genome.fa.s8128.2.7.7.80.10.50.1000.17.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: VEPZ01008128.1 Hibiscus syriacus cultivar Beakdansim tig00110683_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4987688

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

This is table  17  of  20  ( 2387 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)
4041308--4041341	14	2.4	14	90	9	52	23	5	0	70	1.09
4045122--4045182	26	2.4	24	78	8	68	14	9	9	65	1.46
4052692--4053551	113	7.5	111	78	9	865	38	14	18	28	1.89
4053032--4053458	120	3.6	120	79	10	522	38	13	18	28	1.90
4052693--4053551	232	3.7	232	89	3	1208	38	14	18	28	1.90
4053491--4053571	39	2.1	39	93	4	137	50	8	20	19	1.74
4053945--4053979	14	2.4	15	90	4	54	22	5	0	71	1.07
4054084--4054133	24	2.1	24	92	0	82	16	50	14	20	1.78
4061700--4061811	47	2.5	45	82	7	147	39	8	19	32	1.83
4064636--4064788	6	25.8	6	70	18	99	78	0	16	3	0.94
4064634--4064790	30	5.2	30	77	13	128	78	0	16	3	0.92
4064648--4064791	17	8.3	17	73	19	104	79	0	16	3	0.92
4064630--4064791	35	4.6	34	72	17	111	79	0	16	3	0.92
4068586--4068697	47	2.5	45	80	7	138	40	8	18	32	1.82
4071516--4071655	17	8.7	15	75	18	115	79	1	17	2	0.91
4071519--4071657	6	23.7	6	72	18	82	79	1	16	2	0.90
4071517--4071657	66	2.2	64	83	9	187	79	1	17	2	0.90
4076228--4076275	23	2.1	23	84	7	62	43	8	8	39	1.65
4076637--4076770	32	4.2	31	83	5	178	33	21	17	26	1.96
4076644--4076774	64	2.0	64	92	0	217	35	21	16	26	1.95
4079530--4079573	22	2.0	23	86	4	63	40	2	2	54	1.25
4079627--4079704	23	3.3	23	83	8	95	30	0	2	66	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4079657--4079707	17	2.9	17	82	8	59	33	0	1	64	1.05
4079637--4079709	16	4.7	15	73	17	51	32	0	2	64	1.08
4088195--4088227	17	1.9	17	93	0	57	33	12	24	30	1.91
4097714--4097780	32	2.1	32	83	5	82	26	22	16	34	1.95
4098913--4098985	21	3.5	21	92	0	119	35	26	6	31	1.83
4105427--4105665	119	2.0	119	89	1	363	43	7	17	30	1.78
4111638--4111699	32	1.9	32	84	12	83	22	1	11	64	1.34
4112511--4112553	22	2.0	21	90	4	68	27	0	0	72	0.85
4112483--4112551	28	2.5	26	79	9	75	27	2	0	69	1.02
4115404--4115448	5	8.8	5	90	4	63	17	6	0	75	1.01
4115403--4115448	11	4.4	11	83	10	60	17	6	0	76	1.00
4117151--4117339	76	2.6	73	85	7	240	30	0	12	56	1.40
4117314--4117354	20	2.0	20	85	9	55	29	0	19	51	1.47
4117941--4117974	17	2.0	17	88	0	50	23	0	2	73	0.97
4120910--4120964	21	2.6	21	97	0	101	29	27	18	25	1.98
4123258--4123287	16	1.9	16	93	6	53	73	0	26	0	0.84
4126291--4126366	29	2.6	29	85	8	91	47	14	3	34	1.63
4130476--4130585	38	2.9	38	94	1	184	51	1	6	40	1.38
4130468--4130587	21	6.2	20	66	22	67	53	1	5	39	1.35
4130568--4130633	27	2.5	26	87	7	105	51	0	1	46	1.10
4130701--4130763	29	2.1	31	85	5	85	31	7	6	53	1.55
4130914--4130964	26	2.0	26	84	7	68	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4130935--4130982	16	2.9	16	78	6	51	54	0	0	45	0.99
4131382--4131418	19	1.9	19	100	0	74	51	0	0	48	1.00
4131377--4131458	24	3.7	24	73	16	70	45	4	0	50	1.23
4132454--4132492	2	19.5	2	100	0	78	48	0	0	51	1.00
4132789--4132835	12	3.8	12	83	10	51	17	6	0	76	0.98
4136001--4136036	8	4.6	8	89	6	56	13	16	13	55	1.69
4136001--4136036	15	2.3	16	90	4	56	13	16	13	55	1.69
4137181--4137214	17	2.1	15	89	10	50	76	5	17	0	0.98
4137181--4137243	18	3.5	18	78	10	58	77	4	17	0	0.93
4137181--4137242	26	2.3	26	83	10	72	79	4	16	0	0.90
4137848--4137924	22	3.5	22	94	0	136	37	27	14	20	1.91
4138735--4140215	106	14.0	106	89	1	2064	34	24	18	23	1.96
4140947--4141043	37	2.6	37	88	0	149	40	16	13	29	1.87
4141745--4141809	27	2.4	26	75	14	69	23	0	4	72	1.03
4141864--4141895	2	16.0	2	100	0	64	50	0	0	50	1.00
4141900--4141983	16	5.5	15	71	14	55	16	7	0	76	1.00
4141896--4141953	25	2.4	25	85	2	73	17	5	0	77	0.94
4143532--4143562	15	2.1	14	94	5	53	48	3	12	35	1.58
4147118--4148126	128	7.9	128	95	0	1813	22	25	19	32	1.98
4148529--4148628	34	3.0	33	83	2	128	39	2	4	55	1.30
4149147--4149261	21	5.5	21	93	4	187	20	27	33	18	1.95
4149151--4149278	42	3.1	42	86	5	127	21	25	33	19	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4149151--4149278	63	2.0	63	82	7	154	21	25	33	19	1.97
4149265--4149312	21	2.3	21	85	0	60	22	12	39	25	1.89
4151033--4151136	32	3.3	31	80	10	95	59	3	0	36	1.16
4151068--4151136	30	2.2	32	82	12	81	62	5	0	31	1.19
4155800--4155972	94	1.8	94	83	6	233	32	15	24	26	1.95
4155904--4155972	22	3.5	20	79	11	70	34	15	26	23	1.95
4156295--4156701	59	6.9	59	90	0	609	35	12	21	30	1.90
4163542--4163764	95	2.3	95	83	3	261	29	16	26	27	1.97
4163710--4163764	22	2.7	20	81	10	74	27	12	32	27	1.93
4164095--4164492	59	6.7	59	93	0	672	35	12	22	29	1.91
4171988--4172069	40	2.0	40	97	0	155	23	15	26	34	1.95
4175075--4175186	32	3.5	32	85	3	154	29	12	20	37	1.89
4175088--4175143	19	3.3	19	65	27	52	23	12	23	41	1.88
4180749--4180793	23	2.0	23	86	0	63	33	22	15	28	1.95
4182592--4182630	20	2.0	20	90	5	62	33	0	28	38	1.57
4182667--4182714	21	2.3	21	100	0	96	54	4	22	18	1.61
4184051--4184237	61	3.1	61	84	0	257	26	20	25	27	1.99
4192306--4192330	13	1.9	13	100	0	50	44	8	8	40	1.63
4193505--4193686	95	1.9	95	87	4	269	32	17	18	31	1.94
4194977--4195135	72	2.1	76	82	6	202	28	16	13	40	1.87
4194986--4195160	72	2.4	73	81	10	182	29	16	14	39	1.88
4195019--4195160	73	2.0	72	82	12	175	30	16	14	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4195143--4195261	39	3.1	39	82	6	152	29	19	12	38	1.88
4195328--4196051	36	20.3	36	76	9	643	25	19	12	42	1.86
4195331--4196051	73	10.1	72	80	8	674	25	19	12	42	1.86
4195482--4195989	275	1.8	275	84	3	691	25	18	11	43	1.84
4195766--4196050	37	7.8	37	74	8	269	23	18	14	44	1.86
4196852--4196894	19	2.4	19	88	7	63	23	25	20	30	1.99
4205464--4205512	19	2.6	19	84	9	57	24	28	20	26	1.99
4207668--4207706	18	2.3	18	86	8	55	38	2	0	58	1.12
4214523--4214559	2	18.5	2	100	0	74	48	0	0	51	1.00
4226305--4226344	21	1.9	21	89	0	62	25	40	25	10	1.86
4226374--4226398	8	3.1	8	100	0	50	48	52	0	0	1.00
4227976--4228016	12	3.4	12	93	0	64	29	21	41	7	1.80
4234826--4234983	69	2.3	69	83	6	185	35	24	15	25	1.94
4237950--4238293	158	2.2	159	83	2	442	27	15	8	49	1.73
4238577--4238735	4	39.8	4	97	0	300	50	23	0	26	1.50
4238713--4238784	4	18.0	4	97	0	108	50	5	0	44	1.25
4240841--4240908	23	3.0	23	81	12	88	38	26	10	25	1.88
4254314--4254399	44	2.0	44	92	0	145	39	26	10	23	1.87
4254314--4254399	21	3.9	23	81	17	103	39	26	10	23	1.87
4256035--4256094	31	2.0	29	83	6	75	43	3	15	38	1.63
4260025--4260097	32	2.3	32	92	0	119	38	31	8	21	1.83
4274338--4274371	16	2.1	17	88	5	52	29	14	5	50	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4276337--4276368	14	2.3	14	100	0	64	68	6	0	25	1.12
4281035--4281142	57	1.9	57	96	0	198	28	9	27	34	1.88
4282861--4282913	17	3.1	17	77	20	65	41	9	3	45	1.54
4282860--4282934	34	2.2	35	87	2	107	38	12	5	44	1.64
4285615--4285675	21	2.8	21	75	7	59	29	16	18	36	1.92
4286478--4286525	23	2.1	23	100	0	96	43	12	8	35	1.73
4292353--4292482	66	2.0	66	89	6	201	38	21	22	17	1.93
4297338--4297397	17	3.6	17	75	8	70	16	21	33	28	1.95
4299754--4299785	17	1.9	17	93	6	57	34	0	0	65	0.93
4300226--4300263	2	19.0	2	100	0	76	50	0	0	50	1.00

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