genome.fa.s9587.2.7.7.80.10.50.1000.23.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: VEPZ01009587.1 Hibiscus syriacus cultivar Beakdansim tig00116965_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6483253

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   

This is table  23  of  29  ( 3457 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)
5004048--5004103	20	2.8	20	77	0	58	26	25	19	28	1.99
5015343--5015380	20	1.9	20	84	10	51	57	15	0	26	1.38
5015869--5015972	42	2.5	42	91	0	163	53	20	1	24	1.55
5017415--5017686	136	2.0	136	94	0	481	23	12	26	37	1.90
5023194--5023545	176	2.0	176	91	1	571	21	15	30	33	1.94
5028478--5028504	13	2.1	13	100	0	54	44	40	7	7	1.60
5029581--5029646	22	3.0	22	79	0	69	10	10	21	57	1.62
5031467--5031513	23	2.0	24	87	4	69	51	10	0	38	1.37
5043285--5043501	54	3.9	54	93	2	353	48	4	6	40	1.51
5045084--5045241	21	7.8	20	72	7	86	38	25	17	18	1.92
5045208--5045457	20	12.5	20	84	3	261	37	24	18	19	1.94
5046140--5046186	24	2.0	24	87	8	69	25	14	21	38	1.92
5048720--5048817	19	5.4	19	84	13	143	15	22	16	45	1.84
5048701--5048817	53	2.2	52	96	1	216	14	23	17	44	1.85
5050881--5050979	19	5.4	19	78	12	109	45	28	17	9	1.78
5050918--5051010	33	2.8	33	90	0	150	47	23	19	9	1.79
5050883--5051015	52	2.6	50	74	12	133	46	24	18	9	1.79
5050897--5051015	19	6.8	18	73	18	101	47	24	19	9	1.78
5051011--5051140	19	7.3	19	75	18	127	8	16	28	46	1.77
5051027--5051084	14	3.7	14	73	22	53	6	18	29	44	1.76
5051011--5051103	33	2.8	34	95	1	161	7	18	27	46	1.76
5051184--5051656	93	5.1	93	98	0	921	45	19	12	22	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5053353--5053466	33	3.5	33	95	0	201	43	21	24	9	1.82
5053360--5053466	14	6.4	18	71	25	85	42	23	24	9	1.83
5053475--5053531	14	3.7	14	75	20	60	8	24	22	43	1.81
5053470--5053539	33	2.1	33	97	0	131	8	24	21	45	1.79
5053516--5053591	21	3.7	21	85	3	109	11	25	18	44	1.83
5053515--5053592	41	1.9	41	94	0	138	12	25	17	43	1.85
5053671--5053741	33	2.2	33	89	0	106	47	16	23	11	1.79
5053921--5053975	22	2.5	22	81	0	74	20	16	40	23	1.91
5054098--5054179	40	2.1	40	81	6	96	23	15	23	37	1.93
5054121--5054313	20	9.6	20	83	3	219	19	20	25	35	1.96
5054120--5054435	60	5.2	60	78	9	200	19	18	25	36	1.95
5054300--5054382	21	4.0	21	73	6	78	25	16	22	34	1.95
5054280--5054378	42	2.4	43	77	11	100	21	18	22	38	1.93
5060572--5060612	21	1.9	22	90	5	66	39	17	19	24	1.92
5062388--5062425	19	2.0	20	94	5	69	50	5	13	31	1.63
5069206--5069244	14	2.8	14	76	0	51	17	10	10	61	1.55
5069430--5069647	74	3.0	74	90	2	336	44	12	12	31	1.79
5073303--5073366	29	2.2	29	97	0	119	43	9	15	31	1.78
5077839--5077953	57	2.0	57	83	6	144	31	16	4	47	1.66
5084436--5084465	15	1.9	16	93	6	53	33	3	16	46	1.64
5091609--5091650	14	2.9	15	80	19	54	52	0	0	47	1.00
5094303--5094333	16	1.9	16	93	0	53	32	6	41	19	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5094957--5095028	17	4.2	17	75	3	72	38	8	16	36	1.79
5095013--5095100	34	2.6	33	81	3	104	42	14	12	30	1.83
5095085--5095128	18	2.5	17	81	3	52	43	11	13	31	1.80
5098337--5098408	17	4.2	17	78	3	81	40	8	15	36	1.77
5099200--5099268	27	2.6	27	93	2	113	13	10	30	46	1.75
5101622--5101659	15	2.5	15	91	0	58	44	18	7	28	1.78
5101931--5102002	17	4.2	17	78	3	72	41	6	13	37	1.72
5101987--5102074	34	2.6	33	81	3	104	42	15	12	29	1.84
5102059--5102103	18	2.6	17	83	13	56	44	15	13	26	1.83
5108689--5108744	22	2.6	21	81	13	69	26	21	19	32	1.97
5109497--5109573	21	3.7	21	76	0	82	24	18	24	32	1.97
5113877--5114072	35	5.8	35	70	22	134	45	4	5	44	1.46
5113923--5114045	64	1.9	63	86	4	176	43	5	6	44	1.53
5113986--5114083	35	2.8	35	75	9	101	48	4	2	44	1.33
5114442--5114514	16	4.6	16	93	1	85	36	9	20	32	1.85
5114454--5114514	16	3.8	16	97	0	104	36	9	19	34	1.85
5114616--5114658	15	2.9	15	89	0	68	34	25	13	25	1.93
5114683--5114722	22	1.9	22	90	10	66	25	20	25	30	1.99
5122613--5122652	21	1.9	21	89	0	62	25	40	25	10	1.86
5127609--5127727	58	2.1	58	98	0	229	22	14	27	35	1.93
5136777--5137411	16	39.7	16	96	0	613	38	27	9	25	1.86
5140760--5140937	94	1.9	94	94	2	313	29	28	8	33	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5143514--5143551	14	2.7	14	84	11	51	21	10	28	39	1.86
5146613--5146704	30	3.0	30	85	1	112	23	18	21	35	1.95
5151029--5151126	30	3.2	30	88	1	133	23	17	24	34	1.96
5152379--5152474	45	2.2	44	80	1	102	35	4	25	35	1.75
5152891--5152919	8	3.6	8	100	0	58	24	10	27	37	1.88
5162608--5162649	20	2.1	20	100	0	84	9	9	14	66	1.44
5162869--5162911	21	2.0	21	100	0	86	23	39	9	27	1.85
5164071--5164140	35	2.0	35	97	2	133	45	14	8	31	1.75
5169716--5169753	20	1.9	20	88	0	58	21	26	10	42	1.85
5174536--5174629	31	3.0	32	76	10	104	26	19	22	31	1.97
5175209--5175253	21	2.1	22	91	4	74	24	24	28	22	1.99
5175306--5175356	21	2.7	18	77	16	57	25	17	11	45	1.83
5176661--5176711	22	2.3	22	86	3	66	35	19	17	27	1.94
5179014--5179078	20	3.2	20	63	16	53	46	7	4	41	1.53
5178981--5179142	40	4.0	41	91	1	256	43	12	5	38	1.66
5182765--5182813	25	2.0	25	88	8	73	32	2	0	65	1.04
5182909--5182978	28	2.5	27	93	6	122	61	0	5	32	1.20
5183578--5183657	32	2.5	32	72	18	78	41	2	1	55	1.21
5200249--5200310	22	2.7	23	80	2	63	27	24	25	22	2.00
5200309--5200631	99	3.2	101	90	6	484	35	24	13	26	1.92
5201172--5201204	16	2.0	17	94	5	59	18	6	39	36	1.75
5202684--5202863	89	2.0	90	95	3	328	28	22	15	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5207079--5207131	23	2.3	23	86	0	79	24	24	30	20	1.99
5207147--5207467	103	3.1	103	96	0	597	37	24	13	25	1.91
5208012--5208054	21	2.0	21	82	8	52	16	23	27	32	1.96
5208084--5208353	145	1.9	145	100	0	540	37	25	1	36	1.65
5209199--5209228	16	1.9	15	93	6	51	53	0	16	30	1.44
5210306--5210333	3	9.3	3	100	0	56	67	0	0	32	0.91
5212049--5212334	42	6.7	43	83	4	312	33	18	23	24	1.96
5212049--5212287	128	1.9	127	85	4	338	34	17	23	24	1.96
5212049--5212327	128	2.2	126	81	8	332	34	17	22	25	1.96
5219171--5219220	2	25.0	2	100	0	100	50	0	0	50	1.00
5224198--5224229	15	2.1	16	94	5	57	6	25	18	50	1.70
5225379--5225418	12	3.2	12	93	6	71	15	55	15	15	1.71
5225372--5225418	13	3.6	13	91	8	78	17	53	17	12	1.73
5226315--5226355	17	2.4	17	100	0	82	29	0	34	36	1.58
5226315--5226366	17	3.0	17	91	2	59	34	0	32	32	1.58
5226516--5226575	23	2.5	25	81	8	79	61	0	0	38	0.96
5230633--5230659	2	13.5	2	100	0	54	48	0	0	51	1.00
5231750--5231780	2	15.5	2	100	0	62	48	0	0	51	1.00
5234563--5234593	16	1.9	16	100	0	62	35	0	25	38	1.56
5238329--5238399	29	2.4	29	95	0	124	28	16	26	28	1.97
5238999--5239401	199	2.0	203	98	1	778	38	23	18	20	1.93
5241769--5241803	2	17.5	2	100	0	70	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5241808--5241845	15	2.5	15	100	0	76	18	10	7	63	1.50
5255374--5255418	12	3.9	12	80	11	58	28	0	22	48	1.50
5258218--5258307	3	30.0	3	93	0	153	63	0	0	36	0.95
5262485--5262641	41	3.8	41	75	13	151	31	16	24	28	1.96
5262487--5262826	82	4.1	83	77	7	300	30	15	23	30	1.95
5266226--5266261	2	18.0	2	100	0	72	50	0	0	50	1.00
5272862--5272912	23	2.4	20	87	9	66	19	35	19	25	1.95
5272853--5272912	20	2.8	20	82	12	68	21	31	21	25	1.98
5281933--5281984	23	2.5	21	77	17	54	28	11	5	53	1.60
5282681--5282802	44	2.8	44	88	3	185	32	26	14	26	1.95

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