genome.fa.s8027.2.7.7.80.10.50.1000.31.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: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7662336

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   

This is table  31  of  38  ( 4505 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)
6385470--6385529	23	2.7	22	78	16	70	75	10	10	5	1.19
6385668--6385698	2	15.5	2	100	0	62	51	0	0	48	1.00
6385674--6385774	40	2.5	41	79	9	109	62	0	2	33	1.17
6387706--6388033	110	3.0	110	89	3	479	23	18	22	35	1.96
6389119--6389170	15	3.8	14	78	12	54	3	15	1	78	0.98
6389208--6389257	25	2.0	25	84	7	66	2	14	2	82	0.86
6398408--6398449	20	2.0	22	90	9	70	71	0	7	21	1.09
6398408--6398463	22	2.7	21	83	10	53	71	3	7	17	1.23
6399604--6399711	49	2.3	46	82	4	126	60	1	8	29	1.37
6399699--6399779	2	40.5	2	100	0	162	50	0	0	49	1.00
6399867--6399910	3	14.7	3	86	9	63	63	0	2	34	1.07
6399765--6399936	92	1.8	95	81	15	216	65	0	4	29	1.17
6401531--6401557	13	2.1	13	100	0	54	62	0	0	37	0.95
6402050--6402080	16	1.9	16	93	0	53	35	0	12	51	1.40
6402386--6402426	21	2.0	21	100	0	82	43	9	4	41	1.59
6402698--6402849	70	2.1	74	87	6	222	57	7	5	28	1.49
6403756--6403780	2	12.5	2	100	0	50	52	0	0	48	1.00
6404370--6404420	12	4.3	12	76	14	52	7	5	9	76	1.15
6404363--6404391	12	2.4	12	100	0	58	10	0	10	79	0.94
6404382--6404431	23	2.2	23	100	0	100	8	8	8	76	1.18
6405586--6405628	16	2.9	16	86	13	65	53	0	0	46	1.00
6405604--6405675	6	12.3	6	78	10	62	47	1	0	51	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6405588--6405645	16	3.7	15	80	17	64	51	0	0	48	1.00
6406189--6406230	22	2.0	21	86	9	59	52	2	2	42	1.27
6409899--6410097	99	2.0	99	100	0	398	32	20	18	29	1.96
6413181--6413330	21	7.3	20	84	5	167	45	15	18	21	1.85
6413181--6413330	41	3.7	41	81	3	169	45	15	18	21	1.85
6413181--6413330	62	2.4	61	85	4	194	45	15	18	21	1.85
6413677--6413785	20	5.4	20	82	5	130	21	18	15	44	1.86
6413697--6413818	41	3.0	40	78	7	104	19	17	18	45	1.86
6413739--6413834	20	4.8	20	84	1	111	19	16	19	43	1.88
6413759--6413866	40	2.7	40	82	5	139	19	16	24	39	1.91
6414679--6414820	72	2.0	71	87	8	207	23	13	11	52	1.72
6421229--6421282	25	2.2	25	86	6	74	48	0	1	50	1.11
6423581--6423619	20	2.0	20	85	10	53	30	2	7	58	1.39
6435922--6436040	39	3.1	39	72	16	104	42	3	17	36	1.66
6436405--6436474	31	2.3	31	87	0	95	54	11	5	28	1.59
6440521--6440840	156	2.0	156	86	7	439	31	20	15	31	1.94
6441264--6441288	11	2.3	11	100	0	50	92	0	0	8	0.40
6441662--6441709	23	2.1	23	88	0	69	35	12	18	33	1.89
6442436--6442472	18	2.1	18	89	0	56	51	10	5	32	1.60
6442676--6442740	23	2.8	23	90	0	94	38	18	7	35	1.80
6443091--6443144	23	2.5	20	75	18	54	42	18	1	37	1.61
6443106--6443168	23	2.7	23	90	0	90	38	19	6	36	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6443534--6443596	23	2.7	23	90	0	90	38	19	6	36	1.77
6442678--6443694	428	2.4	428	98	1	1961	38	13	8	40	1.74
6446150--6447370	184	6.7	184	98	0	2349	34	15	14	35	1.89
6446150--6447370	367	3.3	368	98	0	2358	34	15	14	35	1.89
6446150--6447370	551	2.2	551	98	0	2347	34	15	14	35	1.89
6450393--6450444	24	2.2	23	83	10	61	26	7	13	51	1.67
6450588--6450634	20	2.4	19	79	10	58	19	17	8	55	1.67
6450755--6450801	20	2.3	20	89	10	78	17	17	10	55	1.69
6451698--6451728	12	2.7	11	90	9	53	51	0	0	48	1.00
6451962--6452019	29	2.0	29	96	0	107	46	0	15	37	1.46
6453761--6453810	25	2.0	25	84	7	66	36	2	6	56	1.36
6454134--6454172	20	2.0	20	89	0	60	33	25	10	30	1.89
6454228--6454421	40	4.8	39	83	2	172	27	25	10	35	1.90
6454286--6454354	20	3.5	20	73	15	79	28	28	8	33	1.87
6454306--6454374	20	3.5	20	73	15	79	31	26	8	33	1.87
6454344--6454453	20	5.6	19	69	10	51	28	22	11	37	1.90
6455377--6455430	24	2.2	24	90	0	81	22	14	20	42	1.88
6456541--6456605	20	3.5	20	70	23	70	47	21	13	16	1.82
6456616--6456653	20	1.9	20	88	0	58	15	15	18	50	1.79
6457170--6457225	21	2.7	21	80	2	60	33	16	17	32	1.92
6457195--6457245	20	2.5	20	80	3	57	31	11	23	33	1.91
6457208--6457248	20	2.0	20	90	0	64	31	9	29	29	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6460539--6460583	16	2.6	18	82	10	58	57	2	0	40	1.11
6461309--6461460	60	2.5	60	78	2	162	32	20	6	40	1.78
6461944--6462011	30	2.3	30	94	0	118	23	8	22	45	1.80
6463962--6464000	15	2.7	14	88	4	51	23	35	25	15	1.94
6463956--6464016	14	4.4	14	77	8	61	22	34	24	18	1.96
6466112--6466175	24	2.7	24	80	0	74	23	17	17	42	1.89
6466105--6466192	24	3.7	23	73	8	70	26	12	17	44	1.84
6468280--6468308	14	2.1	14	93	6	51	13	27	24	34	1.93
6468258--6468331	37	2.0	37	86	5	105	20	25	24	29	1.99
6470421--6470481	24	2.5	24	89	0	86	22	16	18	42	1.89
6470666--6470690	13	1.9	13	100	0	50	48	0	4	48	1.20
6473587--6473754	89	1.9	91	81	7	209	39	16	19	24	1.92
6480927--6480965	20	2.0	20	89	0	60	33	28	10	28	1.90
6494890--6495038	60	2.5	60	81	2	174	33	19	4	42	1.72
6495225--6495340	60	2.0	60	81	8	139	39	3	20	36	1.70
6495741--6495781	2	21.0	2	95	5	75	48	0	0	51	1.00
6497763--6497940	59	3.0	60	76	11	177	33	21	4	40	1.73
6498015--6498123	29	3.7	30	73	12	75	44	4	15	35	1.67
6500709--6500746	2	19.0	2	100	0	76	50	0	0	50	1.00
6502486--6502541	30	1.9	30	85	7	80	60	0	5	33	1.19
6505733--6506119	192	2.0	192	95	0	693	37	12	13	36	1.82
6514710--6514755	3	15.7	3	86	4	67	36	2	0	60	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6517929--6518021	46	2.0	47	83	6	118	33	12	20	33	1.91
6522284--6522349	22	3.0	21	79	14	78	80	0	18	1	0.79
6525441--6525483	20	2.2	20	86	0	59	32	20	20	25	1.97
6525560--6525635	20	3.8	20	80	0	89	30	23	17	28	1.97
6525548--6525625	40	2.0	40	92	0	129	29	23	16	30	1.96
6525438--6525913	159	3.0	158	90	0	718	33	18	17	31	1.93
6525701--6525794	20	4.7	20	81	0	98	26	22	20	30	1.98
6525701--6525794	40	2.3	40	88	0	134	26	22	20	30	1.98
6525860--6525913	20	2.7	20	82	0	54	27	24	18	29	1.98
6525741--6526042	119	2.5	118	88	2	444	31	16	17	34	1.93
6526215--6526258	3	14.3	3	95	4	79	36	0	0	63	0.95
6527496--6527707	64	3.3	62	79	8	221	33	20	18	27	1.96
6528381--6528444	30	2.1	30	85	0	83	18	18	28	34	1.95
6529294--6529345	20	2.6	20	81	0	59	40	11	25	23	1.88
6533770--6533836	30	2.2	31	83	2	82	62	10	7	19	1.50
6535793--6536258	66	7.4	65	73	16	358	24	17	25	32	1.97
6535919--6536034	32	3.6	32	75	13	128	22	18	27	31	1.97
6535953--6536134	34	5.5	33	70	15	151	23	19	25	32	1.97
6536112--6536312	54	3.5	54	67	19	154	26	17	24	31	1.97
6535793--6536258	252	1.8	253	86	5	674	24	17	25	32	1.97
6536046--6536377	120	2.8	118	92	2	529	25	18	25	31	1.98
6536212--6536569	192	1.8	196	85	7	512	25	17	24	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6538070--6538110	15	2.7	15	88	3	55	2	12	7	78	1.06
6538075--6538114	21	1.9	20	90	10	62	2	10	7	80	1.00
6540645--6540692	19	2.5	19	83	10	53	64	4	4	27	1.30
6541257--6541323	30	2.2	31	83	2	82	62	10	7	19	1.50
6557563--6557608	23	1.9	25	86	8	69	58	0	6	34	1.24
6557681--6557734	26	2.1	26	82	6	65	33	1	16	48	1.57
6562280--6562334	22	2.5	22	100	0	110	41	18	3	36	1.68
6565082--6565134	2	26.5	2	100	0	106	50	0	0	49	1.00
6566257--6566284	13	2.2	13	100	0	56	46	0	0	53	1.00
6566654--6566912	84	3.1	83	83	6	308	21	22	13	42	1.87

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