genome.fa.s8061.2.7.7.80.10.50.1000.24.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: VEPZ01008061.1 Hibiscus syriacus cultivar Beakdansim tig00110556_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5800122

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   

This is table  24  of  26  ( 3118 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)
4992567--4992635	19	3.5	19	73	11	75	39	21	20	18	1.93
4992585--4992656	22	3.4	22	73	11	87	37	25	19	18	1.94
4992567--4992859	41	7.3	41	79	11	267	38	22	20	19	1.94
4992581--4992757	20	8.6	22	69	15	96	40	22	20	16	1.91
4992620--4992757	20	6.8	20	77	6	125	39	22	21	15	1.91
4992764--4992832	19	3.5	19	73	11	75	39	21	20	18	1.93
4992782--4992875	22	4.5	21	75	11	86	36	26	17	20	1.94
4992608--4992897	156	1.9	156	85	6	408	38	22	20	18	1.93
4992842--4992937	21	4.6	21	76	7	97	35	27	13	23	1.93
4992801--4992936	62	2.2	60	79	10	148	36	25	15	22	1.93
4998695--4998759	24	2.6	25	90	9	105	47	13	12	26	1.78
5004760--5005231	247	1.9	245	80	6	551	38	14	12	34	1.84
5016093--5016128	18	2.0	18	100	0	72	38	16	16	27	1.90
5016425--5016467	20	2.2	20	95	0	77	37	6	18	37	1.78
5017250--5017285	15	2.4	15	100	0	72	11	25	33	30	1.90
5021140--5021247	23	4.5	24	74	22	77	55	0	2	41	1.14
5021188--5021234	20	2.2	22	88	7	71	53	0	4	42	1.20
5021215--5021266	25	2.0	26	81	3	61	48	0	5	46	1.26
5026715--5026755	21	2.0	20	86	13	57	51	0	2	46	1.14
5035885--5035985	33	3.0	34	85	10	152	45	17	5	30	1.73
5035885--5036011	67	1.9	66	87	4	184	43	18	7	31	1.76
5040350--5040468	35	3.3	37	83	8	156	43	16	4	35	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5048016--5048125	53	2.1	51	81	9	125	31	0	13	54	1.39
5050263--5050529	140	1.9	139	94	0	471	35	14	9	40	1.80
5057529--5057583	28	2.0	28	82	3	67	43	12	0	43	1.42
5068310--5068398	34	2.7	32	77	10	90	39	0	2	58	1.11
5070118--5070165	21	2.3	21	85	0	60	25	39	12	22	1.89
5070169--5070262	21	4.5	21	92	5	129	18	35	26	20	1.95
5070785--5070881	33	2.9	34	85	3	133	55	4	3	37	1.35
5070783--5070888	34	3.2	33	82	8	133	54	4	2	37	1.36
5071268--5071872	126	4.8	126	98	0	1156	32	20	25	21	1.98
5071940--5071980	8	5.2	8	82	5	57	36	29	0	34	1.58
5074974--5075011	13	3.0	13	88	3	60	44	0	0	55	0.99
5075025--5075082	23	2.6	23	94	5	102	44	12	3	39	1.58
5078087--5078111	12	2.1	12	100	0	50	20	16	24	40	1.91
5082612--5082636	12	2.1	12	100	0	50	20	16	24	40	1.91
5090534--5090582	22	2.3	21	86	10	64	42	8	0	48	1.32
5091137--5091187	17	3.4	17	65	34	53	66	3	3	25	1.26
5091132--5091195	27	2.4	26	94	5	119	67	3	3	26	1.21
5112299--5112397	39	2.6	38	79	6	112	52	0	11	36	1.37
5113104--5113330	114	2.0	114	94	0	400	29	11	27	32	1.91
5119667--5119722	9	5.9	9	78	21	53	46	0	0	53	1.00
5119750--5119797	24	2.0	23	84	4	60	47	4	0	47	1.21
5119763--5119885	16	7.6	16	77	10	99	38	1	0	60	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5119801--5119887	17	5.1	16	76	13	59	36	0	0	63	0.95
5121922--5121949	14	2.0	14	100	0	56	28	14	0	57	1.38
5123767--5123838	29	2.5	29	86	0	90	15	27	37	19	1.92
5131827--5132198	43	8.6	44	80	5	386	32	18	24	24	1.97
5131827--5132195	87	4.3	87	85	4	423	31	18	24	24	1.98
5131845--5132198	130	2.7	129	82	8	427	32	18	24	24	1.97
5133046--5133099	26	2.1	26	100	0	108	51	11	18	18	1.74
5134097--5134140	21	2.1	21	100	0	88	13	25	13	47	1.79
5134860--5135404	41	13.3	41	82	5	449	30	19	22	27	1.98
5134860--5135446	123	4.8	123	79	6	537	31	19	21	27	1.98
5134860--5135428	164	3.5	163	82	5	582	30	19	22	27	1.98
5143817--5143862	24	2.0	23	91	4	74	10	10	47	30	1.73
5143819--5143862	12	3.8	11	85	11	61	11	9	47	31	1.71
5143882--5143970	24	3.6	25	72	18	69	47	0	0	52	1.00
5143932--5143967	2	18.5	2	94	5	65	50	0	0	50	1.00
5150402--5150451	23	2.2	23	92	0	82	38	22	8	32	1.83
5149980--5151074	552	2.0	539	88	7	1588	40	10	8	40	1.70
5153623--5154336	184	3.9	184	96	1	1337	33	16	14	36	1.89
5157220--5158205	200	4.9	200	95	0	1751	30	18	14	36	1.91
5158435--5158483	19	2.6	19	90	0	80	55	8	2	34	1.41
5160274--5160342	33	2.1	33	91	5	113	23	44	0	31	1.53
5160374--5160438	21	3.1	21	88	0	94	18	30	10	40	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5162675--5162721	20	2.4	19	79	10	58	21	17	8	53	1.70
5162642--5163114	181	2.6	182	89	0	714	26	16	14	42	1.86
5164054--5164100	14	3.4	14	82	8	60	46	0	48	4	1.21
5165650--5165725	36	2.1	36	95	0	134	43	13	11	31	1.80
5173769--5173793	2	12.5	2	100	0	50	0	52	0	48	1.00
5175992--5176049	28	2.1	27	81	15	66	44	1	1	51	1.21
5176096--5176158	21	2.9	22	69	23	60	42	4	6	46	1.50
5183093--5183167	31	2.4	31	93	0	123	30	25	14	29	1.95
5183284--5183332	23	2.2	22	85	10	64	71	0	0	28	0.86
5183278--5183332	21	2.6	21	77	8	67	67	0	0	32	0.91
5187514--5187882	20	18.5	20	85	4	458	34	26	18	20	1.96
5188556--5188602	24	2.0	24	87	8	69	25	14	21	38	1.92
5188777--5188801	12	2.1	12	100	0	50	72	0	28	0	0.86
5191105--5191411	19	17.4	19	79	16	358	47	18	20	14	1.83
5191133--5191411	52	5.2	53	90	5	358	47	17	20	14	1.83
5191172--5191411	71	3.4	71	83	11	355	47	17	20	15	1.83
5191105--5191443	142	2.4	137	89	6	497	46	18	20	14	1.83
5191440--5191541	19	5.6	19	85	12	151	14	23	17	44	1.86
5191648--5191684	14	2.6	14	91	0	65	45	21	0	32	1.52
5191679--5191751	12	6.0	12	67	20	53	57	16	1	24	1.47
5191665--5191737	38	1.9	38	97	0	137	53	16	1	28	1.51
5193608--5193664	14	3.7	14	77	20	60	45	22	21	10	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5193589--5193681	33	2.8	33	95	0	168	47	21	20	10	1.80
5193552--5193686	19	7.6	19	76	16	128	45	23	19	11	1.82
5193682--5193810	19	7.3	19	75	17	125	8	17	28	45	1.77
5193682--5193773	33	2.8	33	93	3	150	7	18	28	45	1.76
5193854--5194233	93	4.1	93	99	0	753	46	18	12	22	1.83
5193854--5194233	185	2.0	186	99	0	753	46	18	12	22	1.83
5195940--5196029	14	5.7	14	74	23	81	42	23	25	8	1.83
5195932--5196046	33	3.5	33	95	0	212	45	20	24	9	1.81
5195939--5196051	19	6.8	18	72	23	88	43	22	24	9	1.83
5196063--5196117	14	3.6	14	73	21	56	9	27	23	40	1.85
5196238--5196308	33	2.2	33	92	0	115	47	18	22	11	1.80
5196490--5196544	22	2.5	22	81	0	74	20	16	40	23	1.91
5196690--5196883	20	9.6	20	82	5	221	19	19	25	35	1.95
5196690--5196883	60	3.2	60	83	0	253	19	19	25	35	1.95
5196876--5196952	21	3.7	20	70	13	57	27	16	23	32	1.96
5196938--5196989	20	2.6	20	96	0	95	21	13	26	38	1.90
5197261--5197308	15	3.3	15	74	11	55	47	0	0	52	1.00
5198781--5198833	14	3.7	14	74	2	52	43	0	1	54	1.11
5198774--5198833	29	2.1	30	90	6	97	45	0	3	51	1.17
5204950--5205039	32	2.9	31	90	3	135	20	8	15	55	1.66
5205046--5205107	10	6.1	10	77	17	56	58	22	12	6	1.58
5205880--5206056	89	2.0	89	87	4	259	27	5	24	42	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5216467--5216583	60	2.0	60	96	0	216	27	17	17	36	1.93
5218759--5218819	21	3.0	20	76	6	70	47	0	1	50	1.10
5218798--5218872	15	5.2	15	72	15	68	50	0	1	48	1.09
5218763--5218860	42	2.4	40	85	9	128	51	0	2	46	1.12
5218844--5218882	15	2.7	15	88	4	53	48	0	2	48	1.15
5237265--5237348	18	4.8	18	83	4	118	44	14	10	30	1.79
5237265--5237345	17	4.6	18	84	4	112	43	14	11	30	1.81
5237265--5237348	35	2.4	35	93	0	141	44	14	10	30	1.79
5238340--5238394	28	2.0	29	82	13	71	56	10	3	29	1.51
5240087--5240172	30	2.8	31	75	19	92	33	16	4	45	1.68

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