genome.fa.s8242.2.7.7.80.10.50.1000.21.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   

This is table  21  of  73  ( 8740 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)
4442747--4442793	12	3.5	13	80	8	51	21	8	0	70	1.14
4448144--4448209	27	2.4	27	87	0	96	21	18	36	24	1.95
4477023--4477064	22	2.0	21	85	4	57	26	2	35	35	1.70
4481332--4481496	90	1.8	89	92	1	276	36	12	7	44	1.70
4484176--4484205	13	2.2	13	94	5	51	50	3	0	46	1.18
4486830--4486872	20	2.2	20	95	4	79	46	4	11	37	1.61
4488180--4488232	14	4.1	12	79	13	52	5	16	20	56	1.60
4488180--4488232	26	2.0	26	92	0	88	5	16	20	56	1.60
4488180--4488219	12	3.2	12	80	13	53	7	15	20	57	1.61
4493093--4493128	6	6.0	6	86	0	54	19	16	33	30	1.94
4498567--4498700	48	2.9	45	81	8	135	40	7	20	32	1.80
4499532--4499577	15	2.9	15	87	6	56	60	2	28	8	1.38
4500107--4500154	19	2.5	19	86	0	60	50	6	10	33	1.62
4504267--4504317	19	2.6	20	87	3	68	45	5	13	35	1.68
4518093--4518248	78	2.0	78	100	0	312	29	17	21	30	1.97
4545153--4545191	20	2.0	20	85	10	53	38	12	20	28	1.89
4547526--4547550	13	1.9	13	100	0	50	44	0	0	56	0.99
4548849--4549310	229	2.0	229	100	0	924	38	17	16	27	1.92
4549408--4549453	12	3.6	12	78	16	56	21	13	2	63	1.40
4549400--4549454	27	2.0	27	100	0	110	23	14	3	58	1.52
4550719--4550770	2	26.5	2	92	3	79	48	3	0	48	1.20
4550718--4550770	23	2.3	23	90	3	81	47	3	0	49	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4558365--4558393	2	15.0	2	92	7	51	51	0	0	48	1.00
4558355--4558400	15	2.9	17	75	15	53	50	0	6	43	1.28
4558355--4558393	19	2.1	19	90	0	60	48	0	5	46	1.24
4558363--4558417	19	2.9	19	84	12	62	50	1	3	43	1.30
4558364--4558417	18	3.3	17	82	17	62	51	1	3	42	1.30
4560162--4560374	108	2.0	108	100	0	426	31	15	20	32	1.93
4571329--4571412	42	2.0	41	84	9	107	54	11	3	29	1.53
4575229--4575272	20	2.2	20	95	0	79	4	4	11	79	1.02
4581537--4581576	19	2.0	20	95	4	73	47	5	10	37	1.59
4582578--4582615	20	1.9	20	100	0	76	50	5	10	34	1.59
4584539--4584603	32	2.0	34	82	11	82	23	18	1	56	1.49
4585440--4585545	50	2.3	45	84	14	128	33	1	12	51	1.50
4589862--4589899	17	2.2	18	90	9	62	2	13	0	84	0.73
4597802--4597840	13	2.9	13	88	7	60	35	0	41	23	1.55
4597802--4597844	14	3.1	14	93	3	70	37	0	39	23	1.55
4598179--4598234	19	2.9	19	89	2	76	41	8	10	39	1.71
4599135--4599173	20	2.0	20	90	10	62	61	7	5	25	1.44
4619042--4619070	15	2.0	15	93	6	51	75	3	20	0	0.94
4625149--4625207	24	2.5	24	84	10	77	62	8	18	10	1.51
4630319--4630360	19	2.2	19	100	0	84	26	16	26	30	1.97
4641086--4641127	18	2.3	18	91	0	66	21	21	30	26	1.98
4651517--4651554	14	2.7	14	84	11	51	5	13	0	81	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4651542--4651586	19	2.3	19	85	14	65	11	0	13	75	1.05
4654639--4654679	10	4.4	9	82	17	57	63	0	21	14	1.30
4654641--4654677	18	2.0	20	89	10	60	62	0	21	16	1.33
4660045--4660087	19	2.4	17	88	7	59	0	13	2	83	0.74
4660045--4660087	6	7.2	6	87	10	61	0	13	2	83	0.74
4662761--4662793	16	2.1	16	88	11	50	66	3	18	12	1.36
4675942--4675986	20	2.2	20	92	7	74	20	11	13	55	1.68
4681992--4682039	2	25.0	2	80	16	57	52	2	2	43	1.24
4689183--4689232	23	2.1	24	81	3	57	10	10	14	66	1.46
4691438--4691477	17	2.4	17	86	0	53	40	17	2	40	1.63
4700053--4700089	11	3.4	11	84	0	56	16	27	0	56	1.40
4700053--4700100	22	2.2	22	88	0	69	16	25	0	58	1.38
4706480--4706528	24	2.0	25	88	11	75	38	4	2	55	1.31
4709674--4709734	27	2.3	27	94	0	113	45	13	29	11	1.78
4712223--4712260	15	2.5	16	87	8	53	86	2	7	2	0.74
4713092--4713142	21	2.6	19	77	19	52	47	3	29	19	1.68
4718247--4718310	27	2.4	27	94	0	110	46	10	29	12	1.76
4720783--4720820	12	2.9	13	80	11	51	84	5	2	7	0.86
4726921--4726975	23	2.4	23	81	6	67	7	16	10	65	1.45
4728423--4728454	9	3.6	9	100	0	64	0	18	0	81	0.70
4728423--4728462	18	2.2	18	86	0	53	2	15	5	77	1.04
4728436--4728490	23	2.4	23	81	6	67	7	16	10	65	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4730693--4730732	17	2.4	17	91	0	62	40	17	7	35	1.78
4736836--4736868	17	1.9	17	93	0	57	36	0	33	30	1.58
4739203--4739251	11	4.5	11	84	0	62	16	28	0	55	1.42
4739203--4739262	22	2.8	22	87	2	86	16	28	1	53	1.53
4739459--4739489	16	1.9	16	93	0	53	74	3	0	22	0.96
4746557--4746622	17	3.8	17	81	2	69	42	9	10	37	1.71
4750638--4750688	17	3.0	17	88	0	75	41	5	15	37	1.72
4750764--4750829	17	3.8	17	68	18	55	42	18	13	25	1.87
4754835--4754879	22	2.0	22	100	0	90	28	22	17	31	1.97
4762033--4762115	43	1.9	43	90	0	130	32	13	13	40	1.83
4762719--4762747	2	14.5	2	100	0	58	48	0	0	51	1.00
4771370--4771499	38	3.4	38	86	4	179	36	13	16	33	1.89
4771398--4771459	20	3.2	19	65	17	54	37	17	19	25	1.94
4771506--4771630	59	2.1	60	80	4	137	29	20	21	28	1.98
4771725--4771838	58	1.9	59	83	1	149	29	18	27	24	1.98
4771443--4771923	212	2.3	212	90	0	739	31	17	22	29	1.96
4771867--4771962	39	2.5	39	84	1	113	37	18	15	28	1.92
4772155--4772434	58	5.1	55	77	10	252	38	18	11	31	1.86
4774826--4774861	13	2.8	13	91	0	54	38	11	30	19	1.86
4775332--4775392	29	2.0	31	84	6	81	55	4	18	21	1.60
4777511--4777543	2	17.0	2	93	6	59	51	0	0	48	1.00
4777511--4777557	21	2.3	21	88	3	69	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4781554--4781871	158	2.0	158	99	0	627	27	22	11	39	1.87
4789576--4789660	39	2.4	33	81	16	100	44	3	7	44	1.48
4789637--4789688	27	2.0	27	84	3	70	51	1	3	42	1.31
4789597--4789679	39	2.1	38	90	2	112	46	2	7	43	1.44
4789683--4789734	7	7.4	7	79	16	63	40	1	0	57	1.10
4789681--4789736	20	2.7	19	84	13	67	41	1	0	57	1.09
4792990--4793025	3	12.0	3	100	0	72	66	0	0	33	0.92
4794037--4794122	37	2.4	36	90	2	127	41	16	18	23	1.89
4793572--4794086	66	7.8	66	90	1	771	41	13	16	28	1.86
4794070--4794235	66	2.5	66	87	0	224	39	16	17	26	1.91
4793904--4794232	168	2.0	169	90	1	518	40	14	17	27	1.89
4793904--4794296	168	2.3	165	84	7	490	40	14	17	27	1.89
4806151--4806178	14	2.0	14	100	0	56	28	14	14	42	1.84
4816182--4816226	21	2.1	22	83	4	56	46	15	15	22	1.83
4816180--4816229	22	2.3	23	79	10	59	46	14	16	24	1.83
4822653--4822684	17	1.9	17	93	6	57	78	6	15	0	0.95
4845947--4846027	24	3.3	24	98	1	153	38	8	8	44	1.66
4853802--4853847	24	1.9	24	86	0	65	23	10	13	52	1.71
4858448--4858623	90	2.0	88	92	2	289	44	6	11	37	1.67
4869513--4869554	22	1.9	22	85	0	57	35	30	4	28	1.78
4882497--4882537	19	2.2	18	86	4	55	26	0	9	63	1.25
4888479--4888529	17	3.0	17	80	5	59	72	0	15	11	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4888721--4888759	17	2.3	18	83	16	57	0	17	0	82	0.68
4889113--4889180	13	4.9	14	71	15	52	29	2	39	27	1.71
4889505--4889547	19	2.2	20	87	4	61	48	6	6	37	1.57
4892798--4892850	17	3.1	17	89	5	81	39	15	5	39	1.70
4894031--4894068	11	3.5	11	86	13	53	84	0	15	0	0.63
4893900--4894286	192	2.0	194	97	2	735	43	12	17	26	1.84
4894231--4894261	13	2.4	13	94	0	53	83	0	16	0	0.64
4899296--4899344	17	2.9	17	87	0	71	38	16	4	40	1.67
4900185--4900253	21	3.3	21	91	2	113	17	37	4	40	1.69
4908540--4908582	17	2.5	17	88	0	59	34	13	9	41	1.77

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   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73