genome.fa.s8724.2.7.7.80.10.50.1000.18.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: VEPZ01008724.1 Hibiscus syriacus cultivar Beakdansim tig00111783_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5289199

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

This is table  18  of  23  ( 2733 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)
4019764--4020075	130	2.4	131	79	7	350	25	24	17	32	1.97
4028644--4028686	7	6.1	7	100	0	86	44	41	13	0	1.44
4034084--4034155	31	2.3	31	100	0	144	54	12	6	26	1.63
4037832--4038125	82	3.6	82	80	3	340	25	22	19	32	1.97
4038965--4039098	45	3.0	44	78	6	126	39	20	15	24	1.91
4040886--4041094	101	2.0	104	87	2	307	33	16	16	33	1.92
4044806--4045030	114	2.0	114	100	0	450	48	18	7	26	1.73
4048064--4048105	15	2.8	15	96	0	75	78	4	0	16	0.91
4048514--4048680	83	2.0	80	93	3	280	23	16	16	43	1.88
4052490--4052550	20	3.1	19	71	13	52	54	13	14	18	1.72
4052294--4052765	182	2.6	180	87	4	650	42	14	16	26	1.86
4052686--4052732	20	2.4	19	82	10	67	53	10	17	19	1.72
4052695--4052737	20	2.3	19	88	11	63	51	11	16	20	1.75
4054937--4054979	20	2.1	21	91	4	70	39	11	32	16	1.84
4055013--4055078	33	2.0	33	87	0	96	27	1	46	24	1.61
4056834--4056882	19	2.6	19	93	0	80	30	2	10	57	1.43
4056998--4058148	193	5.9	197	91	4	1831	36	15	17	31	1.91
4056998--4058148	390	2.9	392	91	4	1889	36	15	17	31	1.91
4059595--4059681	12	7.3	12	80	2	77	37	6	32	22	1.81
4059612--4059682	3	24.0	3	76	2	72	36	5	32	25	1.79
4060844--4060876	16	2.1	16	94	0	57	45	6	21	27	1.75
4061223--4061295	23	3.2	23	88	0	101	34	4	21	39	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4061644--4061706	22	2.8	23	87	2	92	34	4	22	38	1.75
4064858--4064910	20	2.4	23	78	12	67	33	5	22	37	1.78
4064872--4064919	23	2.1	22	85	11	62	33	2	20	43	1.64
4065263--4065326	23	2.8	23	87	0	92	37	4	18	39	1.72
4065686--4065758	23	3.2	23	88	0	101	34	4	21	39	1.73
4064587--4066513	839	2.3	825	92	6	3120	40	7	12	39	1.71
4065761--4065797	19	1.9	19	88	0	56	29	13	8	48	1.71
4066107--4066173	21	3.1	23	75	14	70	35	4	20	38	1.73
4067467--4067498	14	2.2	15	94	5	57	6	12	0	81	0.87
4069468--4069501	12	2.9	11	91	8	50	0	8	2	88	0.62
4070660--4070705	6	7.8	6	78	11	51	80	4	2	13	0.95
4070660--4070704	11	3.9	11	88	5	63	80	4	2	13	0.97
4070660--4070704	22	2.0	24	91	8	76	80	4	2	13	0.97
4102089--4102385	38	7.9	38	84	8	403	44	8	2	43	1.49
4102093--4102385	78	3.9	77	87	7	440	45	8	2	43	1.48
4105622--4105695	36	2.1	35	87	2	103	60	6	14	17	1.55
4110438--4110498	26	2.4	26	94	2	106	47	8	0	44	1.33
4110401--4110614	77	3.1	65	80	17	254	46	8	2	42	1.47
4110463--4110649	39	4.9	39	90	6	303	46	9	1	42	1.46
4110460--4110649	77	2.5	76	93	3	321	46	9	1	42	1.45
4110614--4110668	23	2.3	24	87	3	76	43	12	0	43	1.42
4110642--4110741	38	2.7	37	82	13	125	40	14	6	40	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4111431--4111474	21	2.0	22	82	8	54	61	0	0	38	0.96
4114068--4114113	13	3.6	13	97	2	85	71	0	4	23	1.03
4117352--4117387	14	2.6	14	100	0	72	22	16	0	61	1.35
4117352--4117441	14	6.5	14	72	12	51	20	14	3	62	1.46
4121755--4122200	54	8.3	54	90	0	658	34	21	15	28	1.94
4127631--4128250	54	11.5	54	89	0	927	31	21	16	30	1.95
4128530--4128613	44	1.9	44	97	0	159	38	14	26	21	1.91
4136152--4136182	11	2.7	12	95	5	55	29	0	41	29	1.56
4146380--4146469	21	4.2	21	72	10	74	33	25	17	23	1.96
4146363--4146449	44	2.0	44	88	0	129	31	26	18	24	1.98
4151364--4151404	21	2.0	21	85	9	57	43	24	12	19	1.85
4151864--4151890	2	13.5	2	100	0	54	48	0	0	51	1.00
4160966--4161054	23	4.0	23	76	15	96	32	25	19	22	1.97
4161052--4161092	21	2.0	21	90	0	64	39	24	14	21	1.91
4165496--4165541	11	4.2	11	94	0	83	54	26	0	19	1.44
4167784--4167845	23	2.7	23	92	0	106	24	20	32	22	1.98
4167830--4167867	20	1.9	20	88	0	58	13	26	36	23	1.91
4175620--4175660	21	2.0	21	90	0	64	41	24	14	19	1.89
4180390--4180475	23	3.8	23	75	15	90	32	25	19	22	1.97
4188939--4188989	21	2.3	22	83	6	59	76	3	5	13	1.11
4189463--4189498	2	18.0	2	100	0	72	50	0	0	50	1.00
4190582--4190648	2	33.5	2	82	11	84	44	2	1	50	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4191271--4191634	124	2.9	124	88	1	541	25	13	25	35	1.93
4191707--4191944	64	3.7	63	87	2	343	27	14	20	37	1.91
4191699--4191944	128	1.9	131	89	5	385	27	14	20	37	1.91
4197232--4197277	2	23.0	2	100	0	92	50	0	0	50	1.00
4198209--4198260	23	2.3	23	83	6	61	76	5	5	11	1.13
4198344--4198369	13	2.0	13	100	0	52	76	0	0	23	0.78
4201088--4201122	16	2.4	14	90	9	52	62	11	8	17	1.52
4201222--4201259	13	2.9	13	92	0	58	65	10	7	15	1.45
4201516--4201542	14	1.9	14	100	0	54	59	14	11	14	1.62
4202570--4203042	124	3.8	124	90	0	721	25	14	24	35	1.94
4203002--4203227	60	3.7	60	81	6	256	27	15	19	37	1.92
4203047--4203233	65	3.0	63	81	10	231	27	16	17	39	1.91
4203002--4203233	125	1.9	125	87	1	349	27	15	18	37	1.92
4205091--4205148	29	2.1	27	81	15	66	3	15	3	77	1.04
4206352--4206403	27	1.9	27	84	7	70	50	5	15	28	1.67
4207249--4207281	16	2.0	17	88	5	50	24	36	6	33	1.80
4208978--4209003	11	2.4	11	100	0	52	53	11	15	19	1.71
4209313--4209348	13	2.8	13	95	4	65	16	55	13	13	1.69
4209458--4209519	23	2.6	24	82	5	72	27	43	14	14	1.84
4209473--4209519	12	4.0	12	86	5	60	29	46	12	10	1.76
4211254--4211316	33	1.9	33	100	0	126	46	12	3	38	1.58
4212211--4212304	46	2.0	46	91	0	152	44	10	19	25	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4212890--4213059	85	2.0	85	95	0	304	38	22	12	25	1.89
4216689--4216960	88	3.0	88	90	3	382	30	25	24	20	1.99
4221715--4221915	97	2.1	97	89	1	305	29	24	22	23	1.99
4224732--4224789	31	1.9	30	89	3	89	22	22	37	17	1.93
4224721--4224804	12	5.9	14	70	25	61	22	20	39	17	1.92
4226684--4226959	89	3.1	89	85	2	347	31	24	21	22	1.98
4231618--4231669	19	2.7	19	100	0	104	17	21	34	26	1.95
4231573--4231735	84	2.0	83	89	6	249	25	19	26	28	1.99
4231635--4231793	65	2.5	63	80	11	178	23	18	26	31	1.97
4234360--4234485	23	5.6	22	75	8	121	24	23	26	25	2.00
4234364--4234504	44	3.2	44	91	4	214	24	21	26	26	1.99
4240292--4240451	65	2.5	65	85	5	218	28	16	23	30	1.97
4240292--4240496	65	3.2	63	78	12	211	27	17	24	31	1.97
4244952--4245003	24	2.2	24	85	0	68	73	1	3	21	1.10
4245167--4245286	15	7.8	15	71	17	59	70	0	4	25	1.11
4245184--4245295	16	7.6	14	75	16	61	70	0	4	24	1.11
4245215--4245274	3	20.3	3	75	21	56	70	1	3	25	1.12
4245180--4245260	26	3.2	25	73	19	71	67	1	4	25	1.18
4245156--4245274	16	7.1	16	72	18	73	69	0	4	25	1.11
4245212--4245260	26	1.9	26	87	4	73	69	2	4	24	1.17
4246977--4247049	35	2.1	35	84	2	94	38	20	13	27	1.90
4251786--4251836	21	2.7	18	85	11	66	25	0	1	72	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4257570--4257656	36	2.5	36	84	3	106	34	9	14	41	1.78
4257591--4257651	21	3.2	21	63	26	53	32	4	14	47	1.66
4266286--4266362	38	2.0	38	85	9	104	42	1	16	38	1.57
4267937--4268004	12	5.7	12	76	0	55	48	0	50	1	1.10
4267937--4267984	9	5.3	9	94	0	87	43	0	54	2	1.12
4267931--4267984	18	3.1	17	91	2	81	46	0	51	1	1.11
4267965--4268009	21	2.1	21	84	8	56	53	0	44	2	1.13
4271642--4273198	200	7.9	199	78	8	1253	41	12	15	31	1.83
4272395--4272771	180	2.1	179	86	2	515	42	13	15	28	1.85
4271844--4273198	380	3.5	389	81	7	1369	41	12	15	31	1.84

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