genome.fa.s4309.2.7.7.80.10.50.1000.2.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: VEPZ01004309.1 Hibiscus syriacus cultivar Beakdansim tig00009447_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  426183

Tables:   1   2   3   

This is table  2  of  3  ( 267 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)
238504--238581	28	3.0	27	85	9	108	48	0	0	51	1.00
238448--238581	21	6.1	22	73	19	102	48	1	0	49	1.15
241395--241440	24	2.0	24	91	4	76	36	15	4	43	1.66
241918--242096	100	1.8	98	86	2	259	48	11	11	29	1.73
241930--242096	51	3.3	51	75	8	171	47	11	11	29	1.75
243690--243810	28	4.2	28	74	14	77	38	6	0	53	1.33
243896--243970	30	2.5	31	88	4	116	53	0	5	41	1.24
243974--244013	18	2.2	18	90	0	62	42	2	12	42	1.56
244788--244853	29	2.3	29	100	0	132	45	15	6	33	1.70
246099--246144	23	2.0	23	83	8	58	52	2	0	45	1.13
247538--247571	13	2.8	12	82	8	50	17	23	0	58	1.38
257972--258041	32	2.2	31	84	2	95	18	30	27	24	1.98
259635--259668	14	2.5	13	90	4	50	23	0	14	61	1.33
268776--268809	13	2.6	13	90	0	50	5	14	2	76	1.09
274816--274879	20	2.8	23	77	15	71	18	6	0	75	1.01
275257--277167	390	4.9	390	83	3	2263	28	18	12	41	1.86
279088--279136	16	3.2	14	78	16	53	16	6	0	77	0.96
279647--279685	19	2.1	19	85	0	51	41	15	5	38	1.69
281382--281810	236	1.8	236	97	0	813	22	17	17	42	1.89
284531--284558	14	2.0	14	100	0	56	28	28	7	35	1.84
284537--284602	13	4.9	13	79	5	60	21	22	15	40	1.90
286719--286754	18	2.0	18	100	0	72	66	0	11	22	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
286721--286770	18	2.8	17	88	11	66	70	0	10	20	1.16
298080--298137	23	2.5	23	83	10	82	24	22	22	31	1.99
298620--298653	13	2.6	13	95	0	59	35	14	5	44	1.70
299862--299899	15	2.5	15	100	0	76	7	57	5	28	1.49
313747--313863	19	6.5	19	68	17	61	35	5	1	58	1.31
313776--313814	14	2.7	14	88	11	53	35	2	5	56	1.35
313746--313879	71	1.9	70	90	7	218	35	4	1	58	1.28
313748--313863	37	3.2	36	72	24	118	35	5	1	57	1.31
313843--313879	13	2.7	14	84	15	51	37	2	0	59	1.12
314469--314536	23	3.0	23	95	2	120	36	26	10	26	1.88
314623--314672	24	2.1	24	81	7	57	48	18	12	22	1.80
316643--316715	15	5.2	15	77	17	50	50	1	0	47	1.09
316670--316750	15	5.0	16	74	16	78	46	1	2	49	1.23
316709--316868	31	5.3	30	75	15	98	48	1	5	44	1.34
316786--316889	21	4.8	20	70	16	66	47	1	5	45	1.38
316799--316860	14	4.4	14	74	11	54	43	1	8	46	1.42
316826--316914	15	5.6	15	71	19	65	50	2	3	43	1.31
316676--316914	65	3.7	66	77	12	228	49	2	4	44	1.33
316903--317005	22	4.8	22	69	21	83	48	8	5	36	1.58
316932--316984	21	2.5	21	78	0	61	47	5	7	39	1.56
317037--317088	24	2.2	24	82	6	61	44	5	9	40	1.61
317172--317401	18	12.9	18	69	16	133	42	6	6	43	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
317147--317300	51	2.9	52	76	14	145	43	7	5	44	1.54
317183--317428	33	7.5	33	76	13	242	43	6	7	42	1.59
317325--317353	14	2.0	15	93	6	51	48	3	6	41	1.47
317424--317457	7	4.9	7	85	0	50	17	0	35	47	1.48
317465--317575	23	4.7	23	72	19	70	46	3	7	42	1.48
317509--317760	27	9.4	27	68	22	117	48	4	6	40	1.49
317563--317668	18	5.2	20	67	26	62	42	6	8	42	1.61
317640--317706	33	2.1	32	88	2	98	50	5	4	38	1.47
317657--317762	20	5.0	20	70	15	79	53	1	5	38	1.35
317558--317713	82	1.9	83	80	9	185	46	6	7	40	1.57
317670--317719	13	3.8	13	75	17	50	54	4	4	38	1.38
317686--317754	29	2.4	29	80	11	79	53	0	7	39	1.29
317738--317762	6	4.2	6	100	0	50	68	0	0	32	0.90
317780--317829	22	2.2	24	92	7	86	50	4	0	46	1.20
317789--317852	22	3.0	21	86	6	76	50	6	0	43	1.27
317818--317868	23	2.3	22	80	10	59	52	3	0	43	1.19
317941--318001	27	2.2	28	88	2	88	39	4	8	47	1.55
317994--318029	15	2.4	15	90	0	54	47	0	2	50	1.15
317978--318057	24	3.3	24	82	8	83	42	5	3	48	1.42
318201--318876	214	3.1	216	92	1	1126	29	13	8	49	1.70
320083--320113	15	2.1	15	93	0	53	32	16	22	29	1.95
320136--320236	29	3.5	29	85	5	125	20	32	32	13	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
320263--320336	22	3.5	22	92	3	125	5	50	21	22	1.69
320352--320432	25	3.4	25	88	10	116	19	22	17	40	1.91
320821--320926	30	3.5	30	84	5	133	36	1	15	46	1.57
320979--321012	15	2.2	16	94	5	61	38	0	5	55	1.24
323131--323643	60	9.2	57	72	18	338	44	11	1	41	1.52
323132--323245	49	2.4	46	88	8	183	44	11	0	43	1.40
323182--323266	21	4.2	20	68	22	61	44	11	0	43	1.40
323221--323305	21	4.2	21	66	19	54	44	14	0	41	1.45
323398--323509	48	2.3	49	90	3	172	47	9	0	42	1.36
323418--323720	120	2.4	123	85	8	400	45	9	0	43	1.41
323447--323654	60	3.5	60	94	0	364	45	12	0	41	1.45
323611--323844	14	17.5	13	74	19	155	42	10	1	45	1.46
323626--323844	26	8.6	26	79	12	204	43	9	1	45	1.45
323622--323903	124	2.3	123	89	4	424	43	10	1	44	1.46
323866--323903	12	3.2	12	96	3	69	42	7	0	50	1.31
324099--324133	17	2.0	18	88	5	54	37	8	0	54	1.31
328006--328054	21	2.3	21	85	3	71	53	16	0	30	1.43
328409--328479	21	3.3	21	70	14	72	28	26	26	18	1.98
328536--328569	17	2.0	17	100	0	68	29	0	47	23	1.52
328705--328859	29	5.3	29	92	1	123	7	28	34	29	1.85
328722--328859	58	2.4	58	96	0	249	7	26	36	29	1.85
329820--329918	3	32.3	3	77	17	80	62	2	2	33	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
329807--329864	12	4.7	12	77	14	55	67	6	0	25	1.16
329807--329936	25	5.0	25	76	11	77	63	3	2	30	1.25
329831--329932	51	2.1	50	81	9	120	63	0	2	33	1.09
329997--330033	19	1.9	19	89	10	58	54	0	2	43	1.14
333092--333308	108	2.0	108	98	0	416	31	20	16	31	1.95
336016--336282	48	5.6	48	74	13	178	33	19	15	31	1.93
336136--336314	95	1.9	94	81	3	216	34	20	16	28	1.94
336754--336883	66	1.9	66	90	3	206	36	20	13	30	1.90
340790--340814	2	12.5	2	100	0	50	52	0	0	48	1.00
343196--343257	31	2.0	31	100	0	124	35	3	9	51	1.51
343254--343287	16	2.2	16	89	5	52	32	5	0	61	1.20
344325--344367	18	2.4	17	81	11	50	34	13	4	46	1.65
360241--360298	18	3.4	16	82	15	64	13	13	8	63	1.51
362474--362499	13	2.0	13	100	0	52	76	0	0	23	0.78
374290--374330	16	2.6	16	96	0	73	53	0	24	21	1.46
379084--379122	21	1.9	21	89	5	62	30	15	17	35	1.91
380737--380774	16	2.4	16	82	8	51	39	0	31	28	1.57
384173--384220	19	2.5	19	89	0	69	31	18	27	22	1.97
384224--384272	20	2.5	20	80	6	55	18	20	30	30	1.96
386023--386099	38	2.0	38	89	0	118	57	3	10	28	1.50
387652--387717	27	2.4	27	100	0	132	33	24	4	37	1.76
387672--387717	14	3.4	14	71	17	51	32	23	4	39	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
388275--388300	13	2.0	13	100	0	52	46	23	0	30	1.53
389524--389561	19	2.0	19	85	10	51	55	2	0	42	1.14
390072--390141	27	2.6	27	84	4	79	38	20	8	32	1.83
392316--392361	18	2.5	17	83	13	56	73	0	13	13	1.09
392462--392523	17	3.5	17	75	18	56	74	0	3	22	0.96
392518--392591	37	2.1	36	85	7	98	66	1	5	27	1.22
392640--392689	19	2.7	18	84	6	55	62	0	4	34	1.14
392665--392748	16	5.5	16	70	20	56	67	0	4	27	1.10
393953--394035	34	2.5	34	96	2	150	32	9	19	38	1.84
393953--394046	34	2.8	33	90	6	136	32	9	19	38	1.84

Tables:   1   2   3