genome.fa.s8017.2.7.7.80.10.50.1000.3.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: VEPZ01008017.1 Hibiscus syriacus cultivar Beakdansim tig00110483_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3132588

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

This is table  3  of  15  ( 1748 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)
490885--491014	66	2.0	66	93	0	224	44	19	20	16	1.87
491172--491208	14	2.6	14	91	0	65	45	24	0	29	1.53
492585--492695	21	5.3	21	67	8	55	22	21	32	23	1.98
492604--492737	42	3.2	42	81	0	178	21	17	38	22	1.94
492595--492770	84	2.1	84	96	0	325	23	16	37	22	1.93
492620--492767	42	3.5	42	81	0	188	23	15	38	22	1.92
492989--493173	91	2.0	90	90	6	291	47	18	11	21	1.81
494860--495014	19	8.8	19	69	22	106	43	20	23	11	1.85
494909--494997	14	5.6	14	71	23	70	41	23	24	10	1.85
494885--495014	33	3.9	33	96	1	215	42	22	24	10	1.85
495015--495059	19	2.4	19	92	0	72	8	15	26	48	1.74
495614--495666	20	2.7	20	93	0	88	26	20	28	24	1.99
495675--495728	20	2.7	20	97	0	99	25	18	24	31	1.97
495615--495731	61	1.9	61	85	0	162	23	17	24	33	1.97
495615--495749	61	2.2	61	81	2	155	22	20	24	32	1.98
495799--495839	21	2.0	21	85	0	55	34	31	17	17	1.93
497947--497989	16	2.5	17	92	7	70	62	4	32	0	1.15
498327--498529	101	2.0	101	98	0	388	29	16	17	37	1.91
501365--501429	22	2.9	22	78	14	71	58	3	4	33	1.34
506445--506490	3	15.3	3	100	0	92	67	0	0	32	0.91
509731--509799	18	3.8	18	90	0	93	26	21	11	40	1.87
510543--511129	54	10.8	54	78	9	482	40	20	10	28	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
510544--511129	108	5.4	107	79	7	556	40	20	10	28	1.85
510621--511130	273	1.9	273	82	2	639	40	20	10	28	1.85
511333--511727	196	2.0	196	97	0	754	26	18	14	39	1.90
512612--512678	28	2.4	28	89	0	98	17	5	32	43	1.74
514466--514502	12	3.2	12	85	14	51	0	13	0	86	0.57
514461--514498	9	4.0	9	90	10	58	0	13	0	86	0.56
514466--514507	21	2.0	21	86	9	59	2	14	0	83	0.75
523334--523368	10	3.4	10	92	7	61	88	0	11	0	0.51
523304--523414	46	2.3	46	82	10	118	71	4	16	8	1.27
524456--524511	28	2.0	29	86	10	80	17	8	3	69	1.29
528615--528664	20	2.5	20	93	0	82	40	14	16	30	1.87
528999--529041	17	2.5	18	81	11	54	62	4	0	32	1.15
542059--542156	38	2.8	36	75	11	98	46	2	4	46	1.33
542059--542146	38	2.3	38	82	5	99	44	2	3	50	1.31
542287--542326	20	2.1	19	90	4	62	25	20	5	50	1.68
542278--542323	20	2.6	17	81	18	58	28	19	4	47	1.68
542613--542677	34	1.9	34	84	6	87	26	1	12	60	1.41
543401--543657	53	5.5	51	63	30	160	45	8	5	41	1.56
543388--543876	90	5.5	90	99	0	923	46	9	4	40	1.56
544194--544232	17	2.4	17	95	4	71	51	5	0	43	1.24
554296--554343	18	2.7	18	76	0	51	29	18	14	37	1.91
554969--555005	2	18.5	2	100	0	74	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
555453--555529	29	2.7	29	87	0	109	42	19	15	22	1.88
555445--555543	29	3.4	29	80	6	103	44	17	19	19	1.87
555426--555543	58	2.0	58	82	6	141	43	16	17	22	1.88
556522--556562	21	1.9	21	85	14	57	56	4	9	29	1.53
556541--556576	13	2.7	14	83	16	58	55	5	8	30	1.52
556509--556575	34	2.0	33	88	8	100	53	5	10	29	1.59
556541--556581	13	3.2	13	86	10	57	53	9	7	29	1.60
557435--557964	263	2.0	264	98	1	1037	31	18	23	26	1.98
558182--558252	27	2.6	27	86	6	81	30	16	32	19	1.95
558201--558254	27	2.0	27	96	0	99	27	14	33	24	1.94
558630--558935	19	15.1	19	77	13	290	21	19	24	34	1.97
558649--558890	42	5.9	42	87	5	320	20	19	24	34	1.96
558630--558935	61	5.0	61	83	8	372	21	19	24	34	1.97
558649--558911	124	2.1	121	86	6	361	20	19	25	34	1.96
558622--558935	143	2.2	141	87	5	447	21	19	24	34	1.96
558640--558932	82	3.6	80	84	9	301	20	19	24	34	1.96
559796--559838	19	2.3	19	95	0	77	30	20	23	25	1.99
565484--565523	20	2.0	20	85	0	53	42	5	2	50	1.37
565833--565872	21	2.0	20	85	5	53	30	0	25	45	1.54
566283--566349	34	2.0	34	93	0	116	23	14	11	49	1.77
569450--569510	20	2.9	21	79	20	65	26	6	0	67	1.15
569651--569686	19	1.9	18	88	5	54	19	8	0	72	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
576642--576691	24	2.1	24	85	7	66	60	16	2	22	1.46
587956--588001	15	3.1	15	82	11	60	80	2	13	4	0.95
590947--590986	4	9.5	4	89	10	62	25	2	0	72	0.97
591230--591263	7	4.7	7	96	3	59	14	0	11	73	1.10
592460--592514	27	2.0	27	96	0	101	20	21	25	32	1.97
610233--610271	18	2.2	18	86	9	53	5	20	58	15	1.55
616389--616543	84	1.8	85	83	4	206	36	15	21	26	1.93
616507--616549	23	2.0	23	86	9	63	44	18	23	13	1.86
617546--617662	45	2.6	45	83	5	139	35	7	17	38	1.79
619494--619534	20	2.0	21	85	9	57	78	0	4	17	0.93
619747--619838	2	47.5	2	81	14	95	50	2	0	47	1.13
619971--620137	58	2.9	58	84	0	217	38	8	13	40	1.74
619971--620187	58	3.7	58	80	4	206	37	8	13	40	1.74
619971--620187	116	1.9	116	81	1	265	37	8	13	40	1.74
620107--620230	58	2.1	58	83	5	153	40	5	10	43	1.63
620351--620588	39	6.5	39	78	15	139	38	6	11	43	1.67
620168--620435	137	2.0	137	80	8	298	36	5	11	45	1.64
620445--620601	38	4.2	38	82	12	184	32	5	12	49	1.65
620465--620571	34	3.0	36	86	8	139	31	7	13	47	1.70
620468--620601	72	1.9	72	88	3	207	33	6	11	47	1.67
620622--620708	44	2.0	44	86	0	120	35	5	12	45	1.66
622714--622904	76	2.6	75	88	6	266	29	0	13	56	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
623493--623535	16	2.5	18	88	7	63	25	4	0	69	1.07
623575--623617	15	2.9	15	76	13	52	23	4	0	72	1.04
623584--623633	19	2.5	20	87	6	75	22	6	0	72	1.07
623601--623638	19	2.0	19	85	10	51	26	5	0	68	1.11
628282--628449	24	7.0	24	64	18	82	29	0	13	57	1.37
628301--628362	32	1.9	32	84	12	83	25	0	11	62	1.28
629059--629100	17	2.4	18	92	4	68	21	7	0	71	1.09
629166--629201	19	1.9	18	88	5	54	27	5	0	66	1.13
633191--633874	335	2.0	340	83	6	864	39	11	14	34	1.83
635511--635589	3	26.7	3	76	2	79	65	2	0	31	1.06
635843--636202	139	2.6	138	88	2	517	26	19	15	38	1.91
636310--636460	73	2.1	73	89	2	232	33	13	20	33	1.91
637184--637240	22	2.6	22	88	0	87	35	12	17	35	1.87
637610--637821	54	3.9	53	85	4	237	28	21	12	37	1.90
639381--639659	143	2.0	143	90	0	441	24	12	28	33	1.93
639364--639659	73	4.1	73	84	2	373	25	12	28	34	1.92
641054--641188	72	1.9	72	85	3	191	35	20	19	25	1.95
643742--643784	13	3.1	14	81	12	54	58	11	16	13	1.64
643742--643784	7	6.3	7	79	15	54	58	11	16	13	1.64
643742--643784	21	2.0	21	90	0	68	58	11	16	13	1.64
648098--648180	3	28.3	3	78	4	71	60	2	0	37	1.10
662051--662099	21	2.4	21	89	3	73	18	6	6	69	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
669045--669075	15	2.1	15	93	0	53	25	12	16	45	1.83
676355--676454	42	2.4	42	93	0	164	33	14	19	34	1.91
679461--679493	4	8.5	4	93	6	59	51	0	0	48	1.00
680681--680829	60	2.5	60	82	0	181	37	16	17	28	1.91
680708--680862	60	2.7	58	81	6	154	40	16	18	24	1.90
680784--680893	56	2.0	56	83	0	139	37	19	20	23	1.94
685771--685797	8	3.4	8	100	0	54	33	0	0	66	0.92
692425--692495	21	3.5	20	67	18	56	16	18	26	38	1.92
692418--692541	41	3.0	41	92	0	203	16	21	23	38	1.92
692446--692515	20	3.5	19	72	18	61	14	22	22	40	1.90

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