genome.fa.s8603.2.7.7.80.10.50.1000.1.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: VEPZ01008603.1 Hibiscus syriacus cultivar Beakdansim tig00111558_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  555603

Tables:   1   2   3   

This is table  1  of  3  ( 287 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)
3253--3286	12	2.6	13	86	13	52	41	41	2	14	1.61
7637--7784	68	2.2	68	98	0	287	32	13	16	37	1.88
11127--11159	17	2.0	17	88	5	50	39	15	6	39	1.72
14777--14809	17	1.9	17	93	0	57	12	21	6	60	1.53
29284--29359	24	3.2	24	79	7	93	42	22	14	21	1.89
29297--29408	46	2.3	47	81	6	127	47	18	11	22	1.81
29800--29844	16	2.8	16	100	0	90	44	6	4	44	1.50
29816--30064	119	2.1	121	97	1	475	46	9	3	40	1.53
32176--32304	48	2.8	48	89	3	192	32	11	18	37	1.87
32171--32322	45	3.2	47	75	15	143	30	11	18	40	1.85
38547--38576	2	15.0	2	100	0	60	50	0	0	50	1.00
42081--42119	8	4.8	8	87	6	51	74	0	20	5	1.01
42116--42191	7	10.9	7	92	5	118	75	0	25	0	0.81
42065--42195	7	17.7	7	83	10	111	74	0	22	3	0.95
43571--43840	55	5.0	55	84	5	327	27	15	25	30	1.96
47195--47248	14	3.9	15	72	18	55	24	31	18	25	1.97
48068--48093	4	6.5	4	100	0	52	0	0	23	76	0.78
55071--55141	19	3.5	19	76	16	54	0	21	9	69	1.17
55104--55139	17	2.1	17	94	0	63	0	25	8	66	1.19
55091--55149	23	2.7	22	70	17	59	1	20	11	66	1.33
55592--55657	3	22.0	3	87	6	98	63	0	1	34	1.04
55970--56526	113	5.0	112	92	2	829	27	19	15	37	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57253--57507	105	2.4	105	98	1	485	35	21	12	30	1.91
57425--57685	83	3.1	83	95	2	479	36	21	13	29	1.91
58454--58508	16	3.2	16	76	7	56	52	5	9	32	1.56
58829--58889	1	61.0	1	73	0	50	0	13	0	86	0.56
58828--58892	11	6.3	10	81	10	60	0	15	0	84	0.62
58832--58891	13	4.5	13	76	13	59	0	15	0	85	0.61
58828--58892	21	3.2	20	82	12	87	0	15	0	84	0.62
58832--58887	28	2.0	29	89	3	87	0	14	0	85	0.59
58845--58892	15	3.0	17	79	17	66	0	12	0	87	0.54
58845--58889	18	2.6	18	89	6	67	0	11	0	88	0.50
58830--58892	31	2.1	30	88	8	92	0	14	0	85	0.59
69473--69552	37	2.3	34	79	10	88	65	3	5	26	1.30
70001--70064	20	3.2	20	67	20	53	50	4	0	45	1.22
71168--71206	20	1.9	20	89	5	60	2	17	7	71	1.21
71697--71743	3	15.7	3	100	0	94	65	0	0	34	0.93
79047--79102	26	2.2	26	100	0	112	21	12	32	33	1.91
84807--84836	14	2.1	14	93	6	51	26	6	26	40	1.81
84879--84905	4	6.8	4	100	0	54	25	0	0	74	0.83
94016--94063	23	2.1	23	88	0	69	35	12	18	33	1.89
94441--94492	23	2.3	22	90	6	77	44	19	1	34	1.62
94451--94513	23	2.7	23	90	0	90	38	19	6	36	1.77
94800--94865	25	2.6	25	80	0	87	42	13	9	34	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
96226--96606	184	2.1	183	96	0	699	33	16	14	35	1.89
98287--98347	32	1.9	32	89	0	95	22	47	0	29	1.52
98380--98444	21	3.1	21	80	6	69	15	29	15	40	1.88
100661--100703	20	2.3	18	82	17	61	18	16	11	53	1.72
100666--100712	20	2.3	20	89	10	78	17	17	10	55	1.69
100834--100879	20	2.3	20	89	10	76	17	17	10	54	1.70
102788--102839	21	2.5	21	81	3	61	38	19	25	17	1.93
102828--102961	20	6.7	20	84	5	144	32	25	17	24	1.97
103577--103642	33	2.0	34	90	3	107	10	25	22	40	1.86
103536--103667	19	7.1	19	80	11	148	12	22	19	45	1.83
105349--105526	89	2.0	89	86	8	254	23	12	19	45	1.83
105796--105862	21	3.2	21	64	6	55	25	35	19	19	1.95
105774--105862	42	2.1	42	83	8	110	24	35	19	20	1.95
107203--107238	14	2.6	14	95	0	63	30	0	25	44	1.54
107362--107416	14	3.6	14	73	21	56	45	21	23	9	1.80
107344--107433	33	2.7	33	92	0	153	43	20	22	14	1.87
107344--107404	19	3.5	19	74	21	69	44	21	22	11	1.84
107429--107579	19	8.7	19	62	21	62	15	21	20	43	1.88
107433--107559	33	3.8	33	86	8	186	14	21	19	44	1.87
107434--107558	66	1.9	66	96	0	232	15	20	20	44	1.87
109833--109857	12	2.1	12	100	0	50	0	28	0	72	0.86
111126--111180	17	2.9	20	81	15	80	40	23	20	16	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
111204--111257	14	3.5	14	77	22	63	11	20	20	48	1.80
111186--111256	33	2.2	33	84	0	88	19	19	21	39	1.93
111199--111276	33	2.4	33	91	0	120	12	23	21	42	1.87
111364--111400	14	2.6	14	86	0	56	48	21	0	29	1.50
113232--113315	19	4.3	20	81	1	73	41	23	20	14	1.89
113249--113315	19	3.5	19	85	2	89	38	23	22	14	1.92
113304--113361	14	3.9	14	79	16	71	48	25	17	8	1.75
113288--113366	32	2.4	33	95	2	142	46	24	18	10	1.80
113319--113376	18	3.5	17	77	18	59	46	27	17	8	1.77
113395--113451	14	3.8	14	78	17	69	8	15	26	49	1.74
113377--113467	32	2.8	33	93	3	157	10	17	23	48	1.79
113461--113506	20	2.3	20	92	0	74	15	19	26	39	1.91
113994--114038	18	2.5	18	88	0	72	13	15	44	26	1.83
115367--115415	20	2.5	20	89	0	71	36	26	18	18	1.94
115678--115721	22	2.0	22	95	0	79	20	13	43	22	1.87
115909--116042	20	6.7	20	87	5	153	23	18	26	31	1.98
115929--116046	61	1.9	61	87	0	173	22	17	24	34	1.96
115889--116043	20	7.7	20	84	6	152	23	18	25	32	1.97
115929--116064	61	2.2	61	82	2	166	22	19	24	33	1.97
115889--116042	81	1.9	81	89	0	236	24	18	25	32	1.97
117056--117166	51	2.2	52	82	9	131	17	32	27	22	1.96
117395--117430	17	2.1	18	94	5	65	63	2	5	27	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
117477--117517	10	4.1	10	84	12	57	39	0	29	31	1.57
118735--118864	40	3.3	40	83	2	163	40	11	13	34	1.80
118735--118845	39	2.8	40	86	1	152	41	10	12	35	1.78
123736--123766	2	15.5	2	100	0	62	0	51	0	48	1.00
123858--123882	2	12.5	2	100	0	50	52	0	0	48	1.00
132778--132814	19	1.9	19	94	0	65	40	5	0	54	1.24
134457--134852	198	2.0	198	94	2	697	41	10	9	38	1.72
139660--139705	23	2.0	22	84	12	58	73	2	17	6	1.14
140549--140626	31	2.5	31	93	0	129	26	26	12	33	1.93
142580--142614	3	11.7	3	87	0	52	60	0	40	0	0.97
144310--144383	38	1.9	38	97	0	139	28	29	12	29	1.93
148933--148966	9	3.9	9	84	7	52	35	0	2	61	1.11
148933--148986	16	3.3	16	92	2	81	33	1	1	62	1.16
157597--157726	58	2.2	58	82	5	154	31	19	5	43	1.73
165532--165630	40	2.5	40	94	0	180	22	15	10	52	1.72
166840--166991	41	3.7	41	95	0	268	21	23	25	29	1.99
166869--166980	21	5.4	21	62	19	65	19	23	28	28	1.98
166849--166958	20	5.4	20	67	20	75	20	23	24	30	1.98
167535--167631	42	2.3	42	92	1	160	30	26	19	22	1.98
167564--167631	21	3.2	20	70	15	57	30	27	19	22	1.97
168924--168961	20	1.9	20	84	10	51	21	18	23	36	1.95
172400--172556	80	2.0	78	82	7	192	43	11	9	35	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
174053--174109	29	2.0	29	82	6	71	22	8	21	47	1.78
178953--178990	16	2.4	16	100	0	76	34	26	13	26	1.93
179402--179426	13	1.9	13	100	0	50	24	28	8	40	1.83
184743--184778	18	2.0	19	89	10	58	2	25	0	72	0.98
194269--194298	15	2.0	15	93	0	51	20	30	33	16	1.94
201016--201226	21	10.0	21	80	9	173	20	21	21	36	1.96
201031--201219	23	8.8	23	77	13	190	20	21	21	37	1.95
201043--201223	88	2.1	82	87	6	254	20	20	21	37	1.94
213191--213261	30	2.3	30	79	9	81	52	2	4	40	1.36
215794--215930	60	2.3	60	83	5	161	32	14	18	34	1.92

Tables:   1   2   3