genome.fa.s8550.2.7.7.80.10.50.1000.1.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: VEPZ01008550.1 Hibiscus syriacus cultivar Beakdansim tig00111445_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1154708

Tables:   1   2   3   4   5   6   

This is table  1  of  6  ( 681 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)
797--851	27	2.0	27	96	0	101	34	5	27	32	1.80
1612--1653	18	2.2	20	83	8	52	38	2	9	50	1.48
4263--4305	18	2.4	18	88	0	68	18	44	23	13	1.86
4364--4483	29	4.2	29	72	8	93	32	7	21	38	1.82
4417--4503	29	3.1	29	83	6	90	28	5	27	37	1.80
11494--11584	29	3.2	29	67	6	78	29	5	23	41	1.76
11564--11644	28	2.9	29	83	7	87	32	6	16	45	1.71
20677--20722	12	3.6	12	81	16	56	45	17	19	17	1.85
20683--20723	12	3.1	13	80	19	57	46	14	17	21	1.84
23226--23265	21	1.9	21	94	0	71	30	15	7	47	1.72
23260--23358	33	3.0	33	91	1	146	35	7	12	45	1.69
23344--23398	13	4.2	13	75	13	58	34	3	12	49	1.59
23595--23651	21	2.7	21	91	0	96	19	26	26	28	1.99
23835--23868	18	1.9	18	88	5	52	41	11	8	38	1.73
23814--23872	15	3.8	15	78	8	55	33	11	10	44	1.75
23962--23993	16	2.0	17	88	11	50	43	21	21	12	1.86
37654--37689	2	18.0	2	88	11	56	50	0	2	47	1.15
38833--38915	29	2.8	29	80	8	87	38	16	4	39	1.70
42813--42967	24	6.5	25	77	7	126	21	9	15	54	1.68
42827--42967	72	2.0	72	88	5	214	21	9	14	53	1.69
42811--42967	48	3.3	48	81	3	165	21	8	15	54	1.68
42862--42967	36	2.9	36	74	16	103	20	10	15	53	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
44574--44618	19	2.4	19	100	0	90	31	35	11	22	1.89
48758--48797	21	1.9	21	89	0	62	55	7	7	30	1.56
53325--53471	75	2.0	75	100	0	294	31	31	5	31	1.80
56777--56928	75	2.0	75	94	0	268	37	15	14	32	1.88
60739--60852	42	2.7	42	93	0	183	19	15	18	46	1.84
60835--60878	19	2.3	19	100	0	88	22	9	25	43	1.82
60843--60886	19	2.3	19	92	0	70	20	15	18	45	1.85
61065--61145	22	3.5	22	71	15	65	51	1	1	45	1.16
61069--61179	52	2.1	51	79	14	120	50	0	0	47	1.13
61051--61230	29	6.0	29	69	17	91	48	0	1	50	1.12
61156--61229	19	3.9	19	71	19	57	52	0	1	45	1.09
61224--61268	23	2.0	23	86	0	63	53	2	2	42	1.25
61629--61673	15	3.0	15	96	0	81	35	20	11	33	1.88
61631--61679	15	3.3	15	91	0	71	30	22	8	38	1.83
65315--65354	21	2.0	20	85	5	53	50	12	15	22	1.77
69617--69675	31	1.9	31	96	0	109	27	18	20	33	1.96
69618--69694	31	2.5	31	87	6	95	29	18	20	31	1.96
80046--80088	20	2.2	20	100	0	86	37	9	20	32	1.85
86160--86240	30	2.7	30	88	0	126	46	14	12	25	1.80
86362--86455	42	2.2	42	96	0	170	29	26	5	38	1.78
90681--90723	21	2.0	21	90	0	68	32	27	23	16	1.96
90752--90796	22	2.0	22	86	4	63	31	31	26	11	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
92082--92299	103	2.1	103	94	0	382	26	12	23	37	1.90
92316--92383	23	3.0	23	91	0	100	20	27	26	25	1.99
94355--94468	31	3.7	31	79	11	103	45	4	4	45	1.43
94410--94461	21	2.5	20	77	17	52	46	3	0	50	1.20
97019--97071	22	2.3	23	81	15	65	43	26	0	30	1.55
97019--97077	24	2.6	23	81	13	68	42	27	0	30	1.56
98012--98291	42	6.7	42	89	0	400	23	20	27	29	1.98
102573--102625	16	3.1	18	70	25	51	60	1	1	35	1.19
102613--102639	2	13.5	2	100	0	54	51	0	0	48	1.00
103106--103146	2	20.5	2	100	0	82	48	0	0	51	1.00
125808--125833	12	2.2	12	100	0	52	38	15	26	19	1.91
129899--129997	21	4.8	20	75	6	81	37	22	19	21	1.94
129965--130193	20	11.4	20	81	5	230	37	25	17	19	1.94
130885--130931	24	2.0	24	87	8	69	25	14	21	38	1.92
131106--131130	12	2.1	12	100	0	50	72	0	28	0	0.86
133425--133658	72	3.3	72	79	10	279	46	17	21	14	1.83
133411--133680	53	5.1	52	88	8	397	46	17	22	14	1.83
133392--133685	72	4.2	68	77	13	258	45	18	22	14	1.85
133411--133680	105	2.6	105	90	7	408	46	17	22	14	1.83
133676--133793	54	2.2	52	94	4	209	14	24	16	44	1.86
133695--133793	19	5.4	19	82	12	127	15	23	16	45	1.84
133900--133936	14	2.6	14	91	0	65	45	21	0	32	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
134033--134062	12	2.5	12	94	0	51	36	16	6	40	1.75
135862--136034	19	9.6	19	74	12	132	45	23	20	10	1.82
135956--136012	14	3.7	14	75	20	51	43	22	22	10	1.84
135937--136029	33	2.8	33	95	0	168	46	21	21	10	1.81
135896--136034	52	2.7	52	74	8	147	46	22	21	9	1.79
136046--136104	14	3.9	14	76	20	64	6	16	28	47	1.72
136030--136153	33	3.7	33	91	1	185	8	17	27	45	1.78
136030--136121	19	5.4	18	72	24	83	7	17	28	46	1.75
136079--136135	14	3.7	14	72	20	51	8	22	24	43	1.81
136251--136566	93	3.4	93	99	0	623	45	18	13	22	1.85
138251--138307	20	2.8	21	78	5	80	47	15	24	12	1.80
138308--138429	21	6.7	19	68	22	75	12	20	18	48	1.80
138324--138380	14	3.7	14	72	20	51	8	22	22	45	1.80
138308--138387	33	2.4	33	97	0	151	10	21	20	48	1.78
138368--138441	21	3.5	21	80	7	96	14	20	17	47	1.83
138521--138591	33	2.2	33	94	0	124	47	16	23	11	1.79
138971--139144	20	8.6	20	87	5	244	18	18	28	33	1.95
139978--140036	29	2.0	30	83	9	77	61	3	6	28	1.38
141237--141283	3	17.0	3	83	16	57	68	2	0	29	1.02
141224--141287	13	4.9	13	75	9	51	64	1	0	34	1.03
141239--141286	16	3.1	15	81	3	60	68	2	0	29	1.01
141238--141302	19	3.7	18	75	18	57	72	3	0	24	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
141238--141303	32	2.1	32	85	5	89	72	3	0	24	0.98
141536--142316	113	6.9	113	94	0	1251	28	20	14	36	1.93
142723--142765	22	2.0	22	90	0	68	37	13	16	32	1.88
143144--143407	54	4.9	54	87	0	375	22	22	17	37	1.94
143144--143407	108	2.4	108	93	0	438	22	22	17	37	1.94
145599--145813	114	1.9	114	94	1	378	31	20	15	31	1.94
147420--147483	24	2.7	23	78	4	74	50	18	7	23	1.73
148416--148451	18	2.0	18	88	0	54	30	13	0	55	1.39
151949--152035	8	10.4	8	80	9	93	2	16	0	81	0.79
151948--152030	10	8.5	10	77	5	71	2	14	0	83	0.75
151948--152039	25	3.9	24	75	16	70	2	16	0	81	0.79
151948--152035	43	2.1	42	85	6	115	2	15	0	81	0.78
152033--152079	15	3.5	15	67	27	50	4	14	12	68	1.36
152019--152096	25	3.0	25	96	3	138	3	16	11	67	1.35
151970--152096	50	2.5	50	80	10	134	3	17	7	71	1.24
152981--153045	2	32.5	2	100	0	130	49	0	0	50	1.00
155405--155522	32	3.7	31	80	11	150	32	16	16	33	1.92
155388--155542	63	2.5	63	94	0	283	31	18	16	33	1.93
155354--155539	31	5.9	32	75	11	161	31	18	17	32	1.94
159472--159504	15	2.3	15	89	5	50	66	3	6	24	1.28
159516--159573	28	2.2	26	84	6	71	60	1	5	32	1.29
160170--160230	20	3.1	20	75	17	65	59	0	1	39	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
160560--160618	29	2.0	30	83	9	77	61	3	6	28	1.38
161273--161319	3	17.0	3	83	16	57	68	2	0	29	1.02
161260--161323	13	4.9	13	75	9	51	64	1	0	34	1.03
161275--161322	16	3.1	15	81	3	60	68	2	0	29	1.01
166908--166941	9	3.7	9	92	4	50	23	11	14	50	1.76
168184--168426	125	1.9	125	92	0	405	34	17	23	25	1.96
171730--171774	22	2.1	21	87	4	63	42	8	17	31	1.80
172587--172627	22	2.0	22	85	9	59	51	0	7	41	1.30
178439--178472	12	2.8	12	95	0	59	58	26	0	14	1.36
178598--178651	24	2.2	24	86	0	72	24	16	18	40	1.90

Tables:   1   2   3   4   5   6