genome.fa.s8301.2.7.7.80.10.50.1000.16.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: VEPZ01008301.1 Hibiscus syriacus cultivar Beakdansim tig00110987_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3376434

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

This is table  16  of  18  ( 2065 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)
3023849--3023924	14	5.3	14	73	16	57	38	1	2	57	1.21
3023857--3023924	29	2.3	29	89	0	100	39	1	2	55	1.24
3023965--3024043	37	2.2	36	84	11	99	50	1	2	45	1.23
3024096--3024177	24	3.6	23	72	24	75	42	2	1	53	1.21
3024187--3024266	22	3.5	21	75	14	61	52	5	1	41	1.31
3026596--3026625	12	2.5	12	94	0	51	66	6	3	23	1.30
3028696--3028753	21	2.8	21	73	5	55	22	12	27	37	1.89
3028739--3028872	23	5.9	23	87	6	175	23	26	26	23	2.00
3031080--3031312	119	2.0	116	82	2	277	25	20	15	39	1.91
3031206--3032436	163	7.6	163	80	2	1125	26	19	15	38	1.92
3031206--3032381	326	3.6	326	81	3	1267	26	20	15	37	1.92
3032725--3033055	103	3.2	103	88	0	448	38	11	19	31	1.87
3035170--3035217	19	2.6	18	83	16	62	6	16	0	77	0.97
3036588--3036612	9	2.8	9	100	0	50	60	8	12	20	1.57
3039227--3039326	24	4.3	23	82	6	114	28	24	20	28	1.99
3039227--3039326	47	2.2	47	80	10	118	28	24	20	28	1.99
3039886--3039927	22	1.9	22	95	0	75	28	26	19	26	1.98
3046137--3046188	20	2.7	20	84	3	70	32	11	26	28	1.91
3048729--3048881	39	4.0	39	87	2	202	30	19	15	35	1.92
3048897--3048992	37	2.6	37	86	3	122	26	19	13	40	1.89
3048821--3049006	102	1.8	102	96	0	345	29	19	12	37	1.90
3050533--3050585	28	2.0	26	81	7	61	15	13	1	69	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3051432--3051476	20	2.2	20	96	0	81	31	0	22	46	1.52
3051896--3051945	25	2.0	25	92	0	82	22	18	22	38	1.94
3053379--3053466	23	3.8	23	84	1	104	30	25	17	27	1.97
3057276--3057327	2	26.0	2	100	0	104	50	0	0	50	1.00
3057352--3057440	44	2.0	45	82	4	110	59	4	17	17	1.54
3057426--3057461	14	2.6	13	87	12	54	63	0	11	25	1.27
3057758--3057819	24	2.6	22	76	23	56	56	0	16	27	1.40
3060375--3060414	17	2.4	17	95	0	71	27	27	5	40	1.77
3065164--3065217	26	2.1	26	89	0	81	22	14	25	37	1.93
3066678--3066745	26	2.5	28	77	18	72	17	2	16	63	1.43
3066737--3066800	23	2.7	23	75	2	65	23	14	14	48	1.79
3068897--3069348	225	2.0	224	92	0	742	37	11	10	40	1.77
3069724--3069794	3	24.3	3	77	11	76	33	1	1	63	1.12
3069726--3069796	26	2.8	25	85	8	81	32	1	1	64	1.11
3071399--3071555	64	2.5	63	81	7	172	33	19	23	23	1.97
3072642--3072682	21	2.0	21	86	9	59	48	0	17	34	1.47
3072729--3072762	2	17.0	2	100	0	68	50	0	0	50	1.00
3077162--3077454	63	4.6	64	90	1	464	35	21	13	29	1.92
3077162--3077454	127	2.3	127	89	1	462	35	21	13	29	1.92
3077478--3077940	121	3.8	121	86	3	592	36	25	14	23	1.93
3077478--3077939	245	1.9	243	84	4	626	36	25	14	23	1.92
3078109--3078194	3	29.0	3	72	11	70	33	1	3	61	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3083002--3083295	64	4.6	64	90	0	453	35	22	13	28	1.92
3084903--3084974	22	3.3	22	86	3	101	25	26	20	27	1.99
3085768--3085816	25	2.0	23	81	14	55	32	2	18	46	1.60
3091791--3091862	22	3.3	22	86	3	101	25	26	20	27	1.99
3092545--3093049	121	4.2	121	90	1	744	36	28	13	21	1.92
3092720--3092933	66	3.4	65	69	18	209	37	26	13	22	1.91
3093002--3093075	32	2.3	32	97	0	139	36	33	8	21	1.83
3093262--3093325	3	21.3	3	75	12	60	34	1	1	62	1.14
3096961--3096998	10	3.8	10	96	0	67	28	13	0	57	1.36
3102163--3102203	22	2.0	21	85	9	57	46	7	0	46	1.30
3103403--3103754	50	7.0	50	93	0	614	39	16	19	25	1.91
3103403--3103754	100	3.5	100	99	0	686	39	16	19	25	1.91
3107084--3107109	13	2.0	13	100	0	52	38	15	30	15	1.88
3108550--3108605	2	27.5	2	96	3	103	48	0	1	50	1.11
3121554--3121610	21	2.5	22	78	16	55	26	5	0	68	1.11
3121548--3121610	20	3.1	19	79	6	63	28	4	0	66	1.12
3121583--3121640	25	2.2	27	81	6	75	39	3	0	56	1.16
3121670--3121712	12	3.7	12	79	14	54	30	6	0	62	1.21
3121728--3121782	16	3.5	17	78	11	55	21	3	0	74	0.97
3121723--3121782	17	3.5	17	78	14	54	21	3	0	75	0.95
3121716--3121773	25	2.3	25	76	5	64	20	5	1	72	1.13
3121978--3122020	15	2.9	14	80	13	50	16	2	4	76	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3125656--3125727	32	2.2	32	82	2	81	69	4	5	20	1.26
3125692--3125743	22	2.4	22	80	3	61	76	3	5	13	1.10
3125933--3125977	2	22.5	2	100	0	90	51	0	0	48	1.00
3126045--3126090	23	2.0	24	83	12	60	67	4	8	19	1.35
3127225--3127334	36	3.1	36	76	7	118	40	15	19	24	1.90
3127235--3127323	34	2.5	35	83	3	108	44	17	17	19	1.86
3127348--3127406	30	2.0	30	83	12	77	32	11	16	38	1.86
3127368--3127729	102	3.6	102	85	4	419	39	13	18	28	1.89
3127638--3127793	64	2.4	65	83	3	199	40	12	19	27	1.87
3127423--3127941	268	1.9	269	94	1	907	38	13	18	29	1.89
3127758--3127830	37	2.0	37	88	0	110	38	15	20	26	1.92
3127519--3127889	166	2.2	167	85	2	480	38	13	18	29	1.89
3127685--3127889	101	2.0	103	92	1	342	38	13	18	30	1.88
3127695--3127944	102	2.5	101	84	2	304	38	13	19	28	1.89
3133088--3133121	11	3.0	11	86	4	50	70	0	2	26	1.01
3133287--3133353	23	3.0	22	75	20	59	67	4	5	22	1.31
3143684--3143725	21	1.9	21	85	9	57	23	7	0	69	1.13
3143709--3143763	20	2.8	20	83	8	69	38	3	0	58	1.16
3143714--3143763	19	2.6	20	84	6	68	40	4	0	56	1.18
3143876--3143912	17	2.1	18	85	14	51	18	5	0	75	0.99
3150173--3150252	24	3.3	24	96	1	142	48	2	3	45	1.33
3152029--3152279	111	2.3	111	92	0	439	45	11	7	35	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3152403--3152442	10	4.0	10	84	12	55	40	0	27	32	1.57
3152404--3152444	20	2.1	19	90	4	64	41	0	26	31	1.56
3152564--3152684	50	2.4	50	80	5	154	20	26	36	16	1.94
3153252--3153324	29	2.4	30	80	8	87	31	13	9	45	1.76
3156619--3156675	21	2.7	21	94	0	105	22	24	24	28	2.00
3161216--3161258	20	2.2	20	91	0	68	32	13	20	32	1.92
3166171--3166213	20	2.2	20	86	0	59	34	13	18	32	1.90
3171222--3171256	12	2.8	13	86	8	54	45	8	5	40	1.58
3171357--3171396	19	2.1	19	85	0	53	35	7	7	50	1.59
3173502--3173687	8	27.0	8	71	22	65	57	1	1	39	1.15
3173535--3173695	26	5.8	27	78	14	129	57	1	1	39	1.17
3173502--3173688	38	4.9	38	72	10	150	57	1	1	40	1.16
3173502--3173684	19	9.6	20	68	17	90	57	1	1	39	1.16
3173573--3173670	47	2.1	48	88	5	146	59	2	0	38	1.09
3173504--3173687	20	9.7	20	70	18	117	57	1	1	39	1.16
3173573--3173695	26	4.8	26	80	15	150	58	2	0	39	1.11
3173506--3173701	6	28.4	7	70	19	103	56	2	1	39	1.20
3173690--3173860	11	13.8	11	70	22	85	45	8	4	41	1.54
3173701--3173840	24	5.7	23	74	11	93	45	7	5	42	1.55
3174005--3174067	24	2.6	24	89	0	90	36	12	19	31	1.89
3174382--3174697	24	12.4	24	68	20	137	42	7	4	45	1.51
3174382--3174426	13	3.5	13	80	19	51	42	11	2	44	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3174411--3174462	18	2.9	18	77	8	61	46	7	1	44	1.43
3174399--3174520	40	3.1	40	87	8	128	43	5	4	45	1.49
3174430--3174521	40	2.3	40	92	1	150	42	4	5	47	1.46
3174444--3174556	51	2.2	52	81	7	133	41	6	5	46	1.51
3174574--3174629	25	2.2	26	83	6	69	41	5	3	50	1.43
3174382--3174670	154	1.9	153	82	8	363	41	7	4	46	1.52
3174669--3174711	22	2.0	22	81	9	52	48	9	0	41	1.35
3176526--3176584	2	29.0	2	89	3	91	45	0	3	50	1.18
3176837--3176924	31	2.8	31	81	3	97	26	19	19	35	1.95
3181697--3181783	30	2.8	31	81	11	108	25	19	18	36	1.94

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