genome.fa.s1162.2.7.7.80.10.50.1000.1.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: VEPZ01001162.1 Hibiscus syriacus cultivar Beakdansim tig00002317_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1560963

Tables:   1   2   3   4   5   6   7   8   9   

This is table  1  of  9  ( 971 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)
1131--1170	2	21.0	2	90	10	66	52	0	0	47	1.00
4345--4382	19	2.0	19	89	0	58	34	28	15	21	1.94
8910--8947	19	2.0	19	89	0	58	34	28	15	21	1.94
16589--16663	22	3.3	22	67	29	66	52	8	12	28	1.66
16568--16663	47	2.0	47	97	0	183	52	9	11	27	1.68
17927--17976	18	2.7	18	77	20	50	52	0	16	32	1.44
18221--18292	29	2.4	29	88	2	108	41	9	2	45	1.51
24209--24452	45	5.4	45	84	4	276	36	8	13	41	1.74
24209--24446	91	2.6	90	84	5	302	36	8	12	42	1.73
24627--24766	58	2.4	58	78	7	149	36	9	12	41	1.76
24743--24915	39	4.2	39	76	16	170	41	6	10	41	1.65
31797--31839	18	2.5	17	85	7	61	25	4	2	67	1.22
33534--33562	5	5.8	5	100	0	58	17	0	0	82	0.66
35443--35496	9	6.3	9	80	8	60	83	5	11	0	0.80
35441--35500	16	3.7	16	80	12	77	80	6	13	0	0.91
35443--35500	8	7.1	8	78	18	66	82	5	12	0	0.82
36083--36126	22	2.0	22	91	8	72	38	22	11	27	1.88
37077--37496	36	12.0	36	75	10	352	26	18	14	41	1.88
37120--37152	15	2.1	16	88	5	50	30	21	9	39	1.84
37075--37496	174	2.4	174	93	1	729	26	18	14	41	1.88
37255--37556	138	2.2	137	86	3	419	26	19	13	40	1.88
37454--37628	65	2.6	65	84	6	217	33	21	9	36	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
38276--38419	59	2.4	60	91	3	227	32	29	15	22	1.95
38338--38845	105	4.9	105	93	1	816	32	27	17	22	1.96
41169--41204	2	18.5	2	94	5	65	50	0	0	50	1.00
41866--41898	7	4.7	7	96	0	57	42	33	0	24	1.55
46588--46616	12	2.4	12	100	0	58	37	0	0	62	0.96
48613--48813	55	3.5	55	70	16	179	34	25	16	23	1.95
48668--48881	66	3.4	66	68	16	209	35	25	15	24	1.94
48527--48886	121	3.0	121	93	0	630	35	26	16	22	1.94
48943--49231	85	3.5	85	84	4	336	36	20	18	24	1.95
50805--50868	29	2.2	30	81	15	80	34	0	3	62	1.11
50998--51024	14	1.9	14	100	0	54	22	0	7	70	1.12
50988--51085	34	2.9	34	77	19	98	20	1	5	73	1.08
51028--51102	10	7.8	10	73	13	52	18	2	2	76	1.03
51035--51078	19	2.3	18	82	17	54	15	2	4	77	1.04
50986--51105	47	2.5	47	81	11	122	20	1	4	74	1.07
51035--51091	20	2.9	19	85	12	64	15	3	3	77	1.05
51805--52027	121	1.8	121	94	0	392	22	14	27	35	1.93
51981--52156	65	2.8	64	84	5	234	27	14	22	36	1.92
52171--52527	64	5.6	64	87	2	493	31	12	21	34	1.91
52173--52527	191	1.9	192	88	1	543	30	12	21	34	1.91
57252--57326	36	2.1	37	83	13	97	72	1	8	18	1.17
57277--57398	5	24.4	5	69	24	55	76	2	4	17	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
57234--57398	51	3.2	49	74	13	138	75	1	6	16	1.09
57197--57397	9	21.8	9	67	24	57	74	2	6	16	1.13
57298--57400	20	5.2	21	72	18	78	76	2	2	17	1.03
57342--57404	22	2.9	22	80	15	69	79	0	0	20	0.73
57502--57583	28	2.8	30	80	16	91	64	0	3	31	1.11
57534--57597	25	2.5	26	79	20	82	62	0	1	35	1.05
57624--57658	17	2.1	17	88	0	52	62	11	11	14	1.54
58682--58722	2	21.0	2	85	14	59	48	0	2	48	1.14
64585--64624	19	2.1	19	90	0	62	77	7	12	2	1.07
65865--65978	40	2.8	39	76	6	102	26	30	17	25	1.97
66018--66051	3	11.3	3	100	0	68	35	0	0	64	0.94
69428--69485	29	2.0	29	82	0	71	25	12	3	58	1.49
70117--70164	21	2.3	21	96	0	87	22	14	33	29	1.94
70191--70240	15	2.9	18	71	17	61	14	20	28	38	1.91
71059--71092	12	3.1	11	91	8	52	0	17	52	29	1.45
71175--71329	41	3.8	41	92	0	265	39	22	21	16	1.92
71201--71309	21	5.3	21	63	20	68	37	22	22	17	1.94
74105--74174	21	3.3	21	81	0	86	54	14	5	25	1.62
87553--87615	31	2.0	31	96	0	117	28	3	33	34	1.73
88836--88891	26	2.2	26	87	6	78	48	16	7	28	1.72
88905--88982	29	2.7	28	88	7	111	53	6	7	32	1.55
89837--89862	13	2.0	13	100	0	52	53	15	15	15	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
91416--92979	6	261.8	6	88	4	1467	34	43	0	21	1.59
97020--97087	29	2.3	30	84	2	84	41	10	20	27	1.85
109202--109242	22	1.9	22	85	5	57	39	7	9	43	1.65
119163--119206	21	2.1	21	82	0	52	9	38	15	36	1.80
120304--120462	65	2.5	64	79	5	178	33	23	15	27	1.94
121131--121179	20	2.4	21	93	3	82	18	46	10	24	1.79
125400--125479	40	2.0	40	85	0	106	28	22	25	23	1.99
131770--131808	20	2.0	20	85	10	53	28	15	5	51	1.64
132849--132894	20	2.3	20	96	0	83	32	26	26	15	1.95
132914--133013	21	4.8	20	74	17	69	22	18	35	25	1.96
132960--133013	21	2.6	21	87	0	72	22	16	35	25	1.95
133232--133271	21	1.9	21	89	0	62	50	10	10	30	1.69
134375--134412	20	1.9	20	88	0	58	28	10	7	52	1.64
135748--135847	43	2.4	42	85	8	123	22	18	36	24	1.95
135748--135847	21	4.8	20	77	12	67	22	18	36	24	1.95
135790--135847	21	2.8	21	86	0	80	20	15	39	24	1.91
138274--138304	12	2.6	12	94	0	53	41	9	12	35	1.76
140836--140873	2	19.5	2	89	5	60	52	0	0	47	1.00
141028--141102	31	2.5	31	81	10	86	56	9	2	32	1.45
142684--142731	24	2.0	25	87	4	71	52	0	2	45	1.12
143255--143318	24	2.7	23	73	17	60	25	12	14	48	1.78
147373--147436	21	3.1	21	72	4	67	43	9	12	34	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
151200--151552	194	1.8	192	85	6	498	43	18	13	24	1.87
158913--158999	10	8.0	10	75	16	75	10	11	19	58	1.61
158913--158986	24	3.1	24	86	5	98	8	12	21	58	1.60
158913--158993	34	2.4	33	87	2	117	8	12	20	58	1.61
159624--159731	56	1.9	56	92	3	182	51	2	9	36	1.48
162933--162973	14	2.9	14	81	3	55	60	19	9	9	1.55
162974--162999	13	2.0	13	100	0	52	61	15	7	15	1.55
163264--163315	24	2.1	26	89	7	81	53	17	13	15	1.72
165242--165274	17	2.0	17	88	5	50	63	6	9	21	1.45
165671--165731	22	2.7	23	74	20	58	44	11	8	36	1.71
168443--168895	182	2.5	182	90	2	696	41	14	16	27	1.87
171100--171143	21	2.1	21	91	0	70	40	11	31	15	1.83
171177--171242	33	2.0	33	93	0	114	30	0	46	22	1.52
172439--172465	4	6.8	4	100	0	54	25	0	25	48	1.52
173038--173086	19	2.6	19	96	0	89	34	0	8	57	1.29
173547--173915	180	2.1	179	92	1	614	36	14	17	31	1.90
174752--174784	13	2.6	13	90	4	50	24	33	6	36	1.80
177287--177738	249	1.8	251	88	4	709	37	14	16	31	1.89
180172--180878	200	3.5	197	82	7	698	40	14	15	30	1.86
180887--180943	23	2.4	23	73	2	60	40	12	10	36	1.77
180980--181024	23	2.0	23	86	0	63	37	15	8	37	1.79
181624--182006	157	2.5	157	82	5	445	28	16	7	47	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
193272--193367	31	3.2	31	82	8	126	38	20	16	23	1.93
195327--195356	14	2.1	14	93	0	51	50	6	0	43	1.28
195431--195470	21	1.9	21	94	0	71	25	0	25	50	1.50
197458--197492	12	2.9	12	95	0	61	17	11	31	40	1.85
197483--197509	11	2.5	11	100	0	54	25	18	29	25	1.98
201540--201785	38	6.5	38	89	6	367	44	5	2	47	1.40
202512--203270	86	8.9	86	85	2	929	26	18	19	35	1.95
202518--203270	171	4.4	171	86	0	961	26	18	19	35	1.94
202513--203270	257	3.0	255	86	2	975	26	18	19	35	1.95
204807--204844	20	1.9	20	94	0	67	31	28	15	23	1.96

Tables:   1   2   3   4   5   6   7   8   9