43	5.2	43	74	11	124	29	16	21	32	1.95
3019269--3019369	48	2.2	46	78	7	107	30	17	25	25	1.97
3031567--3031648	23	3.8	22	82	7	87	23	34	25	17	1.96
3031567--3031627	23	2.7	22	92	2	95	22	32	26	18	1.97
3037282--3037319	2	19.0	2	100	0	76	50	0	0	50	1.00
3038140--3038242	42	2.5	42	91	1	163	29	19	20	31	1.97
3040712--3040753	21	2.0	21	100	0	84	38	23	4	33	1.76
3042485--3042509	2	12.5	2	100	0	50	52	0	0	48	1.00
3048082--3048132	22	2.3	22	93	0	84	54	1	5	37	1.36
3048097--3048144	22	2.2	22	84	0	60	56	0	4	39	1.19
3052508--3052565	15	3.7	15	75	18	55	29	0	3	67	1.07
3058771--3058884	38	3.0	38	83	5	149	31	17	19	31	1.95
3058918--3059030	42	2.7	41	79	6	120	27	21	21	30	1.98
3058528--3059178	343	1.9	343	90	0	1032	28	18	19	32	1.96
3058809--3059494	305	2.2	304	87	3	993	28	20	18	32	1.96
3059418--3059508	39	2.4	38	79	5	103	32	18	14	34	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3059524--3059670	59	2.5	59	74	10	156	29	27	16	25	1.97
3061463--3061520	15	3.7	15	75	18	55	29	0	3	67	1.07
3064755--3064797	11	3.7	11	81	9	50	74	0	2	23	0.93
3067082--3067119	16	2.4	16	91	4	60	44	0	0	55	0.99
3069427--3069525	41	2.4	41	80	8	103	28	16	3	52	1.58
3069413--3069760	42	8.0	42	72	13	140	25	18	5	50	1.68
3069490--3069760	86	3.1	85	77	10	255	24	20	5	49	1.71
3071347--3071374	11	2.5	11	100	0	56	42	42	0	14	1.45
3072223--3072267	19	2.4	19	100	0	90	40	33	13	13	1.83
3072665--3072854	74	2.6	74	87	2	265	22	21	28	28	1.99
3074981--3075015	13	2.7	13	91	8	54	42	2	14	40	1.60
3075498--3075551	23	2.5	22	82	8	65	33	14	29	22	1.94
3079857--3079899	21	2.0	21	86	8	61	0	30	6	62	1.21
3088879--3088922	21	2.1	21	100	0	88	13	34	9	43	1.76
3091295--3091352	22	2.6	22	100	0	116	25	24	27	22	2.00
3091412--3091565	65	2.4	65	86	7	199	30	18	22	28	1.97
3092006--3092040	16	2.1	17	89	5	54	48	0	0	51	1.00
3103441--3103513	24	3.0	24	72	4	67	36	4	2	56	1.33
3104606--3104768	87	1.9	86	82	5	202	18	20	30	30	1.96
3104746--3104792	24	2.0	24	91	0	76	19	31	23	25	1.98
3104857--3104903	24	2.0	24	91	0	76	19	31	23	25	1.98
3104968--3105014	24	2.0	24	91	0	76	19	31	23	25	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3104631--3105101	111	4.2	111	98	0	888	18	20	32	29	1.96
3108035--3108129	29	3.2	29	70	11	84	40	3	23	33	1.70
3108004--3108104	31	3.3	31	71	10	100	38	4	25	30	1.77
3107980--3108145	60	2.8	60	87	3	237	40	5	23	30	1.77
3117514--3117693	90	2.0	90	89	2	272	43	6	7	42	1.60
3119242--3119281	16	2.5	16	100	0	80	57	25	10	7	1.57
3120380--3120410	14	2.2	14	94	0	53	54	22	12	9	1.67
3120374--3120434	24	2.5	25	84	10	74	52	21	13	13	1.73
3120422--3120512	40	2.2	41	77	13	98	37	14	10	37	1.81
3126615--3126669	23	2.4	23	100	0	110	21	30	0	47	1.51
3127197--3127236	19	2.1	19	86	9	55	7	2	25	65	1.32
3136664--3136859	31	6.2	31	89	5	272	36	21	16	25	1.94
3136664--3136859	32	6.2	31	89	6	265	36	21	16	25	1.94
3137415--3137520	45	2.4	45	78	9	119	33	19	5	40	1.75
3140679--3140708	14	2.1	14	93	0	51	66	0	0	33	0.92
3141382--3141433	2	25.5	2	92	3	86	46	0	3	50	1.20
3147664--3147750	45	2.0	45	88	2	131	34	8	13	43	1.74
3149468--3149531	23	2.8	24	76	7	69	18	23	23	34	1.96
3155906--3155943	3	12.7	3	94	0	67	2	34	0	63	1.09
3161876--3161929	24	2.3	24	80	3	74	24	14	25	35	1.94
3164526--3164566	21	2.0	21	85	0	55	73	4	0	21	1.02
3165620--3165653	16	2.1	16	89	10	52	73	0	0	26	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3165627--3165665	19	2.0	19	85	5	51	71	0	2	25	0.98
3167016--3167066	21	2.5	20	84	9	68	45	5	1	47	1.38
3167041--3167151	43	2.7	44	82	14	146	43	9	4	43	1.56
3167103--3167273	37	4.6	36	83	7	191	39	11	4	44	1.62
3167045--3167349	37	7.9	37	74	15	169	42	10	3	43	1.57
3167497--3167555	27	2.2	27	78	6	66	45	6	1	45	1.40
3167504--3167554	27	2.0	26	84	7	68	41	7	1	49	1.43
3171007--3171066	21	2.9	20	82	7	68	11	25	38	25	1.89
3187292--3187393	42	2.4	43	82	7	122	47	1	0	50	1.19
3189100--3189777	46	14.7	46	92	0	1059	41	14	22	21	1.90
3196479--3197043	26	24.5	25	64	22	165	41	15	23	20	1.90
3196550--3196629	20	3.7	20	71	20	54	37	17	26	18	1.93
3196471--3196721	46	5.5	46	87	0	369	40	15	23	20	1.91
3196471--3197076	92	6.4	92	78	10	518	41	15	22	20	1.90
3196596--3196826	112	2.1	112	89	0	345	39	16	23	20	1.91
3196505--3196786	66	4.2	66	72	15	254	40	15	23	20	1.90
3196697--3196786	20	4.2	20	77	15	99	37	14	27	20	1.91
3196550--3196869	158	2.0	158	89	0	487	40	16	22	20	1.91
3196708--3197054	185	1.9	185	89	0	541	40	14	23	21	1.90
3196708--3197076	46	8.0	46	88	0	513	41	15	22	20	1.89
3204290--3204345	26	2.2	26	83	6	69	25	23	44	7	1.78
3206842--3206885	18	2.4	18	78	14	54	36	6	0	56	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3207750--3207794	8	6.1	8	75	19	53	24	15	37	22	1.93
3207855--3207922	13	5.0	13	72	19	50	25	16	30	27	1.96
3207852--3207950	21	4.7	21	79	13	114	26	16	33	24	1.96
3207852--3207950	42	2.4	42	84	3	128	26	16	33	24	1.96
3208032--3208089	30	2.0	29	90	10	91	44	17	5	32	1.70
3208032--3208091	29	2.0	30	93	6	104	43	16	6	33	1.74
3210893--3210962	34	2.1	32	89	5	104	22	30	15	31	1.95
3211328--3211430	20	4.7	20	74	17	80	29	17	32	21	1.96
3211328--3211392	28	2.3	28	94	0	121	24	16	35	23	1.95
3211364--3211430	20	3.3	21	91	4	102	31	17	31	19	1.95
3211453--3211548	21	4.6	21	79	13	108	25	15	33	26	1.95
3211630--3211687	30	2.0	29	90	10	91	44	17	5	32	1.70
3211630--3211689	29	2.0	30	93	6	104	43	16	6	33	1.74
3212815--3213376	54	10.4	54	85	2	673	37	19	16	27	1.93
3215663--3216544	54	16.4	54	83	3	1017	36	20	16	26	1.94
3215887--3215972	27	3.2	27	63	12	68	38	22	15	24	1.92
3215941--3216026	27	3.2	27	63	28	65	38	20	13	26	1.91
3217148--3217196	2	24.5	2	100	0	98	51	0	0	48	1.00
3217571--3218134	133	4.2	134	81	4	595	32	18	18	30	1.95
3218787--3219649	45	19.3	45	76	4	692	42	20	15	20	1.88
3222965--3223502	147	3.6	148	84	5	658	39	11	16	32	1.85
3222965--3223503	74	7.2	73	86	3	643	38	11	16	32	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3223076--3223836	333	2.3	336	85	4	970	38	11	16	33	1.85
3223483--3223945	74	6.3	73	85	6	555	38	11	16	33	1.84
3222988--3223503	221	2.3	221	85	3	579	39	12	16	32	1.85
3223032--3223942	295	3.1	286	78	9	791	38	11	16	32	1.85
3223076--3223903	407	2.0	406	87	3	1200	38	11	16	33	1.85
3223482--3223945	221	2.1	221	84	6	609	38	11	16	34	1.84
3227777--3227815	20	2.0	20	95	5	71	46	17	10	25	1.80
3244500--3244609	44	2.5	44	82	5	141	30	19	13	36	1.90
3251705--3251762	2	29.5	2	96	3	109	50	0	0	50	1.00
3258216--3258254	20	2.0	20	89	0	60	33	10	23	33	1.88

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