genome.fa.s9001.2.7.7.80.10.50.1000.1.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: VEPZ01009001.1 Hibiscus syriacus cultivar Beakdansim tig00112383_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4740655

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   

This is table  1  of  24  ( 2777 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)
3845--3893	20	2.5	20	80	3	55	16	18	0	65	1.28
16557--16604	9	5.6	9	85	7	64	77	2	20	0	0.88
16556--16615	18	3.5	17	78	13	70	75	1	21	1	0.99
16568--16610	17	2.8	14	83	16	50	79	2	18	0	0.85
19901--20009	45	2.4	44	82	13	116	36	5	2	55	1.38
20047--20082	2	18.0	2	100	0	72	50	0	0	50	1.00
20104--20155	13	4.2	12	78	14	52	17	7	0	75	1.03
20086--20155	32	2.1	33	85	15	92	18	7	0	74	1.04
20247--20309	9	7.0	9	71	18	51	22	6	0	71	1.08
20248--20320	30	2.4	29	82	10	85	20	6	0	72	1.07
22473--22509	3	12.0	3	88	5	56	62	0	0	37	0.96
22930--23785	241	3.6	240	90	1	1272	24	19	24	32	1.97
33611--33659	20	2.5	20	80	3	55	16	18	0	65	1.28
53804--53841	14	2.7	15	92	8	62	78	0	21	0	0.74
53901--53935	7	4.7	7	86	13	52	82	2	14	0	0.77
53902--53932	16	1.9	16	93	0	53	80	3	16	0	0.83
57302--57345	2	22.0	2	100	0	88	50	0	0	50	1.00
57406--57476	33	2.1	34	85	12	94	18	7	0	74	1.03
57574--57687	4	27.8	4	66	26	53	19	8	1	70	1.23
57572--57634	9	7.0	9	71	18	51	22	4	1	71	1.13
57624--57686	23	2.7	23	74	13	67	17	12	1	68	1.29
59805--59868	3	20.3	3	81	12	67	62	0	0	37	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
59806--59868	10	6.9	10	82	13	75	61	0	0	38	0.96
59805--59868	14	4.8	13	81	14	69	62	0	0	37	0.95
59801--59866	24	2.9	23	84	8	82	62	0	0	37	0.96
59799--59876	10	8.3	10	74	20	62	64	0	0	35	0.94
77568--77607	21	1.9	21	85	10	55	30	20	25	25	1.99
81194--81269	20	3.8	20	91	0	125	26	21	17	35	1.95
82980--83017	20	1.9	20	94	0	67	39	10	26	23	1.87
86828--86865	16	2.4	16	83	12	51	18	5	10	65	1.41
91783--91862	36	2.3	35	95	2	142	36	3	16	43	1.66
97269--97323	3	18.3	3	100	0	110	67	0	0	32	0.91
97475--98273	134	6.1	133	81	7	875	27	17	25	29	1.97
105206--105233	13	2.2	13	100	0	56	57	0	35	7	1.26
110605--110644	21	1.9	21	100	0	80	32	15	5	47	1.66
110631--110739	33	3.4	32	88	6	157	33	8	13	44	1.74
110723--110777	13	4.2	13	75	13	58	34	3	12	49	1.59
110973--111029	21	2.7	21	91	0	96	19	26	26	28	1.99
111174--111229	15	3.6	15	83	9	76	28	12	12	46	1.78
111184--111226	16	2.6	17	89	7	63	27	9	9	53	1.63
124449--124482	17	2.0	17	94	0	59	20	17	5	55	1.62
126482--126560	8	9.8	8	73	13	72	79	0	17	2	0.84
126516--126575	12	4.8	12	72	13	50	75	0	23	1	0.90
126482--126560	24	3.2	24	81	13	90	79	0	17	2	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
126511--126583	38	2.0	35	89	7	110	76	0	19	4	0.94
138257--138289	12	2.6	13	85	4	50	9	15	0	75	1.03
139304--139353	24	2.1	24	85	7	66	60	14	2	24	1.45
140003--140044	18	2.3	18	87	0	57	42	35	7	14	1.73
140012--140047	18	2.0	18	100	0	72	44	27	5	22	1.75
142672--142724	20	2.6	21	79	11	56	71	0	15	13	1.14
149577--149626	24	2.1	24	85	7	66	60	14	2	24	1.45
164915--164966	3	17.3	3	100	0	104	0	0	32	67	0.91
165033--165321	37	7.8	37	79	12	290	43	4	8	43	1.55
165033--165281	73	3.4	73	83	8	265	42	4	8	43	1.56
166280--166330	17	3.1	16	75	13	50	23	9	3	62	1.42
166334--166359	9	2.9	9	100	0	52	11	19	0	69	1.18
166359--166385	11	2.5	11	100	0	54	14	0	0	85	0.61
172037--172795	85	8.9	85	87	1	995	37	20	16	25	1.93
173245--173308	4	16.0	4	81	16	71	21	1	0	76	0.87
173245--173297	19	2.8	19	88	5	72	18	1	0	79	0.83
173245--173306	23	2.9	22	79	16	67	20	1	0	77	0.85
173340--173475	37	3.8	38	83	9	155	43	2	8	45	1.48
173340--173697	36	10.3	36	77	16	339	44	3	6	45	1.47
173438--173495	26	2.3	26	88	8	84	43	0	5	51	1.24
173406--173534	60	2.1	59	86	11	181	44	3	3	47	1.39
173464--173712	109	2.3	108	84	11	316	44	3	5	46	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
173494--173674	74	2.5	74	85	8	241	45	4	6	43	1.50
173653--173735	39	2.1	39	90	4	130	44	2	2	50	1.28
173463--173746	109	2.6	107	77	13	287	43	3	4	48	1.41
173733--173787	24	2.3	23	81	9	65	23	3	1	70	1.12
174696--174720	5	5.0	5	100	0	50	20	0	0	80	0.72
176309--176347	5	7.4	5	83	11	51	23	2	2	71	1.10
177001--177029	15	1.9	15	100	0	58	41	3	0	55	1.17
179332--179379	19	2.5	19	86	6	62	33	6	20	39	1.78
179343--179380	19	2.0	19	94	0	67	31	5	18	44	1.72
179833--179894	23	2.7	23	77	7	63	17	22	9	50	1.75
179841--179894	22	2.4	23	81	3	65	14	24	9	51	1.71
181980--182169	99	1.9	99	90	0	299	33	17	18	31	1.94
183232--183293	33	1.9	32	83	3	79	24	19	24	32	1.98
184190--184221	15	2.1	16	94	5	57	34	25	0	40	1.56
184347--184938	61	9.6	61	81	3	600	27	22	15	34	1.94
185106--185264	36	4.4	36	91	2	257	40	18	18	22	1.91
185106--185264	73	2.2	72	92	2	257	40	18	18	22	1.91
185271--185445	47	3.6	47	74	11	161	30	21	17	30	1.96
185316--186219	55	17.5	55	69	15	410	28	19	19	32	1.96
185262--186226	102	9.4	102	82	4	1057	28	19	18	32	1.96
185266--186224	305	3.1	303	81	5	1106	28	19	18	32	1.96
185989--186161	47	3.6	47	77	13	197	27	21	19	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
188100--188128	15	1.9	15	100	0	58	41	3	0	55	1.17
188733--188976	115	2.1	116	86	2	339	34	18	23	23	1.96
190699--190743	23	2.0	23	90	0	72	31	6	22	40	1.80
201986--202014	11	2.6	11	100	0	58	31	27	0	41	1.56
201986--202038	11	5.0	11	81	9	56	30	24	1	43	1.65
213366--213413	3	16.0	3	100	0	96	66	0	0	33	0.92
213571--213596	2	13.0	2	100	0	52	50	0	0	50	1.00
214545--214570	3	8.7	3	100	0	52	30	0	0	69	0.89
221460--221529	3	23.7	3	88	5	99	32	0	1	65	1.01
223137--223177	2	20.5	2	100	0	82	51	0	0	48	1.00
225629--225668	21	1.9	21	84	0	53	12	25	37	25	1.91
225921--225979	3	19.7	3	86	6	84	64	0	0	35	0.94
226168--226520	137	2.6	137	86	0	454	25	15	29	29	1.96
230041--230088	22	2.2	22	85	7	62	81	14	4	0	0.84
234343--234385	23	1.9	22	90	4	68	13	11	4	69	1.33
244559--244661	37	2.8	37	81	0	125	41	14	13	30	1.84
245511--245566	4	14.2	4	80	10	62	19	7	0	73	1.06
245511--245589	12	6.7	11	78	7	68	18	8	0	72	1.10
250032--250089	19	3.2	19	83	14	77	82	3	13	0	0.79
250032--250089	8	7.2	8	83	12	66	82	3	13	0	0.79
250047--250110	27	2.4	27	84	10	78	82	4	10	1	0.88
250032--250097	20	3.2	20	80	18	66	81	4	13	0	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
250937--250971	18	1.9	18	94	0	61	31	11	5	51	1.61
251675--252618	105	9.0	106	86	3	1254	34	24	18	23	1.96
251675--252618	211	4.5	210	86	3	1266	34	24	18	23	1.96
253314--253414	35	2.8	36	83	5	132	41	15	10	31	1.82
254249--254287	13	2.8	14	88	7	53	23	2	0	74	0.94
254262--254340	12	6.2	12	73	15	54	16	8	0	74	1.05
254258--254324	29	2.3	31	80	12	79	16	8	0	74	1.05
255467--255507	21	1.9	21	85	5	55	36	2	7	53	1.42
260952--260981	16	1.9	15	93	6	51	43	0	0	56	0.99
279284--279328	14	2.9	16	87	12	67	48	11	22	17	1.78

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24