genome.fa.s8041.2.7.7.80.10.50.1000.18.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: VEPZ01008041.1 Hibiscus syriacus cultivar Beakdansim tig00110528_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4970990

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  18  of  21  ( 2430 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)
4160651--4160728	20	3.9	20	83	6	95	15	17	23	43	1.87
4160831--4160870	13	3.0	13	78	7	53	55	15	0	30	1.41
4162237--4162330	42	2.2	42	84	3	118	21	19	37	22	1.95
4162237--4162306	21	3.3	20	70	7	59	21	20	35	22	1.96
4162275--4162359	42	2.0	42	83	0	107	23	15	38	22	1.92
4162869--4162913	20	2.2	20	92	0	72	35	26	20	17	1.95
4162906--4162947	14	3.0	14	89	0	57	47	21	19	11	1.81
4162970--4163002	14	2.4	14	94	0	57	18	18	15	48	1.81
4162957--4163032	33	2.3	34	88	2	109	15	21	18	44	1.86
4163024--4163092	20	3.5	20	86	7	95	17	18	26	37	1.93
4164976--4165045	20	3.5	20	82	5	70	42	24	17	15	1.88
4165425--4165472	22	2.2	22	96	0	87	18	10	45	25	1.81
4165664--4165742	20	3.9	20	75	9	88	24	18	25	31	1.98
4165828--4165864	19	1.9	19	88	0	56	21	13	29	35	1.92
4170819--4170869	24	2.1	24	100	0	102	25	29	11	33	1.91
4172549--4172581	15	2.2	15	94	0	57	6	30	9	54	1.56
4186722--4186799	36	2.2	36	90	0	120	16	28	16	38	1.91
4186736--4186807	36	2.0	36	88	0	108	16	26	19	37	1.93
4191786--4191828	10	4.3	10	81	0	50	13	2	16	67	1.33
4200261--4200322	25	2.5	25	97	0	115	46	11	25	16	1.80
4203440--4203483	20	2.2	20	95	0	79	52	18	11	18	1.74
4204688--4204776	32	2.8	32	91	3	137	33	21	19	25	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4204688--4204790	32	3.3	30	86	6	134	33	23	17	26	1.96
4206937--4206983	21	2.2	21	96	0	85	27	21	21	29	1.98
4206944--4206989	21	2.2	21	88	0	65	28	28	15	28	1.96
4217889--4217933	22	2.0	22	100	0	90	44	4	28	22	1.72
4217895--4217942	22	2.2	22	88	0	69	50	6	25	18	1.70
4225846--4225899	19	2.8	19	97	0	99	20	22	35	22	1.96
4225884--4225981	46	2.2	45	83	5	117	30	20	19	29	1.97
4228666--4228744	23	3.6	22	77	5	97	27	24	22	25	2.00
4228664--4228763	44	2.3	42	84	6	130	27	22	24	27	1.99
4228692--4228763	21	3.4	21	75	9	67	23	22	25	29	1.99
4234094--4234249	64	2.4	65	87	3	217	27	19	23	29	1.98
4236536--4236581	13	3.6	13	82	2	58	32	2	13	52	1.52
4236531--4236582	26	2.0	26	88	7	79	32	3	13	50	1.60
4237967--4238078	58	1.9	58	83	8	147	36	23	4	35	1.75
4241260--4241311	21	2.5	20	81	3	68	32	17	9	40	1.82
4241320--4241409	45	2.0	45	87	8	130	46	14	7	31	1.73
4241630--4241655	2	13.0	2	100	0	52	50	0	50	0	1.00
4246427--4246723	61	4.9	61	78	3	287	40	12	12	34	1.81
4246435--4246723	122	2.4	122	83	2	348	40	12	11	34	1.79
4247377--4247470	45	2.1	45	89	0	143	38	21	9	30	1.85
4247371--4247446	24	3.3	24	70	10	77	39	21	7	31	1.82
4248896--4249253	131	2.7	131	92	0	581	33	10	16	39	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4251234--4251272	6	6.3	6	82	5	51	17	15	15	51	1.77
4251233--4251272	13	3.2	13	82	7	55	17	15	15	52	1.75
4255333--4255431	41	2.4	40	75	9	101	30	20	18	31	1.96
4255349--4255699	192	1.8	197	88	4	552	31	18	16	33	1.94
4256098--4256575	132	3.6	132	85	2	588	30	22	17	29	1.96
4256098--4256575	263	1.8	263	85	4	685	30	22	17	29	1.96
4258160--4258218	2	32.0	2	75	16	56	47	0	3	49	1.18
4258734--4259098	130	2.8	131	89	2	536	33	9	16	40	1.80
4262585--4262626	15	2.8	15	100	0	84	40	0	7	52	1.29
4263039--4263149	56	2.0	56	98	0	213	38	24	23	13	1.91
4264670--4264701	15	2.1	15	94	0	55	56	9	28	6	1.55
4270124--4270517	196	2.0	198	98	1	774	37	16	21	24	1.93
4274467--4274491	8	3.1	8	100	0	50	0	12	0	88	0.53
4275201--4275227	2	13.5	2	100	0	54	51	0	0	48	1.00
4275370--4275419	18	2.7	18	87	9	66	76	0	6	18	0.99
4275370--4275412	13	3.6	12	84	6	52	79	0	4	16	0.90
4277425--4277516	42	2.2	41	77	9	98	27	16	26	30	1.97
4278422--4278458	5	7.2	5	90	3	56	0	24	0	75	0.80
4279584--4279636	24	2.3	23	90	9	83	15	24	7	52	1.68
4279581--4279628	24	2.0	24	100	0	96	16	20	8	54	1.68
4284418--4284459	22	1.9	22	90	0	66	23	21	21	33	1.97
4287781--4287850	37	1.9	35	88	5	88	68	2	11	17	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4289840--4289875	3	12.0	3	88	11	56	66	0	30	2	1.06
4289874--4289971	36	2.7	36	88	0	133	39	16	18	25	1.91
4292861--4292923	33	1.9	33	83	6	83	46	1	3	49	1.27
4292906--4292953	20	2.3	20	80	20	55	35	4	0	60	1.16
4292917--4292954	20	1.9	20	89	10	60	31	5	0	63	1.17
4293109--4293141	16	2.1	16	88	5	50	60	3	0	36	1.12
4293212--4293257	24	1.9	24	81	0	56	50	2	8	39	1.46
4299687--4299728	15	2.8	15	88	0	66	33	16	9	40	1.81
4300623--4300665	19	2.2	20	87	4	61	16	0	9	74	1.06
4304243--4304269	12	2.2	12	100	0	54	7	55	25	11	1.61
4305177--4305230	21	2.6	22	80	16	62	42	11	14	31	1.81
4309649--4309690	18	2.3	18	91	0	66	16	19	35	28	1.93
4309857--4309883	7	3.9	7	100	0	54	29	0	25	44	1.54
4315569--4315658	3	30.0	3	79	12	96	37	0	0	62	0.96
4318946--4319015	36	1.9	36	88	0	104	41	20	14	24	1.89
4319464--4319510	19	2.4	20	96	3	87	29	17	10	42	1.82
4319588--4319621	13	2.6	13	90	0	59	14	14	14	55	1.69
4319588--4319620	7	5.0	7	89	10	52	15	15	12	57	1.65
4319674--4319726	26	2.0	27	85	3	72	18	13	7	60	1.56
4323706--4325125	709	2.0	710	97	0	2680	35	19	17	28	1.94
4328202--4328273	22	3.3	22	76	7	83	34	15	12	37	1.85
4328943--4329069	36	3.5	36	71	9	114	30	18	12	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4328943--4329086	73	2.0	73	90	2	227	32	18	11	37	1.87
4329095--4329767	113	5.9	112	86	4	791	37	14	19	28	1.90
4330126--4330202	3	26.0	3	80	10	88	35	1	0	63	1.03
4331700--4331726	3	9.0	3	100	0	54	33	0	0	66	0.92
4333421--4333451	14	2.1	15	94	5	55	54	0	0	45	0.99
4339204--4339274	35	2.0	35	83	0	88	39	15	14	30	1.87
4340922--4340955	17	2.0	17	94	0	59	32	5	17	44	1.73
4340955--4341014	22	2.7	22	84	2	75	31	21	28	18	1.97
4342214--4343353	569	2.0	569	100	0	2280	28	22	9	40	1.85
4344375--4344406	13	2.5	13	100	0	64	37	9	9	43	1.69
4348128--4348172	2	22.5	2	95	0	81	48	0	2	48	1.13
4348331--4348393	26	2.4	26	82	10	76	33	12	20	33	1.90
4349018--4349048	12	2.6	12	100	0	62	25	25	16	32	1.96
4349989--4350057	22	3.1	22	79	8	77	27	23	5	43	1.76
4352120--4352285	56	3.0	55	85	5	210	39	21	1	36	1.64
4352134--4352298	54	3.0	54	86	3	206	42	21	1	35	1.61
4358965--4358994	10	3.0	10	95	0	51	53	0	0	46	1.00
4359148--4359199	27	1.9	27	84	0	68	26	0	3	69	1.06
4367947--4367998	20	2.7	18	78	21	52	53	1	1	42	1.23
4368483--4368595	60	1.9	58	82	8	138	43	8	10	37	1.71
4374507--4374577	33	2.1	34	94	2	126	36	25	11	26	1.90
4374672--4374724	21	2.3	24	87	9	76	39	5	0	54	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4374679--4374724	24	1.9	24	86	8	67	39	4	0	56	1.19
4375274--4375517	50	4.8	51	83	4	305	24	11	15	48	1.77
4375274--4375517	101	2.4	102	86	4	350	24	11	15	48	1.77
4375758--4375828	31	2.3	31	95	0	124	49	11	9	29	1.71
4378036--4378071	16	2.2	17	90	5	56	50	2	0	47	1.15
4385384--4385417	17	1.9	18	88	5	52	32	11	17	38	1.86
4388265--4388311	15	3.1	15	87	6	67	38	4	21	36	1.73
4388267--4388329	16	4.0	16	89	2	83	39	4	20	34	1.74
4392449--4392495	15	3.1	15	82	11	51	38	6	17	38	1.75
4392466--4392513	16	3.0	16	87	0	69	41	6	16	35	1.74

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21