genome.fa.s1179.2.7.7.80.10.50.1000.1.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: VEPZ01001179.1 Hibiscus syriacus cultivar Beakdansim tig00002345_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  278765

Tables:   1   2   

This is table  1  of  2  ( 166 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)
3926--4137	75	2.8	75	83	4	214	28	16	14	41	1.87
3968--4098	36	3.6	36	67	13	88	26	16	15	41	1.87
3977--4137	76	2.1	76	91	3	263	29	16	13	40	1.86
4142--4258	39	3.0	40	85	1	146	27	17	17	37	1.92
4196--4323	66	1.9	68	87	6	188	25	21	17	35	1.95
4156--4502	36	9.7	36	80	8	309	23	20	16	38	1.93
4280--4449	21	9.2	20	64	27	74	22	21	17	38	1.93
4469--4640	66	2.6	67	81	7	217	27	19	15	37	1.92
5043--5415	91	4.1	91	86	3	509	36	17	20	25	1.94
8383--8457	27	2.7	27	73	21	73	78	4	4	13	1.03
8754--8788	2	17.5	2	100	0	70	51	0	0	48	1.00
8830--8905	36	2.1	38	82	9	95	61	0	7	30	1.24
9115--9155	20	2.0	21	90	4	66	63	0	4	31	1.15
9692--9791	35	2.8	36	90	3	148	29	14	15	42	1.85
18200--18242	15	2.9	15	96	0	77	27	9	32	30	1.88
26195--26306	32	3.4	32	79	12	136	39	36	9	14	1.79
36426--36450	2	12.5	2	100	0	50	52	48	0	0	1.00
45860--45916	30	1.9	30	92	0	96	21	3	14	61	1.47
49508--49556	10	4.9	10	82	0	53	26	28	0	44	1.54
49592--49641	17	3.0	17	88	2	66	38	2	4	56	1.30
55740--55816	36	2.2	34	84	9	93	42	1	1	54	1.16
55781--55813	15	2.1	16	88	5	50	42	0	0	57	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
55934--55971	17	2.2	17	86	9	51	42	2	0	55	1.14
59712--59737	2	13.0	2	100	0	52	50	0	0	50	1.00
61919--62038	20	5.8	20	70	13	73	26	24	19	30	1.98
61934--61992	21	2.7	22	81	5	84	23	25	18	32	1.97
61977--62048	20	3.6	20	79	7	65	30	22	20	26	1.98
62863--62909	24	2.0	24	91	0	76	29	21	14	34	1.93
65266--65535	140	1.9	140	94	0	477	29	12	14	42	1.83
65506--65674	20	8.8	20	77	10	163	34	20	18	26	1.96
65586--65710	34	3.5	34	74	12	115	36	19	20	24	1.95
65534--65716	74	2.5	74	82	5	228	34	21	19	24	1.96
65506--65674	54	2.9	60	73	16	158	34	20	18	26	1.96
65715--65772	20	2.9	20	81	0	62	12	15	25	46	1.80
67270--67332	19	3.2	20	81	6	83	25	23	31	19	1.98
67818--67863	20	2.4	19	89	7	67	39	28	17	15	1.90
68415--68489	21	3.8	20	70	16	57	13	13	42	30	1.82
69822--69862	20	2.0	20	100	0	82	56	19	14	9	1.66
70292--70344	22	2.4	23	81	9	74	16	15	43	24	1.87
70508--70621	20	5.7	20	87	0	147	25	22	25	26	2.00
70508--70620	40	2.8	40	89	0	172	25	23	25	25	2.00
70510--70645	20	6.8	20	84	5	114	24	22	24	28	1.99
70508--70645	60	2.3	60	78	2	152	25	22	23	28	1.99
71157--71211	21	2.6	21	77	8	58	34	21	20	23	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
71199--71427	20	11.4	20	81	5	230	37	25	17	19	1.93
72120--72166	24	2.0	24	87	8	69	25	14	21	38	1.92
74636--74847	33	6.2	33	80	11	214	45	18	22	12	1.83
74650--74871	52	4.3	51	87	4	275	45	18	22	13	1.85
74636--74865	85	2.7	83	89	4	327	45	18	22	13	1.84
74773--74827	14	3.6	14	73	21	56	45	20	23	10	1.82
74842--74957	53	2.2	52	86	3	160	18	23	18	38	1.93
74880--74967	19	4.8	19	82	14	123	13	22	15	47	1.81
75058--75094	14	2.6	14	91	0	65	45	21	0	32	1.52
75658--75719	20	3.0	21	80	4	90	46	16	25	11	1.80
75775--75848	21	3.5	21	80	7	96	14	20	17	47	1.83
75928--75998	33	2.2	33	94	0	124	47	16	23	11	1.79
76373--76564	20	9.6	20	86	4	253	19	19	27	34	1.96
77067--77179	60	1.9	60	85	3	156	38	9	14	38	1.79
82794--82859	13	5.3	13	70	14	50	42	1	6	50	1.36
82811--82858	20	2.3	19	85	7	51	43	0	6	50	1.27
82811--82971	22	7.3	21	69	20	80	42	3	6	47	1.45
82922--82976	2	27.5	2	96	0	101	50	0	0	49	1.00
82981--83100	42	3.0	41	73	20	117	43	8	5	42	1.59
83004--83118	60	1.9	62	85	7	164	43	10	5	40	1.61
83097--83224	33	3.8	33	72	13	127	45	7	5	41	1.56
82998--83153	18	8.2	20	72	24	124	43	10	5	40	1.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
83155--83180	3	8.7	3	100	0	52	65	0	0	34	0.93
83217--83281	9	6.8	9	71	25	53	43	6	3	47	1.43
83215--83281	20	3.3	20	83	8	75	43	5	2	47	1.43
83353--83585	18	13.1	18	65	20	107	44	7	8	39	1.64
83445--83498	15	3.4	15	72	22	56	40	5	9	44	1.60
83329--83574	33	7.5	33	76	14	215	43	7	8	40	1.62
83457--83585	58	2.4	51	77	16	150	44	9	8	37	1.67
83640--83761	61	2.0	61	88	3	183	49	4	9	36	1.58
85804--85848	20	2.1	22	88	8	67	26	4	2	66	1.22
89720--90741	106	9.6	106	94	1	1666	32	25	18	22	1.97
95532--95573	19	2.2	19	86	4	57	42	0	0	57	0.99
96542--96579	13	2.8	13	82	17	51	60	0	2	36	1.11
96558--96604	19	2.5	19	86	10	62	59	0	6	34	1.23
96559--96674	37	3.2	36	69	22	100	58	1	5	34	1.30
96608--96646	14	2.7	14	88	11	53	56	5	2	35	1.35
96543--96686	71	2.0	70	87	11	206	58	2	4	35	1.29
97668--97692	2	12.5	2	100	0	50	52	0	0	48	1.00
98194--98272	37	2.1	37	100	0	158	59	12	11	16	1.61
98423--98472	25	2.0	26	84	7	68	32	6	2	60	1.32
100351--100400	14	3.7	14	84	12	61	48	4	0	48	1.20
100350--100386	2	18.5	2	89	10	58	48	2	0	48	1.15
105482--105531	21	2.4	21	89	0	73	46	34	2	18	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
105474--105498	7	3.6	7	100	0	50	48	36	0	16	1.46
105639--105689	14	3.8	13	81	5	57	49	21	0	29	1.50
105421--105715	158	1.9	158	79	1	340	43	23	6	26	1.77
105691--105742	21	2.5	21	83	0	68	38	36	5	19	1.76
107113--107224	23	4.9	23	80	0	125	36	13	18	31	1.90
107093--107251	11	13.9	11	66	10	59	32	11	20	35	1.88
107093--107224	46	2.9	46	80	1	140	34	12	19	34	1.89
107207--107257	24	2.1	24	85	3	66	21	9	25	43	1.83
108251--108315	30	2.2	31	83	5	80	23	49	7	20	1.74
109763--109796	18	1.9	18	94	5	61	17	23	32	26	1.97
110103--110207	37	2.8	37	85	0	138	40	13	14	32	1.84
110626--110667	9	4.7	9	88	8	59	26	0	0	73	0.83
110637--110674	17	2.3	17	90	4	60	21	2	0	76	0.91
110866--110977	11	9.4	11	67	22	57	26	1	3	67	1.16
110844--111005	86	1.9	86	98	0	315	28	1	4	65	1.22
110844--110964	29	4.2	29	73	14	124	28	1	4	65	1.23
110995--111082	42	2.1	43	82	6	108	28	4	0	67	1.11
110868--111082	21	10.1	21	68	19	76	27	3	2	66	1.19
111016--111083	22	3.2	21	75	20	63	26	2	0	70	1.01
111165--111220	19	2.9	19	75	19	62	25	7	1	66	1.27
112037--112075	20	2.0	20	94	0	69	28	35	33	2	1.71
115442--115491	16	3.6	14	84	15	68	82	6	12	0	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
115439--115499	12	5.2	11	77	14	59	83	4	9	1	0.86
115439--115499	22	2.7	22	80	9	61	83	4	9	1	0.86
117093--117944	106	8.0	106	91	1	1287	34	25	17	22	1.96
118697--118785	37	2.4	37	80	0	97	43	13	7	34	1.73
119188--119243	4	13.5	4	75	14	51	30	0	1	67	1.01
119189--119236	23	2.0	24	84	4	62	31	0	2	66	1.03
119209--119303	26	3.7	26	72	20	67	26	4	1	68	1.14
119526--119586	22	2.8	22	81	16	74	27	1	0	70	0.97
119388--119586	14	13.4	14	66	22	61	29	3	2	64	1.21
119527--119570	13	3.4	13	81	9	54	29	0	0	70	0.88

Tables:   1   2