genome.fa.s9611.2.7.7.80.10.50.1000.20.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: VEPZ01009611.1 Hibiscus syriacus cultivar Beakdansim tig00116997_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6671611

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   25   26   27   

This is table  20  of  27  ( 3214 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)
5101739--5101772	17	2.0	17	100	0	68	64	11	17	5	1.45
5114918--5115004	43	2.0	43	100	0	174	36	9	10	43	1.71
5116453--5116538	40	2.2	40	87	8	124	30	12	10	46	1.76
5121256--5121321	30	2.2	30	94	0	114	33	10	25	30	1.90
5122644--5122683	12	3.2	12	93	6	71	15	55	15	15	1.71
5122643--5122683	13	3.2	13	93	6	75	14	56	14	14	1.69
5125945--5125976	15	2.1	16	94	5	57	6	25	18	50	1.70
5126727--5126760	16	2.1	16	94	0	59	32	26	8	32	1.87
5127154--5127199	13	3.6	13	91	5	76	17	54	17	10	1.70
5127241--5127279	13	3.1	12	85	10	51	66	2	2	28	1.18
5136931--5137550	226	2.7	225	86	3	782	40	12	14	33	1.83
5137548--5137860	130	2.4	125	79	5	297	33	12	11	43	1.77
5137776--5138436	201	3.3	203	80	5	724	33	12	13	40	1.83
5141774--5141866	20	4.6	20	76	12	82	31	11	15	41	1.83
5141792--5141846	21	2.7	19	88	8	74	27	16	16	40	1.89
5141763--5141983	115	1.9	115	88	1	336	29	14	14	40	1.86
5142499--5142562	11	5.6	11	71	20	51	21	21	25	31	1.98
5142498--5142553	12	4.8	12	75	12	55	19	19	26	33	1.96
5142498--5142562	23	2.8	23	92	0	112	21	21	26	30	1.98
5143951--5144002	7	7.4	7	80	0	59	17	1	36	44	1.60
5144017--5144052	14	2.7	13	87	8	54	13	2	38	44	1.59
5144204--5144237	13	2.5	13	85	4	50	35	2	0	61	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5144926--5144971	22	2.1	21	84	11	58	39	0	2	58	1.10
5145194--5145381	43	4.4	43	80	2	164	30	16	21	30	1.95
5145234--5145404	43	4.0	43	79	5	186	28	16	23	31	1.96
5145194--5145381	86	2.2	86	82	7	222	30	16	21	30	1.95
5145861--5145941	21	3.9	21	71	12	67	2	34	17	45	1.62
5153445--5153479	16	2.2	16	89	0	52	57	20	8	14	1.63
5154655--5154748	41	2.3	42	87	5	129	39	18	18	24	1.92
5154693--5154970	41	6.8	41	78	4	211	36	16	17	28	1.93
5154778--5154970	83	2.3	82	79	4	201	34	17	19	28	1.94
5154971--5155056	40	2.1	41	85	6	113	32	18	18	30	1.95
5156462--5156613	41	3.8	40	86	6	182	34	19	11	34	1.88
5156463--5156613	82	1.9	81	84	4	205	34	19	11	34	1.88
5156627--5156758	42	3.2	41	77	17	155	26	18	19	35	1.95
5156648--5156789	42	3.4	41	78	14	157	22	19	20	38	1.94
5156633--5156787	82	1.9	83	87	4	233	23	19	20	37	1.94
5158803--5158837	18	1.9	18	88	11	54	54	31	2	11	1.51
5160136--5160162	2	13.5	2	100	0	54	48	0	0	51	1.00
5168640--5168687	21	2.3	21	86	10	64	58	0	0	41	0.98
5168645--5168687	17	2.5	17	84	3	50	60	0	0	39	0.97
5168694--5168749	21	2.8	21	76	17	66	39	5	0	55	1.23
5169292--5169417	63	2.0	63	100	0	252	23	17	30	28	1.97
5171824--5171882	21	2.8	21	92	0	91	20	35	18	25	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5171950--5172006	20	2.8	20	91	0	96	22	26	21	29	1.99
5171951--5172053	41	2.5	41	83	7	113	21	24	25	29	1.99
5171951--5172044	20	4.6	21	80	5	95	21	24	23	30	1.99
5172412--5172481	34	2.1	32	86	5	95	31	15	30	22	1.95
5176405--5176458	3	18.3	3	92	3	83	38	0	0	61	0.96
5176405--5176471	20	3.3	20	87	2	89	41	0	0	58	0.98
5178610--5178642	15	2.3	15	89	5	50	42	3	3	51	1.32
5186155--5186209	27	2.0	28	96	3	103	21	18	29	30	1.97
5186739--5186790	14	3.8	13	80	10	50	42	30	3	23	1.72
5189561--5189624	17	3.8	17	91	0	110	21	17	28	32	1.96
5189618--5189671	23	2.3	23	84	6	65	24	29	22	24	1.99
5189679--5190021	173	2.0	173	90	4	537	21	19	22	37	1.95
5190338--5190403	23	3.0	23	78	8	66	71	1	1	25	1.04
5190834--5190871	20	2.0	20	89	5	60	18	26	18	36	1.94
5191077--5191137	20	3.0	20	88	6	88	40	19	13	26	1.88
5191087--5191146	19	3.0	19	82	7	66	40	20	13	26	1.89
5191183--5191317	69	2.0	70	97	2	256	51	10	5	31	1.60
5196671--5196717	24	1.9	25	82	4	60	29	19	10	40	1.85
5200098--5200131	2	17.0	2	87	0	50	44	0	0	55	0.99
5204727--5204778	14	3.7	14	77	10	61	11	7	21	59	1.56
5206310--5206432	60	2.1	59	83	9	151	34	14	14	36	1.87
5206872--5206911	12	3.3	12	82	0	53	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5206922--5206949	2	14.0	2	100	0	56	50	0	0	50	1.00
5210057--5210152	50	1.9	50	97	0	183	23	21	29	25	1.99
5210912--5211091	65	2.8	63	79	14	206	30	18	22	28	1.97
5210932--5211091	65	2.5	65	86	5	218	30	18	21	30	1.97
5210932--5211132	65	3.1	64	78	14	216	28	18	22	30	1.97
5212599--5212700	53	1.9	53	97	0	195	22	24	27	25	2.00
5214041--5214078	19	2.0	20	84	5	51	34	2	21	42	1.67
5221806--5221849	21	2.2	20	91	4	70	59	9	6	25	1.53
5222237--5222270	16	2.1	16	88	0	50	50	0	2	47	1.16
5222312--5222345	16	2.0	18	88	11	54	26	2	5	64	1.30
5222816--5223063	130	1.9	130	91	0	406	35	12	14	36	1.85
5224982--5225021	16	2.4	17	83	4	55	22	5	25	47	1.71
5225585--5225671	23	3.7	23	74	17	88	20	26	26	26	1.99
5227073--5227188	29	4.0	29	85	2	151	28	2	16	52	1.57
5227073--5227189	59	2.0	59	86	3	164	29	2	16	52	1.57
5227078--5227209	59	2.2	59	82	4	149	30	3	15	51	1.58
5227156--5227219	31	2.1	31	85	5	87	39	4	17	39	1.70
5233839--5233923	21	4.2	20	86	5	109	57	9	7	25	1.55
5233839--5233923	41	2.1	41	84	8	111	57	9	7	25	1.55
5234441--5234575	29	4.6	29	81	6	146	28	2	14	53	1.56
5234440--5234575	30	4.6	30	80	6	134	28	2	15	52	1.57
5234440--5234575	59	2.3	59	85	2	175	28	2	15	52	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5234533--5234595	30	2.2	28	83	11	74	38	0	14	47	1.44
5234533--5234595	28	2.2	30	85	5	85	38	0	14	47	1.44
5234546--5234603	28	2.1	27	81	9	64	41	1	12	44	1.51
5236457--5236504	2	24.0	2	100	0	96	50	0	0	50	1.00
5245646--5245678	3	11.3	3	87	6	50	39	0	0	60	0.97
5252898--5252958	24	2.5	25	77	22	76	16	26	40	16	1.89
5252905--5252942	17	2.2	17	95	0	67	10	26	44	18	1.82
5255769--5255831	27	2.3	28	81	13	69	55	1	6	36	1.35
5256320--5256966	182	3.6	181	87	2	872	42	12	17	27	1.85
5258116--5258302	104	1.8	103	82	3	243	40	12	16	31	1.85
5258218--5258681	194	2.4	195	78	9	471	37	14	14	33	1.86
5258737--5258781	23	2.0	23	90	0	72	35	22	8	33	1.85
5269133--5269170	20	1.9	20	88	0	58	21	26	10	42	1.85
5269933--5269988	21	2.7	21	82	0	76	25	23	23	28	1.99
5270121--5270172	16	3.1	17	78	13	63	36	0	3	59	1.16
5270518--5270569	16	3.1	17	78	13	63	36	0	3	59	1.16
5270725--5270808	21	4.0	21	92	0	141	30	21	27	20	1.98
5270821--5270873	20	2.7	20	93	0	97	30	20	22	26	1.98
5271216--5271266	22	2.4	22	96	3	95	52	3	0	43	1.19
5278237--5278290	8	6.3	9	75	12	60	64	1	1	31	1.14
5278239--5278288	17	3.1	16	91	2	73	62	2	2	34	1.18
5278249--5278317	21	3.0	22	78	18	61	66	2	0	30	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5278286--5278316	9	3.3	9	95	4	53	74	0	0	25	0.82
5278334--5278373	10	4.0	10	83	0	53	35	2	32	30	1.71
5278573--5278607	14	2.5	14	90	0	52	8	28	48	14	1.73
5281482--5281515	6	5.7	6	89	0	50	17	35	11	35	1.87
5295399--5295470	30	2.4	29	79	4	81	33	11	16	38	1.84
5311463--5311500	8	4.6	8	90	9	51	84	10	5	0	0.77
5316696--5316768	31	2.4	31	92	0	119	45	2	12	39	1.56
5328095--5328312	31	7.0	31	94	1	366	37	22	19	20	1.94
5329201--5329245	21	2.1	21	87	0	63	15	24	28	31	1.96
5330558--5330601	21	2.1	21	91	0	70	27	18	20	34	1.96

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   25   26   27