genome.fa.s9592.2.7.7.80.10.50.1000.26.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: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7920512

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   28   29   30   31   32   
          33   34   35   36   37   38   39   

This is table  26  of  39  ( 4673 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)
5073527--5073561	2	17.5	2	100	0	70	51	0	0	48	1.00
5079275--5079443	59	2.8	59	78	9	182	31	18	4	44	1.70
5079556--5079723	60	2.8	58	74	12	135	40	6	17	35	1.76
5079891--5079943	21	2.5	22	82	14	67	56	1	0	41	1.10
5079960--5079989	2	15.0	2	100	0	60	50	0	0	50	1.00
5082549--5082598	20	2.5	20	100	0	100	42	12	14	32	1.82
5085829--5085892	27	2.3	28	86	2	85	46	23	7	21	1.77
5086933--5087056	32	3.9	32	76	2	106	23	25	25	25	2.00
5087647--5087683	17	2.1	18	90	5	58	54	0	2	43	1.14
5088552--5088594	14	3.2	14	77	12	54	60	0	0	39	0.97
5089498--5089574	29	2.7	29	93	4	129	33	33	1	31	1.66
5093741--5093890	19	7.5	19	67	21	76	50	0	2	48	1.12
5093801--5093862	25	2.4	25	84	7	72	46	0	1	51	1.10
5093837--5093866	14	2.1	14	93	0	51	50	0	3	46	1.18
5093857--5093901	14	3.2	14	78	9	56	57	0	0	42	0.98
5093832--5093907	19	4.0	20	81	11	72	52	0	1	46	1.08
5093851--5093908	27	2.2	26	87	9	82	53	0	0	46	1.00
5094036--5094076	17	2.4	17	91	0	64	46	0	4	48	1.23
5094814--5094870	3	19.3	3	96	3	107	33	0	0	66	0.92
5095174--5095216	22	2.0	21	86	4	59	18	11	11	58	1.63
5095681--5095754	31	2.4	31	86	2	96	25	29	13	31	1.94
5103323--5103370	25	1.9	25	100	0	96	27	16	6	50	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5104094--5104123	13	2.3	13	100	0	60	23	23	13	40	1.90
5120521--5120564	18	2.4	18	84	0	61	40	13	34	11	1.81
5125213--5125268	24	2.3	24	79	11	62	42	3	1	51	1.29
5125267--5125311	22	2.0	22	95	0	81	42	0	6	51	1.28
5132182--5132245	32	2.0	32	93	0	110	29	20	20	29	1.97
5141656--5141701	2	24.0	2	86	8	69	50	2	0	47	1.13
5141848--5141893	18	2.6	18	85	0	65	28	28	19	23	1.98
5148619--5148654	17	2.1	17	89	0	54	75	8	13	2	1.15
5148822--5148874	21	2.5	21	90	0	79	22	22	18	35	1.95
5148864--5148911	20	2.4	20	100	0	96	37	16	20	25	1.93
5148903--5148990	20	4.4	20	89	0	131	27	26	20	26	1.99
5148883--5148974	40	2.3	40	86	3	123	31	22	20	25	1.98
5148903--5148990	40	2.2	40	93	0	149	27	26	20	26	1.99
5152127--5152154	6	4.7	6	100	0	56	64	17	0	17	1.30
5152332--5152482	20	7.8	20	82	8	170	33	21	19	25	1.97
5152525--5152563	20	2.0	20	100	0	78	10	20	23	46	1.81
5152689--5152730	14	3.0	14	79	6	50	54	14	0	30	1.40
5152677--5152724	14	3.3	14	77	8	51	47	14	0	37	1.44
5154125--5154211	21	4.1	21	74	0	84	22	19	36	20	1.95
5154689--5154755	20	3.3	20	91	4	100	37	26	14	20	1.92
5154799--5154886	20	4.4	20	97	0	158	17	20	26	36	1.94
5155034--5155083	18	2.8	18	100	0	100	42	6	20	32	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5156774--5156860	20	4.4	20	79	4	88	50	20	14	13	1.77
5157469--5157575	20	5.3	20	86	0	151	25	16	27	30	1.97
5157468--5157635	60	2.8	61	80	8	166	27	17	25	29	1.97
5162364--5162475	35	3.2	35	87	2	154	41	20	0	37	1.59
5163542--5163653	35	3.2	34	88	5	161	33	0	22	42	1.60
5171716--5171746	2	16.0	2	93	6	55	48	0	0	51	1.00
5172164--5172223	22	2.7	22	86	0	84	43	18	16	21	1.88
5172251--5172292	21	2.0	21	85	4	57	28	30	21	19	1.97
5174039--5174103	22	2.9	22	79	4	76	44	18	16	20	1.87
5174833--5174927	21	4.5	21	89	0	136	29	27	17	25	1.98
5180507--5180584	21	3.7	21	89	0	120	24	28	21	25	1.99
5185081--5185106	4	6.5	4	100	0	52	76	0	0	23	0.78
5189072--5189130	31	1.9	31	89	6	93	33	22	16	27	1.95
5191215--5191241	3	9.0	3	100	0	54	0	33	0	66	0.92
5192339--5192398	22	2.9	21	85	7	86	30	23	25	21	1.99
5192624--5192687	3	21.7	3	96	3	121	34	0	0	65	0.93
5193114--5193163	19	2.6	19	93	0	82	38	18	4	40	1.69
5195271--5195305	18	1.9	18	88	11	54	37	0	25	37	1.57
5196279--5196331	18	2.9	18	91	0	88	18	20	32	28	1.97
5200789--5200870	22	3.8	22	87	3	114	28	20	28	23	1.99
5200789--5200870	44	1.9	42	90	5	128	28	20	28	23	1.99
5201537--5201619	19	4.4	19	92	0	130	34	13	6	45	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5201542--5201619	38	2.1	38	97	0	147	35	14	5	44	1.67
5203078--5203583	253	2.0	250	96	3	942	36	14	11	37	1.82
5207031--5207107	16	4.8	16	70	12	68	32	18	24	24	1.97
5207631--5207693	23	2.7	23	92	0	99	38	20	4	36	1.74
5208053--5208125	23	3.2	22	92	3	101	42	20	2	34	1.67
5207279--5208335	432	2.5	431	96	1	1953	39	12	7	41	1.71
5208063--5208125	23	2.7	23	97	0	117	41	19	3	36	1.67
5208546--5208623	37	2.1	37	90	2	120	17	15	17	48	1.81
5208543--5208627	38	2.2	38	87	4	127	18	14	18	48	1.81
5208881--5208917	18	2.1	18	89	0	56	51	10	5	32	1.60
5209339--5209400	23	2.4	26	74	20	67	40	16	4	38	1.69
5209348--5209401	23	2.3	23	93	0	90	40	16	5	37	1.72
5211870--5212485	179	3.4	182	94	2	1043	33	16	14	36	1.89
5213929--5214002	3	25.0	3	73	2	60	22	35	6	35	1.81
5213933--5214014	12	6.9	12	81	2	85	20	35	8	35	1.83
5213957--5214017	18	3.4	18	79	2	70	18	36	9	36	1.84
5213933--5214017	6	14.3	6	77	2	55	20	35	8	36	1.82
5215256--5217282	195	10.5	197	93	5	3515	32	16	15	35	1.91
5215256--5217282	388	5.2	393	93	5	3534	32	16	15	35	1.91
5217120--5217153	17	2.1	16	89	10	52	23	17	23	35	1.95
5217402--5217446	19	2.4	18	88	7	63	55	11	4	28	1.54
5218254--5218467	108	2.0	106	94	5	378	29	23	16	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5221635--5221677	20	2.3	18	85	14	61	20	16	11	51	1.75
5221916--5222356	225	2.0	223	91	3	726	39	7	8	45	1.62
5223202--5223231	15	2.1	14	93	6	51	36	0	0	63	0.95
5223228--5223339	26	4.2	26	94	3	179	32	12	3	51	1.56
5223237--5223348	15	8.1	15	65	23	75	34	12	4	48	1.61
5227838--5227867	16	1.9	15	93	6	51	33	10	13	43	1.77
5237144--5237228	43	2.0	43	88	0	125	27	18	20	34	1.96
5245446--5245503	28	2.1	28	100	0	116	10	17	10	62	1.54
5247662--5247700	17	2.3	17	86	8	53	46	0	0	53	1.00
5247724--5248068	36	9.7	36	80	11	308	43	3	7	46	1.47
5247918--5248122	66	3.1	65	82	12	229	43	2	6	46	1.45
5248140--5248203	28	2.3	28	78	5	67	31	1	1	65	1.11
5250285--5250359	15	5.3	15	67	12	59	41	20	2	36	1.66
5250282--5250367	28	3.1	28	98	0	163	39	18	3	38	1.68
5250974--5251044	27	2.7	26	81	12	74	52	2	0	45	1.15
5251542--5251583	13	3.0	15	83	16	54	64	2	0	33	1.07
5251541--5251586	14	3.4	13	82	17	58	65	2	0	32	1.05
5256597--5256644	25	1.9	25	95	0	87	35	8	0	56	1.30
5256684--5256732	2	24.5	2	100	0	98	48	0	0	51	1.00
5258157--5258215	26	2.3	25	76	2	64	38	3	0	57	1.15
5259047--5259091	17	2.6	18	86	10	58	66	2	0	31	1.04
5261564--5261614	24	2.2	23	83	13	61	39	0	5	54	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5266886--5266928	20	2.2	20	86	0	59	53	0	0	46	1.00
5266915--5266959	22	2.0	23	87	8	67	57	0	0	42	0.98
5270154--5270697	139	3.9	138	90	1	840	24	21	21	32	1.98
5270154--5270697	138	3.9	138	90	1	847	24	21	21	32	1.98
5270154--5270701	277	2.0	277	91	1	902	24	21	21	32	1.98
5270857--5270919	23	2.7	23	92	0	99	50	0	15	33	1.45
5271207--5271271	22	3.0	22	65	15	53	44	4	7	43	1.53
5271667--5271757	21	4.3	21	80	8	96	30	21	28	18	1.97
5273527--5273584	17	3.2	19	67	20	52	60	0	0	39	0.97
5273522--5273626	34	3.2	31	79	12	104	60	1	0	37	1.07

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   28   29   30   31   32   
          33   34   35   36   37   38   39