genome.fa.s2.2.7.7.80.10.50.1000.1.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: VEPZ01000002.1 Hibiscus syriacus cultivar Beakdansim tig00000003_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2131600

Tables:   1   2   3   4   5   6   7   8   9   10   

This is table  1  of  10  ( 1119 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)
1245--1411	77	2.1	81	78	12	186	42	4	8	44	1.55
2159--2437	36	8.0	36	80	9	283	29	13	15	41	1.86
2181--2431	137	1.8	136	86	5	362	29	15	15	40	1.87
2159--2437	69	4.0	69	78	12	284	29	13	15	41	1.86
12505--12735	36	6.5	36	79	6	166	32	15	13	38	1.86
12572--12749	72	2.5	71	80	6	198	29	16	14	39	1.88
20878--21368	136	3.6	135	90	1	734	24	22	18	34	1.96
22335--22370	15	2.4	15	86	13	56	5	11	0	83	0.80
22336--22380	14	3.1	14	84	9	56	4	11	0	84	0.76
38132--38179	23	2.1	23	92	0	78	39	8	18	33	1.81
38092--38349	87	3.0	87	94	0	435	43	10	12	33	1.76
38215--38263	23	2.1	23	88	0	71	38	6	20	34	1.77
38309--38372	23	2.8	23	92	4	103	45	9	10	34	1.72
38219--38447	110	2.1	107	89	4	343	41	9	13	34	1.77
38474--38916	199	2.2	198	85	4	581	29	16	14	40	1.87
38978--39065	38	2.3	38	82	7	108	51	2	1	45	1.21
39014--39073	31	2.0	29	83	6	75	46	1	0	51	1.10
39807--39886	30	2.8	28	81	12	83	47	1	1	50	1.17
39827--39897	28	2.6	27	76	14	76	47	1	1	49	1.18
38863--42771	784	5.0	789	91	4	6103	38	8	8	44	1.65
40544--40597	26	2.1	26	82	6	65	48	3	1	46	1.30
40551--40632	37	2.2	36	78	17	89	51	0	2	46	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
40586--40655	30	2.3	31	82	9	81	48	1	1	48	1.19
41340--41429	38	2.3	37	83	12	101	47	1	1	50	1.15
42883--42940	30	1.9	31	89	3	91	36	20	8	34	1.84
43209--43340	67	2.0	67	93	0	228	36	12	13	37	1.83
46601--46634	8	4.2	8	92	0	59	38	2	0	58	1.13
46675--47206	266	2.0	266	97	2	1000	36	20	18	24	1.95
47196--47540	54	6.3	54	86	4	351	24	23	20	31	1.98
47220--47532	162	1.9	163	82	8	388	23	24	19	31	1.98
47472--47709	55	4.4	55	84	4	304	28	25	15	30	1.96
47472--47712	108	2.2	110	86	3	337	27	25	15	31	1.96
58217--58249	16	2.1	16	100	0	66	39	30	6	24	1.79
61583--61615	8	4.2	8	84	7	50	39	3	0	57	1.14
61586--61615	15	2.0	15	93	0	51	40	3	0	56	1.16
65305--65352	20	2.3	21	79	10	55	62	0	0	37	0.95
65297--65347	17	2.7	19	82	8	52	66	0	0	33	0.92
67314--67339	2	13.0	2	100	0	52	50	0	0	50	1.00
68774--68804	2	15.5	2	100	0	62	51	0	0	48	1.00
70109--70172	2	32.5	2	96	3	121	50	0	0	50	1.00
77894--77922	2	14.5	2	100	0	58	51	0	0	48	1.00
78874--78950	35	2.1	36	88	7	111	44	6	1	48	1.37
78936--78968	16	2.0	17	88	5	50	48	15	0	36	1.45
78898--78967	35	2.0	36	86	8	99	45	8	0	45	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
88161--88254	21	4.5	21	95	0	161	28	18	26	26	1.98
90023--90236	41	5.2	41	67	6	135	30	16	24	28	1.96
90023--90236	83	2.6	83	87	0	313	30	16	24	28	1.96
90356--90416	23	2.7	23	100	0	122	27	29	21	21	1.98
93128--93161	16	2.1	16	89	10	52	44	2	2	50	1.32
95467--95527	26	2.3	27	83	8	72	70	4	1	22	1.15
96854--97007	44	3.5	44	72	5	139	25	22	20	31	1.98
96923--97284	132	2.7	132	83	4	471	31	18	20	29	1.96
97768--97858	36	2.8	32	76	18	98	38	14	21	25	1.91
97729--98058	66	4.9	67	84	5	355	39	14	19	26	1.91
97796--98086	36	8.4	36	74	13	254	39	14	18	26	1.90
97768--97870	30	3.2	30	70	21	84	35	13	21	29	1.92
97718--97987	132	2.0	133	87	3	393	38	13	19	28	1.89
98269--98369	42	2.4	42	85	4	134	29	23	20	25	1.99
98535--98591	21	2.7	21	91	0	96	26	22	17	33	1.96
98695--98911	43	5.0	43	87	0	308	26	28	14	30	1.95
100953--100986	8	3.8	9	88	11	52	11	11	0	76	1.02
100922--100984	33	1.9	32	84	9	83	11	6	3	79	1.03
100953--100986	17	1.9	17	94	5	59	11	11	0	76	1.02
102123--102162	21	1.9	21	90	10	64	37	12	15	35	1.85
105027--105066	16	2.5	16	88	8	55	75	7	2	15	1.14
105042--105085	21	2.1	21	87	8	63	72	6	0	20	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
111753--111786	16	2.1	17	94	5	61	29	0	0	70	0.87
112747--112897	31	5.1	29	73	13	112	56	1	3	37	1.26
112742--112837	27	3.4	27	78	12	95	58	2	3	36	1.26
113906--113948	2	21.5	2	95	0	77	48	0	2	48	1.14
117513--117776	103	2.5	103	80	4	271	40	9	10	39	1.72
118068--118100	3	11.0	3	100	0	66	33	0	0	66	0.92
118355--118384	13	2.3	13	94	0	51	70	0	0	30	0.88
119910--119970	15	4.2	15	75	6	54	68	0	4	26	1.09
119940--119970	5	6.2	5	92	0	53	77	0	3	19	0.90
120017--120093	29	2.6	29	75	25	81	45	2	3	48	1.34
120026--120100	31	2.4	32	82	13	93	44	1	5	49	1.33
120035--120112	31	2.5	31	85	10	104	42	3	6	47	1.47
120085--120172	40	2.2	40	85	2	124	43	5	3	47	1.43
120969--121789	84	9.9	84	74	6	670	25	19	24	30	1.98
120970--121789	166	4.9	164	81	5	966	25	19	24	30	1.98
121002--121788	331	2.4	330	83	4	1005	25	19	23	30	1.98
125603--125628	4	6.5	4	100	0	52	76	0	0	23	0.78
127882--127908	13	2.1	13	100	0	54	11	14	44	29	1.80
128199--128234	5	7.2	5	93	0	54	75	0	5	19	1.00
128295--128354	24	2.5	23	74	12	59	46	6	5	41	1.52
128309--128586	37	7.6	39	75	14	204	44	7	4	44	1.51
128302--128559	109	2.4	106	79	16	271	45	7	4	42	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
128284--128503	34	6.4	34	76	19	174	44	7	4	44	1.50
136224--136268	23	2.0	23	86	4	65	60	0	8	31	1.28
136911--136970	27	2.3	26	82	5	68	66	5	1	26	1.21
137163--137206	20	2.2	20	96	4	81	65	4	6	22	1.35
138875--139554	105	6.5	105	93	0	1144	23	18	24	32	1.97
150772--150831	27	2.2	27	80	8	68	65	5	1	28	1.23
150962--150988	2	13.5	2	100	0	54	51	0	0	48	1.00
151034--151077	20	2.3	19	96	4	79	65	4	6	22	1.35
152345--152432	36	2.3	39	84	11	121	40	12	17	29	1.86
157135--157186	19	2.7	19	90	0	77	30	15	28	25	1.96
157567--157614	25	1.9	25	91	0	78	45	10	20	22	1.81
160957--160998	21	2.0	21	85	0	57	23	21	19	35	1.96
161433--161482	25	2.0	25	96	0	91	44	12	22	22	1.85
161874--161909	18	2.0	18	94	0	63	19	22	36	22	1.95
168346--168375	2	15.0	2	100	0	60	50	0	0	50	1.00
171926--171972	13	3.4	14	82	11	53	38	4	27	29	1.76
176282--176315	18	1.9	18	88	5	52	29	20	0	50	1.49
178948--179065	29	4.0	27	72	22	78	48	0	0	50	1.12
178959--179013	27	2.0	27	89	0	83	50	1	0	47	1.11
178979--179031	20	2.5	22	79	14	67	50	0	0	49	1.00
178968--179216	63	4.0	60	69	18	159	48	1	1	48	1.18
179195--179239	23	2.0	23	86	0	63	53	2	2	42	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
179272--179343	29	2.5	29	84	13	78	50	2	0	47	1.15
180190--180224	17	2.1	17	88	0	52	40	20	11	28	1.87
180526--180565	20	2.0	20	90	4	64	45	0	2	52	1.14
184251--184372	48	2.5	48	98	0	226	20	13	14	51	1.75
184252--184372	24	5.0	24	78	0	143	20	12	14	52	1.74
188788--188891	24	4.3	24	76	4	66	18	13	16	51	1.76
188825--188896	24	3.0	24	75	4	74	16	11	18	54	1.71
192050--192085	18	1.9	18	88	5	54	22	5	0	72	1.05
201365--201398	8	4.4	8	92	7	61	76	0	23	0	0.79
201365--201398	15	2.2	16	94	5	61	76	0	23	0	0.79

Tables:   1   2   3   4   5   6   7   8   9   10