genome.fa.s8001.2.7.7.80.10.50.1000.1.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: VEPZ01008001.1 Hibiscus syriacus cultivar Beakdansim tig00110458_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3902382

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

This is table  1  of  18  ( 2081 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)
2378--2939	199	2.8	198	85	3	715	39	14	14	31	1.87
2934--3093	87	1.9	84	89	3	248	33	15	9	41	1.79
9132--9163	15	2.1	16	88	11	50	28	9	21	40	1.84
12808--13374	105	5.4	105	93	1	904	23	17	25	33	1.96
14125--14217	46	2.0	47	82	4	116	15	25	13	45	1.83
20661--20708	20	2.3	21	82	10	62	16	18	2	62	1.42
24447--24519	4	17.8	4	71	13	51	68	2	5	23	1.24
27577--27618	18	2.3	18	84	12	50	40	4	7	47	1.52
38685--38771	31	2.8	31	80	0	102	27	12	6	52	1.64
38603--38892	152	1.9	153	84	2	395	28	15	9	46	1.78
40729--40785	22	2.6	22	75	10	55	77	3	3	15	1.05
40745--40801	7	7.4	7	78	18	60	82	1	0	15	0.75
40752--40795	9	4.7	9	80	8	52	81	2	0	15	0.78
40747--40801	18	3.2	18	81	18	64	81	1	0	16	0.77
40747--40801	12	4.7	12	74	17	53	81	1	0	16	0.77
40807--40832	7	3.7	7	100	0	52	61	0	0	38	0.96
40849--40874	5	5.2	5	100	0	52	80	0	0	19	0.71
40923--41008	43	2.1	42	89	10	133	69	4	10	15	1.32
42015--42448	37	11.6	37	77	12	320	42	6	3	47	1.45
42010--42435	112	3.8	110	84	10	460	42	6	3	47	1.45
42302--42397	49	2.0	48	84	11	126	39	2	4	54	1.32
42265--42441	84	2.1	83	85	8	241	41	4	3	50	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
42351--42447	35	2.6	36	84	11	108	44	5	2	48	1.36
44417--44480	30	2.1	30	91	0	101	18	28	18	34	1.95
48951--48981	15	2.1	15	93	0	53	45	0	0	54	0.99
55421--55474	26	2.1	26	96	0	99	31	9	27	31	1.88
61141--61179	19	2.1	19	86	13	55	58	5	5	30	1.41
61664--61758	48	2.0	48	95	0	172	42	13	15	28	1.85
61685--61770	24	3.6	24	72	0	91	43	12	12	31	1.81
61667--61774	48	2.2	48	90	0	162	43	14	12	28	1.83
62478--62535	29	2.0	30	86	3	82	48	15	3	32	1.62
62524--62598	23	3.1	24	83	16	84	49	10	4	36	1.56
62688--62727	18	2.2	18	100	0	80	10	22	50	17	1.76
68225--68258	11	3.1	11	95	0	59	41	11	0	47	1.40
68403--68441	19	2.1	19	86	13	55	58	5	5	30	1.41
68920--69016	48	2.0	48	97	0	185	41	17	14	26	1.88
68920--69033	24	4.8	24	73	0	93	42	16	14	27	1.86
68930--69035	48	2.2	48	91	0	167	44	16	11	27	1.82
69826--69871	23	2.0	23	95	0	83	54	10	4	30	1.55
76248--76289	2	21.0	2	100	0	84	50	0	0	50	1.00
78107--78216	22	5.0	22	86	0	148	35	22	18	23	1.96
82246--82387	18	7.9	18	96	0	257	23	33	26	16	1.96
85495--85542	22	2.2	22	88	0	69	37	4	10	47	1.57
88196--88258	23	2.7	23	82	0	81	33	22	20	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
91015--91045	14	2.1	15	94	5	55	54	3	6	35	1.42
91669--91731	20	3.1	20	93	6	101	17	41	25	15	1.89
93921--93974	20	2.4	23	88	11	78	25	24	18	31	1.97
93962--94103	65	2.2	62	82	13	164	26	22	17	33	1.96
98788--98960	55	3.2	53	73	14	129	31	24	15	28	1.95
98877--99281	51	7.9	51	96	1	720	28	26	15	29	1.96
100598--100715	9	14.4	8	71	21	50	6	15	0	77	0.96
100593--100715	16	7.7	16	75	21	89	7	14	0	78	0.96
100606--100744	8	17.9	8	74	21	70	9	13	0	76	1.00
100607--100742	7	18.7	7	72	23	54	9	13	0	77	1.00
100606--100760	16	10.1	15	74	19	108	9	14	0	76	1.01
113725--113763	19	2.1	19	95	0	69	20	38	15	25	1.92
113662--113870	65	3.2	63	84	7	215	30	25	17	27	1.97
113662--113891	64	3.6	64	81	5	223	29	25	17	26	1.98
119666--119721	22	2.7	21	83	10	62	30	23	17	28	1.97
121259--121302	21	2.1	21	86	0	61	9	36	15	38	1.80
122327--122365	19	2.1	19	95	0	69	20	38	15	25	1.92
122313--122473	65	2.5	65	86	3	218	30	26	16	27	1.96
122313--122493	64	2.8	64	83	2	220	29	26	17	27	1.97
124154--124180	2	13.5	2	100	0	54	0	51	0	48	1.00
124918--124950	16	2.0	17	94	5	59	18	12	24	45	1.83
125424--125501	40	2.0	39	84	2	102	52	10	8	28	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
127627--127734	39	2.8	39	91	0	180	48	12	9	29	1.73
131087--131139	26	2.0	25	82	7	61	60	9	3	26	1.45
133255--133292	19	2.0	19	100	0	76	21	31	15	31	1.94
139415--139489	30	2.5	30	86	4	107	37	5	30	26	1.79
139575--139665	4	24.8	4	67	16	54	49	0	0	50	1.00
139575--139665	6	16.5	6	75	17	54	49	0	0	50	1.00
139575--139665	44	2.1	42	91	4	146	49	0	0	50	1.00
143498--143921	159	2.7	158	81	4	482	23	25	11	39	1.88
145131--145232	34	3.0	34	82	5	116	34	6	16	42	1.75
146724--146778	21	2.5	22	80	14	60	69	0	12	18	1.19
149390--149485	10	9.8	9	92	6	50	43	1	1	54	1.14
149411--149492	2	41.0	2	97	0	155	48	0	0	51	1.00
149916--150107	55	3.5	54	82	3	215	32	22	13	31	1.93
149861--150528	109	6.1	110	77	9	455	27	22	17	32	1.96
150066--150526	164	2.8	162	83	5	538	25	23	18	32	1.97
150093--150525	55	8.0	54	81	6	500	25	23	18	33	1.97
154670--154748	19	4.1	19	77	6	79	35	21	10	32	1.87
158225--158277	20	2.7	20	90	0	79	41	16	16	24	1.89
158297--158362	20	3.3	20	75	8	71	39	19	21	19	1.93
159936--159986	21	2.4	21	93	0	84	17	19	39	23	1.92
159948--160008	21	2.9	21	80	7	61	21	21	37	19	1.94
162157--162250	20	4.7	20	85	7	127	50	20	18	11	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
162781--162864	20	4.2	20	76	10	82	19	11	28	40	1.87
172012--172145	66	2.0	66	98	0	259	38	14	21	24	1.92
172325--172366	22	1.9	22	85	0	57	42	21	4	30	1.73
172324--172372	22	2.2	22	77	0	53	46	20	4	28	1.68
172676--172719	5	8.8	5	89	0	52	13	36	40	9	1.76
178209--178262	22	2.5	22	73	11	56	38	20	9	31	1.84
178552--178589	5	7.8	5	88	5	60	18	39	39	2	1.65
180472--180537	27	2.4	27	92	0	114	12	10	34	42	1.77
180274--180989	233	3.0	234	83	9	844	23	11	25	38	1.89
180700--180783	33	2.6	32	90	3	141	10	11	38	39	1.77
180966--181041	38	2.0	38	87	7	109	14	10	36	38	1.81
181572--181617	18	2.7	18	90	6	69	28	28	6	36	1.82
182505--182535	4	7.8	4	100	0	62	77	0	0	22	0.77
182588--182621	7	5.0	7	89	7	52	58	0	0	41	0.98
182589--182621	13	2.4	14	90	5	50	60	0	0	39	0.97
188691--188931	86	2.8	85	81	4	250	44	10	10	34	1.73
188887--188952	21	3.0	22	80	8	73	42	9	16	31	1.80
188982--189031	23	2.2	23	85	0	64	44	12	10	34	1.75
188992--189039	23	2.2	22	85	7	62	43	10	14	31	1.79
188937--189129	84	2.3	84	89	5	291	44	12	11	32	1.78
189658--190077	197	2.1	196	84	5	546	31	15	13	40	1.86
190150--190239	40	2.3	38	81	12	94	52	2	1	44	1.20
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
190175--190247	33	2.2	33	82	7	85	49	1	0	49	1.09
190315--190378	30	2.3	29	84	15	82	45	0	6	48	1.27
197652--197711	25	2.5	24	78	10	61	60	0	3	36	1.14
198610--198653	20	2.2	20	87	0	61	22	2	29	45	1.65
199495--199549	28	2.0	26	93	6	92	29	16	21	32	1.95
218282--218341	26	2.4	25	80	11	68	56	3	0	40	1.16
218273--218336	19	3.6	18	72	12	51	56	4	0	39	1.20
219052--219114	23	2.7	23	77	0	63	47	7	1	42	1.42
219979--220053	29	2.5	31	78	4	91	41	8	24	26	1.82
220452--220516	23	2.8	23	97	0	121	35	9	10	44	1.71

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