genome.fa.s9579.2.7.7.80.10.50.1000.21.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: VEPZ01009579.1 Hibiscus syriacus cultivar Beakdansim tig00116951_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6215474

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   

This is table  21  of  29  ( 3390 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)
4053365--4053417	26	2.0	26	100	0	106	56	3	7	32	1.45
4057550--4057610	30	2.1	29	87	3	86	18	24	16	40	1.90
4075018--4075059	21	2.0	21	100	0	84	33	14	4	47	1.65
4076486--4076588	31	3.3	31	77	9	111	43	5	5	44	1.52
4087584--4087609	2	13.0	2	100	0	52	50	0	0	50	1.00
4088831--4088857	13	2.1	13	100	0	54	37	22	0	40	1.54
4093011--4093066	17	3.2	17	70	9	51	62	1	1	33	1.16
4093894--4093935	20	2.2	19	84	12	59	26	28	7	38	1.82
4105084--4105227	23	6.3	23	86	1	175	24	18	25	31	1.98
4105084--4105216	69	1.9	69	89	3	205	23	19	25	31	1.98
4105580--4105765	43	4.3	43	84	1	246	19	15	22	41	1.89
4105739--4105797	28	2.1	28	90	0	91	20	6	25	47	1.74
4110048--4110281	41	5.8	41	86	3	321	35	20	19	24	1.95
4110050--4110281	123	1.9	121	89	1	356	35	20	19	24	1.95
4111375--4111446	26	2.7	27	82	8	94	18	12	25	44	1.84
4119543--4119682	36	3.9	35	84	6	183	36	18	24	20	1.95
4119538--4119682	71	2.0	72	90	4	231	37	17	24	20	1.93
4125207--4125268	30	2.0	30	87	9	90	41	0	1	56	1.09
4125207--4125279	32	2.6	28	83	14	80	45	0	1	53	1.09
4126768--4126823	26	2.0	27	83	10	69	66	0	1	32	1.03
4135621--4135663	18	2.5	18	92	7	72	67	0	0	32	0.91
4137967--4138009	4	10.8	4	94	0	77	25	2	23	48	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4142572--4142637	4	16.5	4	91	0	78	54	1	1	42	1.18
4160630--4160655	2	13.0	2	100	0	52	50	0	0	50	1.00
4164958--4165013	22	2.5	22	88	0	85	32	32	23	12	1.92
4165562--4165725	64	2.5	64	82	9	174	25	21	20	32	1.97
4165603--4165725	66	1.9	64	85	6	167	25	19	19	35	1.95
4172557--4172589	7	4.9	7	92	7	59	27	30	27	15	1.96
4172621--4172719	9	10.3	9	73	12	72	30	27	27	15	1.96
4172623--4172720	19	5.1	19	75	10	83	30	27	25	16	1.96
4173256--4173331	19	4.0	19	74	6	57	28	27	26	17	1.97
4173252--4173330	10	8.3	9	75	9	59	27	27	27	16	1.97
4180544--4180574	7	4.4	7	91	0	53	25	25	29	19	1.99
4180583--4180615	5	6.8	5	86	6	50	3	21	54	21	1.58
4180584--4180610	14	1.9	14	100	0	54	3	22	51	22	1.63
4180582--4180624	19	2.3	19	83	0	59	4	25	48	20	1.69
4180618--4180661	19	2.3	19	88	7	63	34	31	22	11	1.90
4180618--4180661	9	4.7	9	83	10	61	34	31	22	11	1.90
4181868--4181921	18	3.0	18	88	0	81	29	31	18	20	1.96
4181890--4181978	22	4.2	22	85	5	114	30	30	23	15	1.96
4182613--4182664	19	2.7	19	96	0	95	23	30	21	25	1.99
4185478--4185603	60	2.1	60	86	5	175	37	8	11	42	1.73
4186442--4186466	13	1.9	13	100	0	50	56	12	0	32	1.36
4189332--4189391	26	2.3	26	100	0	120	56	6	15	21	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4201687--4201714	11	2.5	11	100	0	56	28	0	0	71	0.86
4202761--4202794	14	2.4	14	95	0	59	47	5	2	44	1.42
4203095--4203157	21	2.9	21	76	17	58	46	0	3	50	1.17
4204089--4204214	58	2.2	59	82	5	157	34	23	4	38	1.76
4205500--4205613	50	2.3	50	96	0	210	40	7	11	41	1.68
4206066--4206252	100	1.9	99	87	3	277	37	10	11	40	1.76
4206181--4206412	76	3.0	76	80	8	283	32	12	13	40	1.82
4206325--4206504	100	1.8	100	95	0	324	31	12	14	41	1.83
4206428--4206665	77	3.1	77	79	3	257	31	15	11	41	1.83
4206425--4206657	76	3.1	75	80	6	263	31	15	10	42	1.82
4206576--4206757	100	1.8	100	86	2	267	29	15	10	44	1.80
4206499--4206833	176	1.9	177	86	4	480	31	15	9	43	1.78
4206676--4206909	76	3.1	75	82	6	283	31	14	8	45	1.75
4206676--4206967	152	1.9	154	82	4	367	33	14	9	42	1.79
4206070--4206926	252	3.4	250	81	5	958	32	13	11	42	1.80
4206779--4207004	79	2.9	79	80	9	259	33	14	11	40	1.82
4232474--4233653	592	2.0	584	88	3	1740	36	18	18	26	1.94
4235249--4235317	36	1.9	36	93	0	120	28	15	11	43	1.82
4235255--4235333	36	2.2	36	81	4	88	32	20	10	36	1.86
4235230--4235462	122	1.9	121	90	0	367	31	19	15	32	1.94
4235896--4235979	36	2.3	37	89	4	127	25	20	17	36	1.94
4235379--4235960	259	2.2	257	79	6	699	36	22	10	29	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4235648--4236262	289	2.1	293	81	4	724	34	21	12	30	1.91
4235394--4236408	548	1.8	552	82	5	1286	37	21	12	29	1.89
4237428--4238252	42	19.4	42	78	7	635	33	27	18	21	1.96
4237872--4238039	90	1.8	91	83	6	223	30	30	19	19	1.96
4239438--4239493	2	28.0	2	100	0	112	50	0	0	50	1.00
4244682--4244730	21	2.3	21	75	6	55	55	2	2	40	1.23
4246185--4246241	29	2.0	29	86	6	80	15	17	21	45	1.85
4256834--4257075	60	4.1	60	82	2	256	31	18	5	44	1.72
4262356--4262386	16	1.9	16	100	0	62	58	22	12	6	1.58
4262458--4262516	16	3.7	16	83	0	82	55	20	11	11	1.67
4263599--4263637	14	2.8	14	100	0	78	51	25	15	7	1.70
4263590--4263645	28	2.0	28	85	0	76	51	25	12	10	1.71
4267191--4267284	19	4.9	19	79	12	104	38	11	11	38	1.78
4267190--4267273	18	4.3	19	78	11	89	42	10	10	35	1.74
4267191--4267306	40	3.0	40	82	12	143	37	12	12	37	1.82
4267192--4267284	18	4.9	19	75	16	86	37	11	11	38	1.79
4267210--4267306	40	2.4	41	87	5	144	36	13	13	37	1.84
4267268--4267352	27	3.5	24	80	13	93	37	16	17	28	1.92
4267210--4267307	39	2.4	38	83	9	133	36	13	13	36	1.83
4268189--4268231	20	2.0	23	86	13	65	48	0	0	51	1.00
4270603--4270721	59	2.0	59	90	3	186	26	8	15	50	1.72
4275841--4275871	15	2.1	15	93	0	53	45	0	0	54	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4276462--4276966	249	2.0	249	91	2	811	40	19	12	27	1.87
4277950--4277994	21	2.1	21	95	0	81	20	24	15	40	1.91
4277950--4278002	21	2.5	21	90	0	70	22	22	16	37	1.94
4277996--4278104	20	5.4	20	97	0	200	41	18	20	20	1.91
4278301--4278366	22	3.0	22	90	0	105	24	39	15	21	1.91
4278703--4278792	20	4.6	20	84	1	92	15	17	22	44	1.86
4280682--4280731	20	2.5	20	86	0	73	38	22	16	24	1.93
4280776--4280844	20	3.5	20	78	7	77	20	15	26	37	1.93
4281328--4281432	21	5.0	21	74	3	95	20	37	19	22	1.95
4281325--4281435	42	2.6	42	78	5	118	20	37	18	22	1.94
4282794--4282829	14	2.6	14	90	0	54	30	0	22	47	1.52
4282955--4282985	14	2.2	14	100	0	62	41	22	25	9	1.84
4283026--4283101	33	2.3	34	93	2	127	14	22	17	46	1.84
4283037--4283109	33	2.2	34	90	2	112	15	21	16	46	1.83
4283093--4283181	20	4.5	19	83	13	117	17	20	24	37	1.94
4283093--4283181	40	2.2	40	88	4	135	17	20	24	37	1.94
4285599--4285644	23	2.0	23	95	0	83	34	17	19	28	1.94
4286478--4286531	20	2.7	20	100	0	108	25	18	25	29	1.98
4286531--4286579	20	2.5	20	89	0	71	22	20	16	40	1.91
4286543--4286586	20	2.1	21	95	4	81	25	18	15	40	1.90
4286573--4286625	21	2.5	21	87	0	79	35	18	24	20	1.95
4287625--4287686	2	32.5	2	90	9	103	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4287625--4287686	32	1.9	32	100	0	124	48	0	0	51	1.00
4296002--4296127	64	2.0	64	82	6	157	36	20	17	25	1.94
4298605--4298690	23	3.7	23	83	9	95	30	22	22	25	1.99
4311116--4311192	6	13.2	6	93	5	122	31	49	16	2	1.60
4315849--4315915	33	2.0	33	100	0	134	13	29	14	41	1.85
4317061--4317140	6	13.2	6	97	2	151	33	50	16	0	1.45
4317138--4317207	5	13.8	5	89	3	95	20	35	41	2	1.67
4318599--4318661	23	2.7	23	92	4	101	36	7	7	47	1.62
4326916--4327251	167	2.0	168	99	0	665	36	8	5	49	1.57
4332092--4332152	31	2.0	31	93	0	104	27	27	11	32	1.91

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29