genome.fa.s4234.2.7.7.80.10.50.1000.1.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: VEPZ01004234.1 Hibiscus syriacus cultivar Beakdansim tig00009277_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  230063

Tables:   1   

This is table  1  of  1  ( 115 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)
572--640	31	2.3	30	82	9	95	60	0	7	31	1.24
2832--3048	113	1.9	111	89	3	337	29	19	17	33	1.94
11931--12048	60	2.0	60	83	6	150	37	16	0	45	1.53
12645--12752	44	2.5	44	93	1	191	37	15	2	43	1.62
17582--17606	2	12.5	2	100	0	50	48	0	0	52	1.00
18623--18653	11	2.8	11	95	0	53	19	70	6	3	1.22
21520--21551	16	2.0	16	93	0	55	40	21	0	37	1.54
24701--24927	124	1.8	123	86	0	328	25	16	14	43	1.86
24843--25367	113	4.7	113	89	0	759	27	18	14	39	1.90
24723--25374	338	1.9	342	85	5	897	26	17	14	40	1.89
25706--25899	95	2.0	95	97	0	370	32	14	14	37	1.87
26220--26454	92	2.7	87	86	9	302	39	22	12	25	1.90
27681--27737	1	57.0	1	75	0	51	0	12	0	87	0.54
27684--27742	11	5.2	11	85	6	82	0	15	0	84	0.62
27680--27742	18	3.6	17	83	12	83	0	15	0	84	0.63
27681--27739	22	2.7	21	89	7	91	0	13	0	86	0.57
35068--35099	15	2.1	15	94	0	55	46	9	18	25	1.79
38378--38434	22	2.5	22	80	11	62	61	1	3	33	1.23
40423--40467	3	15.0	3	86	9	65	64	0	0	35	0.94
41101--41146	9	4.7	10	79	12	51	52	4	0	43	1.21
46655--46684	11	2.7	11	100	0	60	50	10	30	10	1.69
48731--48783	21	2.5	21	90	0	79	22	26	16	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
48773--48845	20	3.7	20	94	0	128	38	17	20	23	1.93
49390--49441	20	2.7	20	84	3	70	46	23	21	9	1.80
49394--49441	19	2.5	20	82	3	62	45	25	20	8	1.79
49437--49596	19	8.1	19	71	20	114	11	25	18	45	1.83
49457--49588	47	2.6	51	85	8	173	10	25	20	43	1.84
49480--49547	14	4.5	14	77	16	73	10	25	20	44	1.83
49999--50035	12	3.0	12	88	4	56	18	45	24	10	1.81
51656--51709	21	2.6	21	100	0	108	37	5	18	38	1.74
53323--53358	14	2.6	14	95	0	63	33	0	22	44	1.53
53483--53533	26	2.0	25	88	3	75	41	23	15	19	1.90
53529--53679	19	8.7	19	62	21	71	12	23	19	45	1.84
53533--53659	33	3.8	33	93	0	209	12	22	18	46	1.82
53643--53725	20	4.2	20	69	21	66	22	16	22	37	1.94
56196--56249	24	2.2	24	93	0	90	40	20	18	20	1.91
56196--56263	24	2.8	24	84	0	64	38	20	17	23	1.93
57111--57314	21	10.2	20	79	16	210	37	16	21	24	1.93
57122--57271	41	3.7	41	95	1	257	38	16	20	24	1.93
57255--57285	15	2.1	15	100	0	62	32	19	22	25	1.97
59536--59574	19	2.1	19	100	0	78	25	15	33	25	1.95
68049--68084	18	2.0	18	100	0	72	16	11	44	27	1.82
72459--72529	36	2.0	36	97	2	135	32	8	14	45	1.74
74372--74410	14	2.7	14	88	4	51	64	0	0	35	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
74184--74716	261	2.0	268	94	3	954	43	13	17	26	1.86
76341--76400	23	2.6	23	81	0	66	56	13	13	16	1.67
88437--88468	15	2.1	15	94	0	55	6	25	15	53	1.65
93785--93841	30	1.9	30	88	0	87	42	10	3	43	1.56
98584--98641	20	2.6	22	89	10	84	24	22	22	31	1.99
98629--98769	64	2.2	63	83	7	178	27	24	16	31	1.96
99923--99955	14	2.4	14	100	0	66	27	27	24	21	1.99
100445--100491	23	2.0	24	83	4	60	44	6	4	44	1.49
101180--101214	18	1.9	18	94	0	61	28	31	22	17	1.96
101565--101602	20	1.9	20	94	0	67	39	18	5	36	1.73
101802--101845	2	22.0	2	100	0	88	50	0	0	50	1.00
104028--104100	31	2.4	31	85	0	101	36	8	23	31	1.84
104943--105274	41	8.1	41	76	8	208	28	17	18	35	1.93
104939--105282	82	4.2	81	77	7	257	28	18	18	35	1.94
105043--105275	125	1.9	122	85	2	322	27	16	18	37	1.92
107483--107712	43	5.6	43	76	11	212	26	20	19	33	1.96
107547--107618	34	2.1	34	87	5	101	30	19	16	33	1.94
107504--107649	77	1.9	77	91	0	238	28	20	18	32	1.96
110490--110532	20	2.2	20	91	0	68	34	20	11	32	1.89
119754--119796	20	2.2	20	91	0	68	34	20	11	32	1.89
120295--120352	30	1.9	30	89	3	89	25	29	13	31	1.94
120308--120371	30	2.1	30	91	0	101	23	31	14	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
120573--120648	12	5.8	12	75	17	71	46	10	1	42	1.46
120574--120654	27	3.0	27	98	0	153	45	11	2	40	1.53
130128--130157	15	2.0	15	93	0	51	33	10	0	56	1.32
132684--132717	18	1.9	17	94	5	59	32	0	17	50	1.47
142798--142858	29	2.1	30	87	3	88	45	18	21	14	1.84
146319--146377	28	2.1	28	81	3	66	37	6	11	44	1.68
147349--147419	34	2.1	34	86	0	97	40	26	8	23	1.83
154516--155057	271	2.0	271	98	0	1057	26	13	23	35	1.93
156180--156209	2	15.0	2	92	0	51	46	0	3	50	1.18
163428--163464	17	2.1	17	90	5	56	29	2	0	67	1.04
163925--164011	31	2.7	33	82	7	81	44	5	6	42	1.55
163940--164076	64	2.1	64	80	5	152	43	5	10	40	1.63
164089--164175	31	2.9	31	88	5	126	42	1	6	49	1.37
164181--164231	15	3.2	15	75	20	50	27	0	5	66	1.14
164348--164695	189	1.8	190	85	3	495	37	24	22	15	1.93
166767--166826	30	2.0	30	96	0	111	48	11	6	33	1.66
167266--167298	14	2.3	15	85	15	52	72	0	0	27	0.85
170061--170215	60	2.6	60	77	2	159	47	5	14	32	1.69
171321--171456	67	2.0	67	98	0	263	47	13	7	30	1.71
177949--177993	24	1.9	24	82	13	58	15	17	11	55	1.68
178578--178626	3	16.3	3	91	0	80	65	2	2	30	1.15
178831--179139	122	2.4	126	84	10	371	23	19	30	27	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
179036--179148	40	2.8	39	79	14	122	20	20	33	25	1.97
179290--179369	28	2.8	28	94	1	133	38	17	23	20	1.93
179266--179435	92	1.8	93	82	6	220	41	15	20	22	1.89
179781--179824	15	2.9	15	93	0	70	43	4	20	31	1.72
179972--180170	29	6.8	28	72	15	136	45	13	11	29	1.78
179946--180083	64	2.2	62	87	5	197	44	11	13	30	1.80
180784--180877	34	2.7	35	88	4	147	38	11	17	32	1.86
181228--181313	4	22.0	4	80	4	104	27	1	23	47	1.59
181235--181319	20	4.2	20	86	0	116	28	1	22	48	1.58
182485--182605	12	10.5	11	69	12	66	3	14	10	71	1.27
182499--182546	11	4.4	11	84	7	62	6	10	12	70	1.32
182502--182546	21	2.1	22	91	4	74	6	11	13	68	1.37
182537--182581	21	2.2	22	88	11	69	2	20	8	68	1.27
183203--183284	26	3.4	26	69	19	86	40	9	25	24	1.86
183191--183284	46	2.1	45	87	2	134	38	9	25	26	1.87
188791--188835	24	1.9	24	82	13	58	15	17	11	55	1.68
189428--189476	3	16.3	3	91	0	71	65	4	2	28	1.22
190100--190128	14	2.0	15	93	6	51	27	0	3	68	1.05
201582--202851	106	12.0	106	92	1	1982	22	18	25	34	1.96
204457--204509	15	3.3	15	85	15	70	0	15	5	79	0.91
204449--204490	21	2.0	21	85	4	57	2	11	4	80	0.95
208930--208964	5	7.0	5	100	0	70	80	0	0	20	0.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
209068--209121	26	2.2	26	86	6	76	74	0	0	25	0.83
209050--209121	17	4.5	16	76	16	69	72	1	1	25	1.01
209425--209457	2	16.5	2	93	0	57	51	3	0	45	1.16
215228--215257	6	4.8	6	95	4	51	63	0	0	36	0.95
227072--227130	29	2.0	29	96	0	109	23	18	10	47	1.79

Tables:   1

The End!