genome.fa.s7960.2.7.7.80.10.50.1000.23.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: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7905731

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  23  of  39  ( 4646 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)
4607342--4609580	8	281.4	8	95	2	1527	36	38	0	24	1.56
4607342--4609580	12	187.6	12	95	2	1527	36	38	0	24	1.56
4608048--4608097	4	12.8	4	89	4	75	46	30	0	24	1.53
4608114--4609284	4	294.8	4	96	2	2195	24	50	0	25	1.50
4609277--4609580	4	76.0	4	99	0	592	49	25	0	25	1.50
4611351--4611551	42	4.8	42	79	8	160	28	23	16	31	1.96
4611372--4611551	84	2.2	82	82	4	218	28	23	16	31	1.96
4611400--4611545	42	3.5	40	81	7	168	29	22	17	30	1.96
4611483--4611580	40	2.5	40	83	5	110	28	19	23	28	1.98
4611838--4611874	12	3.0	13	84	11	51	70	0	0	29	0.88
4616849--4616900	21	2.5	21	81	3	61	38	19	25	17	1.93
4616889--4616982	20	4.7	20	76	7	82	34	22	19	24	1.97
4617537--4617581	19	2.4	19	80	0	54	53	24	13	8	1.68
4617576--4617647	19	3.7	19	88	3	108	11	18	22	48	1.79
4617582--4617658	39	2.0	39	87	5	111	10	18	24	46	1.80
4617623--4617694	33	2.2	33	82	0	90	12	20	25	41	1.87
4617671--4617707	14	2.6	14	100	0	74	8	27	24	40	1.83
4617638--4617731	47	2.0	48	91	2	154	11	25	24	38	1.89
4617699--4617756	20	2.9	20	80	10	64	13	24	18	43	1.87
4617826--4617880	25	2.2	26	80	9	69	18	7	20	54	1.66
4621240--4621275	14	2.6	14	95	0	63	30	0	25	44	1.54
4623785--4623809	12	2.1	12	100	0	50	0	28	0	72	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4625094--4625131	20	1.9	20	94	0	67	39	23	21	15	1.92
4625150--4625236	19	4.8	19	87	9	130	13	20	17	48	1.81
4625150--4625265	33	3.4	33	82	11	142	13	21	19	44	1.85
4625352--4625388	14	2.6	14	86	0	56	48	21	0	29	1.50
4627257--4627324	20	3.5	19	82	6	82	38	23	23	14	1.92
4627313--4627369	14	3.8	14	78	17	69	49	26	15	8	1.74
4627297--4627375	32	2.4	33	93	2	133	48	24	17	10	1.78
4627404--4627461	14	3.9	14	79	16	62	12	17	22	48	1.80
4627387--4627477	32	2.8	33	93	3	157	13	18	20	47	1.82
4627462--4627516	20	2.8	19	83	8	65	16	23	23	36	1.94
4627998--4628042	18	2.5	18	88	0	72	13	15	44	26	1.83
4629360--4629397	20	1.9	20	88	0	58	50	21	15	13	1.78
4629661--4629704	22	2.0	22	95	0	79	18	15	45	20	1.85
4629892--4629964	20	3.7	20	92	0	119	26	19	28	26	1.98
4629872--4630009	41	3.4	41	78	6	118	24	16	23	34	1.95
4629998--4630087	41	2.2	41	95	0	126	18	23	16	41	1.90
4629995--4630087	20	4.5	21	74	4	82	18	23	17	40	1.90
4630014--4630087	20	3.7	20	76	3	85	18	22	17	40	1.91
4630959--4630994	9	4.0	9	88	0	54	52	0	2	44	1.15
4631316--4631361	15	2.8	16	90	9	67	60	0	0	39	0.97
4631855--4631904	15	3.3	15	77	5	55	72	4	2	22	1.12
4632003--4632069	17	3.8	18	72	20	61	77	2	5	13	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4632011--4632077	5	13.4	5	79	7	66	79	2	2	14	0.98
4632011--4632081	34	2.1	34	84	5	90	78	2	2	15	0.98
4632127--4632169	18	2.4	18	88	7	61	74	0	4	20	1.00
4635843--4635981	21	6.2	22	76	18	110	52	0	1	46	1.09
4635848--4635925	15	5.3	15	78	15	83	52	0	0	47	1.00
4635855--4635923	9	7.1	10	69	28	51	52	0	0	47	1.00
4635844--4635997	31	4.7	31	71	14	96	53	0	1	44	1.13
4635851--4635989	6	23.3	6	72	20	73	52	0	1	46	1.09
4635945--4636128	31	5.7	30	72	21	124	51	3	4	41	1.38
4636007--4636068	14	4.4	14	74	11	54	43	1	8	46	1.42
4636029--4636121	29	3.0	29	70	19	78	48	3	5	43	1.42
4636111--4636185	21	3.5	22	77	14	93	49	9	5	36	1.58
4635901--4636163	131	2.0	133	79	11	292	49	3	4	42	1.40
4636203--4636286	13	6.8	13	66	17	54	40	10	7	41	1.67
4636182--4636297	60	1.9	60	92	3	198	42	12	6	38	1.69
4636331--4636397	7	9.7	7	75	3	55	20	0	29	49	1.50
4636332--4636397	27	2.4	28	87	2	89	21	0	28	50	1.49
4636358--4636406	21	2.3	20	86	10	71	24	0	32	42	1.55
4636458--4636673	2	109.5	2	78	9	221	47	4	1	47	1.30
4636468--4636732	140	1.9	139	89	6	417	45	4	1	47	1.34
4636835--4636936	7	14.6	7	89	0	96	22	0	31	46	1.52
4637098--4640159	4	771.5	4	97	2	5739	24	0	25	49	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4640464--4640533	25	2.8	25	93	2	115	37	8	4	50	1.53
4640515--4640587	13	5.3	13	79	9	74	42	5	5	46	1.50
4640515--4640653	13	10.8	14	72	18	65	44	3	4	47	1.40
4640581--4640634	18	3.0	19	80	15	53	51	1	1	44	1.22
4640619--4640645	11	2.5	11	100	0	54	40	0	7	51	1.30
4648307--4648394	31	3.0	29	69	21	74	31	23	4	39	1.75
4648286--4648378	31	3.0	32	68	17	88	30	21	6	41	1.78
4648275--4648460	60	3.1	60	81	9	209	32	24	4	38	1.76
4648306--4648398	29	3.1	30	70	17	86	33	22	4	39	1.74
4652006--4652081	35	2.2	35	92	0	125	39	23	1	35	1.63
4652478--4652725	130	1.9	130	89	0	388	37	14	12	35	1.84
4652487--4652756	130	2.1	129	79	5	292	40	13	12	33	1.83
4653050--4653112	28	2.3	27	78	8	63	46	1	3	49	1.27
4653988--4654015	2	14.0	2	100	0	56	50	0	0	50	1.00
4654970--4654998	5	5.8	5	100	0	58	62	0	0	37	0.96
4655029--4655086	30	1.9	31	82	10	75	70	0	8	20	1.13
4655108--4655140	11	3.0	11	87	12	50	72	0	0	27	0.85
4656305--4656368	25	2.4	27	82	7	78	64	1	0	34	1.03
4656397--4656499	34	3.0	33	76	10	109	42	7	4	44	1.54
4656376--4656561	75	2.6	69	79	10	205	43	5	5	45	1.51
4656551--4656575	13	1.9	13	100	0	50	52	8	0	40	1.31
4658582--4658621	17	2.4	17	91	0	62	55	0	2	42	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4658594--4658646	19	2.8	19	81	18	58	49	3	1	45	1.31
4658612--4658671	18	3.3	18	80	15	70	50	3	0	46	1.18
4658860--4658904	20	2.3	20	88	3	65	44	0	33	22	1.53
4659121--4659277	2	80.0	2	65	19	64	47	3	5	43	1.43
4661471--4661591	31	3.9	31	78	11	122	30	19	19	29	1.97
4662711--4662764	25	2.2	25	100	0	108	25	29	20	24	1.99
4666309--4666436	31	4.1	31	77	9	134	32	17	20	30	1.95
4667541--4667611	7	10.3	7	78	3	63	47	32	0	19	1.50
4667931--4667997	2	34.0	2	77	8	66	47	4	2	44	1.38
4667582--4670734	507	6.2	504	83	8	3882	42	11	9	36	1.74
4668438--4668504	20	3.3	20	87	6	91	47	5	2	43	1.43
4668579--4668608	7	4.3	7	100	0	60	46	40	0	13	1.43
4668493--4668596	48	2.1	49	82	3	120	50	12	5	30	1.63
4669425--4669482	24	2.4	24	88	5	82	46	5	3	44	1.42
4669447--4669491	15	3.1	15	81	9	58	48	6	0	44	1.29
4669440--4669493	24	2.2	24	83	6	74	51	7	0	40	1.30
4669569--4669609	21	2.0	21	85	0	55	43	36	0	19	1.51
4669981--4670027	13	3.3	13	78	21	58	51	8	0	40	1.33
4669976--4670027	15	3.4	15	91	2	86	50	7	1	40	1.42
4668410--4670734	500	4.5	509	81	10	2512	43	11	8	36	1.72
4670478--4670522	23	1.9	24	95	4	83	51	4	2	42	1.34
4670511--4670615	48	2.1	49	84	3	131	48	11	7	32	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4670597--4670654	14	4.1	14	80	8	64	50	29	0	20	1.49
4670597--4670654	21	2.8	21	83	0	80	50	29	0	20	1.49
4670820--4670866	14	3.7	14	71	26	50	51	4	0	44	1.21
4670818--4670867	23	2.1	24	96	3	93	48	4	0	48	1.20
4673139--4673276	64	2.1	64	82	6	163	26	15	24	33	1.95
4679809--4679848	21	1.9	21	90	10	64	30	5	7	57	1.48
4681557--4681735	64	2.8	63	83	3	216	29	17	24	29	1.97
4682550--4682593	22	2.1	21	88	12	65	29	31	2	36	1.70
4683123--4683206	3	27.7	3	75	20	61	65	1	0	33	1.00
4683123--4683206	20	4.2	20	70	22	70	65	1	0	33	1.00

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