genome.fa.s8013.2.7.7.80.10.50.1000.1.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: VEPZ01008013.1 Hibiscus syriacus cultivar Beakdansim tig00110478_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1461402

Tables:   1   2   3   4   5   6   

This is table  1  of  6  ( 699 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)
8245--8305	7	8.7	7	94	0	86	24	27	19	27	1.99
27249--27304	20	2.9	19	75	19	62	66	1	8	23	1.30
27401--27537	24	5.7	24	71	20	83	66	0	2	29	1.11
27386--27520	22	6.4	21	71	19	79	65	0	2	30	1.12
27391--27484	24	3.7	25	76	21	72	65	1	3	29	1.14
27418--27517	3	33.7	3	73	16	68	66	1	2	31	1.10
27619--27644	13	2.0	13	100	0	52	69	0	7	23	1.14
27746--27795	15	3.1	16	73	18	50	68	4	0	28	1.08
28186--28287	37	2.8	37	84	0	123	32	12	14	40	1.84
29039--30207	106	11.0	106	91	1	1790	22	18	25	34	1.96
31173--31228	22	2.5	22	97	0	103	26	12	25	35	1.91
31821--31867	23	2.2	20	85	11	58	2	10	8	78	1.04
31834--31896	16	4.1	14	82	17	65	1	11	7	79	1.00
31830--31877	19	2.3	20	86	10	62	2	10	6	81	0.95
31845--31893	19	2.6	19	83	3	55	0	12	6	81	0.86
35351--35396	20	2.3	20	96	0	83	0	39	32	28	1.57
36211--36266	20	2.9	19	75	19	62	66	1	8	23	1.30
36318--36378	26	2.4	25	79	15	63	70	1	6	21	1.19
36366--36490	16	7.9	16	71	19	59	61	0	4	34	1.15
36393--36419	2	13.5	2	100	0	54	51	0	0	48	1.00
36352--36405	22	2.5	22	80	14	58	64	0	3	31	1.11
36430--36476	24	1.9	23	83	12	58	63	0	2	34	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
36615--36663	11	4.5	11	76	23	59	65	0	0	34	0.93
36615--36666	24	2.2	24	86	6	70	65	0	0	34	0.93
36686--36732	23	2.0	23	84	8	60	68	2	0	29	1.02
37150--37238	37	2.4	37	82	0	106	39	6	8	44	1.62
37417--37481	3	21.7	3	100	0	130	33	0	0	66	0.92
37521--37553	13	2.4	14	90	5	50	42	0	6	51	1.26
42448--42485	19	2.0	20	89	5	60	42	18	0	39	1.50
49655--49686	12	2.7	12	90	0	55	53	0	40	6	1.26
50535--50607	23	3.2	23	80	0	74	39	17	4	38	1.69
50966--51017	23	2.3	22	90	6	77	44	19	1	34	1.62
50976--51038	23	2.7	23	90	0	90	39	19	4	36	1.72
50344--52098	432	4.1	431	96	1	3186	39	12	7	40	1.71
51412--51469	22	2.6	23	83	5	73	41	17	5	36	1.72
51398--51469	23	3.2	23	80	4	83	41	20	4	33	1.72
51838--51896	23	2.6	23	88	0	82	40	16	5	37	1.71
52317--52403	39	2.2	39	95	0	156	17	13	20	48	1.81
52662--52698	18	2.1	18	89	0	56	51	10	5	32	1.60
53085--53133	25	2.0	25	91	0	80	44	20	6	28	1.75
53407--53479	23	3.2	23	80	0	83	42	19	4	34	1.70
53821--53886	25	2.6	25	80	0	87	42	13	9	34	1.76
56352--56844	183	2.7	183	97	0	916	33	17	15	34	1.91
58286--58365	9	8.6	9	72	8	61	22	33	6	37	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
58289--58377	12	7.4	12	87	0	97	21	33	7	37	1.82
58285--58365	6	13.5	6	82	0	81	23	33	6	37	1.80
58301--58377	36	2.1	36	92	0	127	20	33	9	36	1.85
58289--58380	6	15.3	6	81	0	76	20	33	7	38	1.81
60600--60774	86	2.0	86	100	0	350	30	14	14	39	1.87
60686--62025	199	6.7	199	94	0	2306	30	17	14	37	1.89
62144--62192	19	2.6	19	93	0	80	57	10	2	30	1.43
63987--64052	33	2.0	33	90	0	105	22	48	0	28	1.51
64086--64129	21	2.1	21	91	0	70	15	31	11	40	1.83
66346--66388	20	2.3	18	85	14	61	20	16	11	51	1.75
66351--66397	20	2.4	19	82	10	67	19	17	10	53	1.72
66532--66578	20	2.3	20	86	10	69	19	17	8	55	1.67
67356--67380	11	2.3	11	100	0	50	36	24	8	32	1.84
77740--77773	15	2.4	14	90	5	50	47	0	0	52	1.00
90534--90587	27	2.0	27	88	0	81	24	42	18	14	1.88
93535--93800	137	1.9	137	83	3	338	33	21	25	19	1.97
93999--94053	29	1.9	28	85	10	76	23	18	9	49	1.76
96160--96371	75	2.8	75	83	4	214	28	16	14	41	1.87
96202--96332	36	3.6	36	67	13	88	26	16	15	41	1.87
96211--96371	76	2.1	76	91	3	263	29	16	13	40	1.86
96376--96492	39	3.0	40	85	1	146	27	17	17	37	1.92
96430--96557	66	1.9	68	87	6	188	25	21	17	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
96390--96736	36	9.7	36	80	8	309	24	20	16	38	1.92
96514--96683	21	9.2	20	64	27	74	22	21	17	38	1.93
96703--96874	66	2.6	67	80	9	210	27	19	15	37	1.91
97277--97650	91	4.1	91	87	4	520	36	17	20	25	1.94
100661--100735	21	3.4	22	74	18	59	76	5	2	16	1.09
101030--101068	2	19.5	2	100	0	78	51	0	0	48	1.00
101029--101088	14	4.1	14	83	8	57	55	0	3	41	1.16
101278--101325	11	4.3	11	86	5	60	66	4	6	22	1.32
101335--101382	23	2.1	23	88	11	73	68	2	0	29	1.01
101399--101443	12	3.7	12	81	3	54	66	0	4	28	1.11
101400--101447	24	2.0	24	91	0	78	66	0	4	29	1.10
101999--102104	37	2.9	37	88	0	158	29	13	15	42	1.84
110574--110616	15	2.9	15	96	0	77	27	9	32	30	1.88
118524--118635	32	3.4	32	79	12	136	39	36	9	14	1.79
136322--136356	2	17.5	2	100	0	70	51	0	0	48	1.00
136625--137198	265	2.2	265	100	0	1148	34	17	13	33	1.89
139717--139755	17	2.4	17	91	4	62	33	0	7	58	1.26
141043--141079	14	2.7	14	95	4	67	35	5	13	45	1.66
141114--141165	26	2.0	26	100	0	104	38	15	3	42	1.65
143375--143458	21	3.9	21	72	14	64	14	25	36	23	1.92
147262--147301	21	1.9	21	85	10	55	35	10	2	52	1.48
155510--155586	36	2.2	34	84	9	93	42	1	1	54	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
155551--155583	15	2.1	16	88	5	50	42	0	0	57	0.98
155704--155741	17	2.2	17	86	9	51	42	2	0	55	1.14
161687--161855	20	8.3	20	75	8	117	27	24	18	29	1.98
161694--161804	43	2.7	40	79	6	114	27	21	18	32	1.96
161745--161856	20	5.6	20	86	4	118	30	23	19	26	1.98
162672--162718	24	2.0	24	91	0	76	29	21	14	34	1.93
165073--165342	140	1.9	140	95	0	486	29	13	14	42	1.83
165313--165481	20	8.8	20	77	10	163	33	20	18	27	1.96
165393--165517	34	3.5	34	74	16	108	36	18	20	25	1.95
165341--165523	74	2.5	74	79	7	203	34	20	19	25	1.96
165522--165579	20	2.9	20	81	0	62	12	15	25	46	1.80
167065--167130	21	3.1	21	76	12	73	25	22	33	18	1.97
168198--168272	21	3.8	20	70	16	57	13	13	42	30	1.82
169606--169646	20	2.0	20	95	0	73	58	19	12	9	1.61
170076--170128	22	2.4	23	81	9	74	16	15	43	24	1.87
170292--170405	20	5.7	20	85	0	138	25	21	25	27	2.00
170292--170404	40	2.8	40	86	0	163	25	22	25	26	2.00
170294--170429	20	6.8	20	80	6	107	24	22	24	29	1.99
171062--171174	60	1.9	60	87	3	165	38	10	14	37	1.80
180789--180868	38	2.1	38	97	0	151	35	28	12	23	1.91
181143--181279	63	2.2	64	90	1	213	27	16	16	40	1.89
181529--181869	183	1.9	183	87	8	509	32	12	14	41	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
182749--182799	21	2.4	21	96	0	93	47	31	3	17	1.66
182906--182977	27	2.6	28	80	4	83	48	26	0	25	1.51
182934--183024	14	6.6	14	75	1	58	40	30	5	23	1.77
184366--184459	11	8.4	11	71	4	62	32	10	21	35	1.88
184409--184477	23	3.0	23	87	2	86	36	8	20	34	1.83
187840--187881	10	4.3	10	90	6	68	35	0	0	64	0.94
188088--188280	4	48.2	4	69	20	52	30	3	2	64	1.20
188100--188294	22	9.2	20	68	22	89	30	3	2	64	1.20
188076--188211	29	4.8	28	74	20	122	28	2	3	65	1.21
189250--189293	20	2.2	20	91	0	70	34	34	29	2	1.70

Tables:   1   2   3   4   5   6