genome.fa.s8702.2.7.7.80.10.50.1000.13.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: VEPZ01008702.1 Hibiscus syriacus cultivar Beakdansim tig00111741_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3201804

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

This is table  13  of  14  ( 1641 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)
2887914--2888251	37	9.4	36	78	12	274	42	4	7	46	1.52
2888084--2888152	27	2.5	28	86	11	99	40	2	7	49	1.45
2888085--2888164	27	3.0	27	83	10	85	43	2	7	46	1.45
2888048--2888189	66	2.2	65	87	7	202	42	3	7	46	1.48
2888123--2888293	38	4.5	37	80	8	168	42	2	7	47	1.45
2888123--2888293	77	2.3	75	82	12	199	42	2	7	47	1.45
2888299--2888345	16	2.9	16	84	6	51	19	4	0	76	0.95
2888302--2888353	26	2.0	26	88	7	79	19	5	0	75	1.01
2888841--2888871	12	2.6	12	94	0	53	64	29	0	6	1.18
2889425--2889473	19	2.5	19	81	12	55	24	4	6	65	1.33
2889420--2889496	26	3.0	25	72	12	68	22	3	3	70	1.20
2889467--2889554	17	5.1	18	68	22	55	19	5	1	73	1.09
2889471--2889516	17	2.7	18	83	6	60	21	6	0	71	1.08
2889577--2889651	2	39.0	2	89	7	120	46	0	1	52	1.09
2889698--2889740	19	2.3	18	88	4	59	16	2	2	79	0.95
2889794--2889868	23	3.1	24	75	17	66	25	8	0	66	1.18
2889859--2889910	15	3.5	15	76	7	54	17	5	1	75	1.10
2889851--2889913	30	2.2	28	78	13	67	19	7	1	71	1.19
2891965--2892023	30	2.0	30	83	6	75	33	18	10	37	1.85
2903099--2903139	15	2.9	14	86	13	57	34	2	0	63	1.08
2906819--2906861	14	2.8	15	82	10	52	18	48	20	11	1.79
2906834--2906872	17	2.3	17	90	0	60	20	43	20	15	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2913317--2913355	21	1.9	21	89	5	62	15	23	25	35	1.94
2913340--2913386	20	2.5	20	80	16	55	10	21	34	34	1.88
2913412--2913445	14	2.4	14	90	0	50	17	23	23	35	1.95
2915111--2915268	60	2.6	60	93	0	262	41	21	8	27	1.83
2918612--2918652	2	20.5	2	100	0	82	48	0	0	51	1.00
2919620--2919646	2	13.5	2	100	0	54	48	0	51	0	1.00
2926161--2926203	18	2.4	18	92	0	68	72	0	6	20	1.08
2926796--2927021	76	3.1	74	81	8	264	56	11	1	30	1.43
2928670--2928722	11	4.8	11	81	9	56	79	1	9	9	1.02
2928669--2928711	17	2.6	17	81	3	52	81	2	9	6	0.95
2928670--2928730	22	2.8	21	81	13	70	80	1	8	9	0.98
2934336--2934378	18	2.4	18	92	0	68	72	0	6	20	1.08
2935106--2935143	19	2.0	19	89	0	58	55	13	0	31	1.38
2934967--2935188	76	3.0	74	80	9	240	56	10	1	31	1.42
2943364--2943392	14	2.0	15	93	6	51	44	13	0	41	1.44
2944302--2944426	57	2.2	57	95	0	223	29	22	16	32	1.95
2944405--2944447	21	2.0	21	90	0	68	32	20	6	39	1.80
2946082--2946178	39	2.5	39	84	1	142	29	5	24	40	1.77
2975550--2975590	20	2.0	20	86	9	57	26	26	17	29	1.97
2977143--2977295	3	47.7	3	70	14	74	59	5	3	31	1.37
2977196--2977295	13	7.7	13	72	12	71	60	4	2	34	1.27
2977143--2977295	10	15.9	9	71	13	74	59	5	3	31	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
2977793--2977922	60	2.2	60	83	4	154	36	16	15	31	1.90
2978876--2978916	20	2.0	21	85	4	57	29	46	0	24	1.53
2979837--2979878	14	2.9	14	83	16	59	78	2	0	19	0.86
2979837--2979888	18	2.9	18	76	18	54	76	1	1	19	0.97
2979924--2979988	17	3.9	17	73	15	64	43	13	3	40	1.60
2979972--2980102	35	3.6	35	79	16	117	45	6	3	44	1.46
2979972--2980249	36	7.9	35	70	20	161	42	9	4	43	1.56
2980125--2980167	23	2.0	22	86	9	61	32	11	6	48	1.66
2980106--2980249	37	3.9	37	77	13	140	38	11	5	44	1.65
2981856--2981936	42	1.9	43	84	2	110	18	28	11	41	1.84
2987909--2987933	13	1.9	13	100	0	50	48	20	8	24	1.76
2990256--2990314	24	2.4	24	94	2	100	20	8	28	42	1.81
2995380--2995666	36	8.0	36	78	9	255	44	9	3	42	1.53
2995637--2995661	13	1.9	13	100	0	50	60	0	0	40	0.97
2998489--2998514	12	2.2	12	100	0	52	30	7	19	42	1.79
3001422--3001457	6	6.0	6	90	0	54	5	16	11	66	1.40
3001422--3001457	12	3.0	12	95	0	63	5	16	11	66	1.40
3005005--3005138	60	2.2	60	82	5	155	33	11	17	37	1.86
3007400--3007444	19	2.5	17	82	7	54	64	8	0	26	1.23
3007877--3008269	135	3.0	129	81	8	426	45	14	16	23	1.84
3009206--3009708	139	3.6	139	84	1	621	25	16	27	31	1.96
3009206--3009708	278	1.8	278	85	1	704	25	16	27	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3009910--3010088	30	5.5	30	68	18	117	40	13	17	27	1.88
3009865--3010304	67	6.6	67	85	2	544	38	14	17	29	1.90
3009970--3010142	30	5.3	30	70	18	123	41	13	16	28	1.86
3009901--3010272	200	1.9	200	86	2	541	38	13	17	30	1.88
3010133--3010259	37	3.6	37	68	20	101	38	15	18	27	1.91
3012393--3012481	43	2.0	44	89	2	135	31	24	15	28	1.96
3012599--3012661	25	2.6	24	80	14	67	57	3	6	33	1.40
3013560--3013599	16	2.7	15	85	11	55	0	20	5	75	0.99
3013546--3013599	14	3.7	15	79	13	51	3	18	3	74	1.12
3013581--3013640	16	3.6	17	76	14	54	1	8	6	83	0.88
3013581--3013642	23	2.8	22	82	4	79	1	8	6	83	0.86
3013595--3013638	15	2.9	15	83	12	54	2	2	9	86	0.75
3014456--3014510	24	2.3	24	96	0	101	36	23	14	25	1.93
3016495--3016541	21	2.1	23	88	7	71	48	2	0	48	1.13
3016490--3016547	22	2.8	20	79	10	62	51	1	1	44	1.21
3017406--3017439	16	2.2	15	89	5	50	55	5	14	23	1.61
3017441--3017471	16	1.9	16	93	0	53	64	6	6	22	1.40
3017856--3017880	13	1.9	13	100	0	50	48	40	0	12	1.40
3022362--3022414	2	26.5	2	96	0	97	49	0	0	50	1.00
3022566--3022632	25	2.7	25	100	0	134	37	19	4	38	1.72
3037162--3037192	14	2.2	14	94	0	53	32	16	19	32	1.94
3038071--3038149	31	2.5	29	82	15	88	34	8	17	39	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3039189--3039302	55	2.1	55	100	0	228	56	8	10	24	1.61
3039199--3039392	55	3.9	48	84	9	203	56	10	12	20	1.66
3044471--3044514	17	2.5	17	88	3	61	15	6	0	77	0.97
3044471--3044533	19	3.5	17	86	6	72	12	7	3	76	1.13
3045505--3045561	24	2.4	24	87	0	87	52	14	3	29	1.58
3047954--3047988	18	1.9	18	88	0	52	34	8	11	45	1.71
3053373--3053418	23	2.0	24	83	12	60	43	8	10	36	1.71
3055713--3055777	19	3.4	19	84	0	85	30	15	33	20	1.93
3060179--3060264	28	3.1	28	86	0	118	33	23	10	32	1.89
3070125--3070192	24	2.8	24	86	0	82	26	17	17	38	1.92
3070279--3070345	35	1.9	35	84	0	89	11	29	22	35	1.90
3070458--3070488	14	2.2	14	100	0	62	12	12	6	67	1.40
3074148--3074194	16	3.1	15	79	14	51	53	0	0	46	1.00
3075236--3075469	2	116.5	2	67	20	107	47	2	4	44	1.39
3075236--3075469	11	21.5	11	66	21	84	47	2	4	44	1.39
3075368--3075431	29	2.2	29	86	5	85	51	4	4	39	1.44
3075406--3075544	54	2.5	54	75	15	124	52	3	6	37	1.45
3075488--3075551	22	2.9	21	77	13	67	51	6	7	34	1.56
3075452--3075551	44	2.4	42	80	14	116	52	5	7	36	1.51
3077940--3078087	43	3.3	43	93	3	233	41	9	18	30	1.83
3078847--3078928	2	42.5	2	77	16	84	43	1	1	53	1.16
3078899--3079025	20	6.4	20	71	10	73	46	4	4	44	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3079031--3079059	9	3.3	9	90	9	51	55	0	10	34	1.34
3079031--3079080	15	3.3	15	78	18	50	56	2	8	34	1.40
3079048--3079193	22	6.9	19	71	17	67	54	3	8	33	1.49
3079095--3079187	14	6.5	15	70	19	65	54	2	10	32	1.47
3079315--3079381	8	8.0	9	78	15	56	40	7	0	52	1.30
3079280--3079381	35	2.9	33	77	18	93	38	8	0	52	1.33
3079252--3079787	43	11.3	47	67	21	160	37	9	1	50	1.46
3079475--3079504	2	15.0	2	100	0	60	50	0	0	50	1.00
3079461--3079661	22	9.3	21	73	17	96	37	8	1	51	1.45
3079396--3079528	32	4.2	31	70	16	78	36	9	3	50	1.51

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