genome.fa.s8840.2.7.7.80.10.50.1000.1.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: VEPZ01008840.1 Hibiscus syriacus cultivar Beakdansim tig00112044_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1122218

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)
10370--10413	12	3.4	12	79	14	52	59	0	0	40	0.98
10370--10415	13	3.5	13	80	11	58	58	0	0	41	0.98
11203--11232	15	2.0	15	100	0	60	0	20	0	80	0.72
11236--11271	17	2.1	17	90	10	56	0	22	8	69	1.15
11681--11717	15	2.5	15	95	4	67	35	0	0	64	0.94
11684--11724	15	2.5	17	80	15	59	39	0	0	60	0.96
11720--11770	3	17.0	3	95	0	93	64	0	1	33	1.05
12458--12576	40	3.0	40	86	0	148	26	19	15	37	1.92
13139--13174	18	2.0	18	89	10	56	27	2	2	66	1.19
20994--21030	14	2.6	14	86	0	56	10	27	10	51	1.70
29176--29245	3	23.0	3	97	2	131	65	0	0	34	0.93
29392--30153	76	10.0	76	95	1	1339	35	21	20	22	1.96
33535--33727	93	2.1	93	93	0	332	36	20	12	29	1.90
38285--38324	21	1.9	21	94	0	71	55	10	12	22	1.67
40378--40427	24	2.1	24	88	3	75	62	2	2	34	1.18
40813--40912	48	2.0	49	81	12	116	51	3	1	45	1.23
41266--41329	11	5.9	11	75	14	62	67	1	3	28	1.15
42576--42633	3	19.0	3	96	3	107	65	0	0	34	0.93
43600--43631	16	1.9	17	93	6	57	50	6	0	43	1.27
44332--44385	26	2.1	26	85	0	72	24	5	9	61	1.48
46010--46050	22	1.9	21	90	5	64	24	0	4	70	1.06
46132--46169	17	2.2	17	95	0	67	10	36	26	26	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
46495--46545	25	2.0	25	85	11	68	45	13	11	29	1.79
47051--47139	32	2.8	31	81	3	106	26	31	26	14	1.95
59086--59342	128	2.1	121	94	5	451	43	19	12	24	1.84
61726--61872	78	1.9	80	86	2	217	50	10	13	25	1.74
73732--73833	29	3.5	29	80	11	127	41	11	10	36	1.77
80771--80830	31	1.9	31	96	0	111	26	31	13	28	1.94
82740--82806	31	2.2	31	83	0	80	32	11	28	26	1.92
84327--84362	2	18.0	2	100	0	72	50	0	0	50	1.00
90696--90745	4	12.8	4	79	12	59	28	2	0	70	0.99
93803--93827	13	1.9	13	100	0	50	80	8	12	0	0.92
94437--94492	22	2.5	22	94	0	94	37	25	10	26	1.88
95182--95344	70	2.3	69	81	10	186	25	18	15	39	1.90
95411--95489	36	2.2	36	86	0	104	30	22	15	31	1.95
95830--96052	64	3.5	65	86	6	294	35	25	19	19	1.95
95895--96249	171	2.1	172	93	1	599	35	25	19	20	1.96
95738--96194	235	2.0	231	89	4	713	35	26	18	20	1.95
96064--96194	65	2.0	66	89	4	203	35	26	18	19	1.94
97909--97951	16	2.6	17	81	3	52	16	6	0	76	0.99
98038--98087	4	12.8	4	79	12	59	28	2	0	70	0.99
109087--109277	91	2.1	91	93	0	319	39	5	14	40	1.70
109095--109306	91	2.3	90	87	4	282	40	5	12	41	1.67
118404--118444	19	2.1	20	90	4	66	63	17	7	12	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
118403--118437	10	3.6	10	84	7	54	68	17	2	11	1.31
119402--119872	42	11.3	42	86	3	621	21	17	23	37	1.94
119402--119847	63	7.1	62	76	13	376	21	17	23	37	1.94
119980--120046	21	3.1	21	81	8	80	37	26	19	16	1.93
119980--120033	23	2.5	21	87	6	72	37	25	20	16	1.93
121410--121458	24	2.0	24	84	7	64	46	4	4	44	1.41
121703--121746	21	2.1	21	86	0	61	31	4	20	43	1.72
122606--122631	2	13.0	2	100	0	52	50	0	0	50	1.00
122846--122915	29	2.3	29	76	9	70	42	4	1	51	1.30
126706--126757	3	17.7	3	88	4	79	61	0	1	36	1.07
127019--127072	20	2.7	20	85	0	72	29	18	22	29	1.97
127138--127191	20	2.7	20	88	0	72	27	16	22	33	1.95
126890--127395	119	4.3	119	91	0	762	32	17	16	34	1.92
128676--128821	51	2.9	50	84	4	175	23	19	19	37	1.94
130308--130401	8	11.9	8	84	13	99	0	19	0	80	0.70
130313--130412	5	20.4	5	80	13	95	0	19	0	81	0.70
130308--130407	34	2.9	35	82	11	125	0	19	0	81	0.70
130305--130410	42	2.4	43	85	6	142	0	18	0	81	0.70
130305--130412	39	2.8	36	83	12	119	0	18	0	81	0.69
136791--136853	16	4.1	15	74	23	51	6	17	0	76	0.99
136937--136989	22	2.4	22	93	0	97	24	11	15	49	1.77
140801--140944	55	2.6	55	96	0	261	28	20	16	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
140965--142218	54	23.7	54	84	4	1529	22	23	20	34	1.97
140965--142218	107	11.8	107	86	3	1521	22	23	20	34	1.97
143966--143995	11	2.6	11	94	5	51	0	10	6	83	0.81
146259--146351	14	6.6	14	72	18	77	3	16	0	80	0.83
146295--146328	17	2.0	17	88	0	50	0	17	0	82	0.67
146259--146348	25	3.3	26	79	13	83	3	15	0	81	0.83
146259--146349	26	3.3	26	72	14	76	3	15	0	81	0.82
146307--146361	23	2.4	23	84	6	76	0	12	0	87	0.55
146308--146350	1	43.0	1	85	0	59	0	6	0	93	0.37
149270--149406	21	6.6	21	92	0	159	15	22	21	40	1.90
159138--159233	3	32.7	3	88	4	133	60	0	1	38	1.04
159129--159185	17	3.3	17	82	9	62	50	0	3	45	1.18
160060--160117	2	29.5	2	96	3	109	50	0	0	50	1.00
160508--160546	19	2.1	19	85	9	53	56	0	0	43	0.99
165896--166103	75	2.8	76	88	2	285	20	23	31	24	1.98
166405--166431	13	2.1	13	100	0	54	22	40	0	37	1.54
174506--174702	75	2.6	76	86	2	254	18	23	33	24	1.97
177109--177617	128	4.0	128	94	1	873	21	24	20	33	1.97
177109--177617	255	2.0	254	94	1	896	21	24	20	33	1.97
178047--178147	34	3.0	34	89	0	166	38	4	4	51	1.45
178668--178740	21	3.5	21	87	7	103	21	24	34	19	1.96
180520--180620	31	3.3	31	78	9	84	59	0	0	39	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
180825--180970	60	2.4	60	84	5	188	24	29	26	19	1.98
181762--181800	17	2.4	17	86	4	53	48	5	2	43	1.38
182417--182456	21	2.0	20	90	5	62	50	15	7	27	1.70
183186--183233	19	2.5	19	100	0	96	43	12	0	43	1.42
190169--190227	19	2.9	20	80	9	75	18	22	32	27	1.97
191443--191486	14	3.1	14	84	15	63	70	0	4	25	1.06
192330--192396	24	2.8	23	86	6	89	1	29	4	64	1.22
192785--192840	3	20.0	3	82	14	66	66	1	0	32	1.03
192785--192841	19	3.0	20	87	5	73	66	1	0	31	1.02
192764--192844	22	3.8	22	80	6	78	61	1	0	37	1.04
192785--192851	22	3.0	22	79	12	75	67	2	0	29	1.06
193070--193671	113	5.4	113	86	4	772	30	18	13	36	1.90
193426--193479	17	3.1	17	70	19	56	22	22	11	44	1.84
193072--193671	222	2.7	222	87	5	827	30	18	13	36	1.90
193716--194014	113	2.7	113	91	0	474	28	18	14	38	1.90
193409--193975	309	1.8	305	84	4	764	29	18	14	36	1.91
194449--194524	22	3.5	22	89	3	118	36	14	14	34	1.87
199388--199517	9	14.3	9	69	14	54	5	18	2	73	1.13
199380--199474	18	5.3	18	73	14	63	6	20	0	73	1.04
199391--199447	16	3.4	16	81	18	55	5	17	0	77	0.95
199392--199474	25	3.2	25	81	11	96	6	18	0	75	0.99
199421--199477	10	5.9	10	76	15	57	7	17	0	75	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
199407--199482	27	2.8	26	75	13	73	6	17	0	76	0.99
203077--203130	14	3.8	14	85	2	63	51	9	14	24	1.71
204740--204779	16	2.5	15	92	8	62	72	2	2	22	1.09
205256--205306	24	2.1	25	88	3	77	50	0	0	49	1.00
205264--205503	109	2.2	108	81	6	272	45	7	8	38	1.64
205297--205503	111	1.9	109	83	5	267	42	9	9	38	1.70
206468--206529	24	2.6	24	92	0	106	1	37	4	56	1.30
206924--206982	3	21.0	3	83	13	72	66	1	0	32	1.02
206903--206986	19	4.3	20	80	7	84	61	1	0	36	1.04
206903--206985	22	3.9	22	81	10	84	61	1	0	37	1.04

Tables:   1   2   3   4   5   6