genome.fa.s8926.2.7.7.80.10.50.1000.19.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: VEPZ01008926.1 Hibiscus syriacus cultivar Beakdansim tig00112231_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4069050

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

This is table  19  of  20  ( 2371 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)
3660672--3660813	71	2.0	71	87	5	207	31	18	10	39	1.85
3660772--3661086	106	3.0	105	79	6	393	30	16	12	41	1.85
3661060--3661162	36	2.8	36	72	13	95	33	16	12	37	1.86
3661513--3661591	33	2.5	32	82	8	99	31	18	10	39	1.84
3661513--3661638	29	4.2	31	82	7	118	29	15	12	42	1.83
3661563--3661677	29	4.0	29	82	6	117	28	11	13	46	1.78
3661711--3661777	29	2.3	28	90	7	100	32	16	10	40	1.82
3662040--3662421	134	2.9	134	81	3	448	27	30	15	25	1.96
3662587--3662616	3	9.7	3	92	7	51	33	0	0	66	0.92
3664581--3664614	9	3.7	9	88	7	50	14	23	29	32	1.94
3664617--3664690	18	4.4	18	72	16	77	18	43	22	14	1.87
3664618--3664654	13	2.8	13	83	0	56	18	43	24	13	1.86
3664733--3664800	29	2.3	29	87	0	100	29	4	23	42	1.73
3665727--3666059	42	7.8	42	86	5	438	18	24	23	33	1.97
3665727--3666000	85	3.2	85	95	1	496	17	24	25	32	1.97
3665727--3666059	85	3.9	84	91	3	490	18	24	23	33	1.97
3672137--3672168	13	2.5	13	94	0	55	18	43	25	12	1.85
3672211--3672278	29	2.3	29	85	9	86	30	8	20	39	1.83
3673216--3673548	42	7.8	41	88	6	461	18	24	24	32	1.97
3673216--3673548	85	3.9	84	93	3	535	18	24	24	32	1.97
3673216--3673548	169	2.0	171	92	3	557	18	24	24	32	1.97
3674050--3674103	27	1.9	27	81	7	63	25	11	5	57	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3680097--3680194	19	5.1	19	87	1	115	35	20	9	34	1.84
3679825--3680214	20	19.6	20	77	11	165	36	23	14	24	1.93
3681059--3681105	24	2.0	24	95	0	85	31	21	12	34	1.91
3683692--3683789	20	4.8	20	74	1	70	22	19	18	39	1.92
3683912--3683948	14	2.6	14	100	0	74	48	21	0	29	1.50
3683845--3684002	81	2.0	78	91	6	255	50	17	1	31	1.54
3685387--3685464	21	3.7	21	79	6	86	29	19	30	20	1.97
3685604--3685641	4	9.5	4	88	0	58	71	2	0	26	1.00
3687992--3688042	22	2.3	22	93	0	84	21	15	43	19	1.88
3688202--3688488	20	14.3	20	76	6	181	19	15	23	41	1.89
3688227--3688348	61	2.0	60	90	1	190	20	14	24	40	1.90
3688202--3688488	40	7.2	40	73	14	218	19	15	23	41	1.89
3688280--3688554	140	2.0	140	87	2	401	20	15	23	41	1.90
3688202--3688508	100	3.1	97	76	10	271	20	15	23	41	1.90
3688402--3688504	40	2.6	41	77	9	97	20	14	22	42	1.88
3688482--3688548	20	3.3	20	91	0	107	22	17	25	34	1.96
3688362--3688524	60	2.7	59	69	17	136	20	14	23	41	1.89
3688282--3688593	140	2.2	140	84	3	387	20	15	24	39	1.91
3698005--3698151	56	2.6	56	91	0	231	34	12	19	33	1.90
3708253--3708559	159	1.9	162	97	2	593	34	19	15	29	1.93
3717522--3717640	24	5.0	24	87	1	141	40	20	13	26	1.89
3717529--3717644	48	2.4	48	89	0	169	39	19	12	27	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3717529--3717662	72	1.9	72	84	3	180	41	19	12	26	1.87
3721322--3721348	2	13.5	2	100	0	54	51	0	0	48	1.00
3721554--3721672	24	5.0	24	85	1	141	41	19	11	27	1.86
3721561--3721676	48	2.4	48	88	0	160	40	18	12	28	1.87
3721561--3721694	72	1.9	72	82	0	169	43	17	11	27	1.83
3726749--3726996	124	2.0	123	92	0	406	28	10	23	37	1.88
3732674--3732698	9	2.8	9	100	0	50	0	8	0	92	0.40
3733752--3733779	14	2.0	14	100	0	56	21	28	28	21	1.99
3737455--3737554	49	2.0	49	98	0	191	35	24	12	29	1.91
3738406--3738444	20	2.0	20	89	0	60	33	23	10	33	1.88
3741676--3741708	2	17.0	2	93	6	59	51	0	0	48	1.00
3742827--3743070	125	2.0	125	89	1	373	31	16	26	25	1.97
3743881--3744074	102	1.9	102	94	0	343	45	14	21	18	1.85
3744394--3744803	151	2.7	151	91	0	633	35	13	15	35	1.87
3744634--3745209	233	2.5	233	86	1	769	32	16	15	35	1.90
3745213--3745423	115	1.8	115	92	0	359	31	22	17	28	1.97
3745397--3745447	24	2.1	24	100	0	102	37	23	15	23	1.93
3745453--3745785	48	6.9	48	85	4	429	27	22	15	34	1.95
3745453--3745785	98	3.5	96	87	2	447	27	22	15	34	1.95
3746359--3746392	14	2.4	14	95	0	59	41	32	0	26	1.56
3746779--3747026	124	2.0	123	89	0	379	28	9	23	38	1.86
3750212--3750237	2	13.0	2	100	0	52	50	50	0	0	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3750237--3750294	2	29.0	2	100	0	116	50	0	0	50	1.00
3750780--3750839	29	2.1	29	90	0	93	11	33	30	25	1.91
3751408--3751451	21	2.1	21	86	0	61	31	0	13	54	1.39
3751428--3751481	28	1.9	28	92	0	90	27	0	12	59	1.34
3751872--3751898	14	1.9	14	100	0	54	7	3	14	74	1.18
3751967--3752024	16	3.4	16	71	17	53	41	0	12	46	1.41
3755216--3755303	21	4.3	21	63	13	58	43	0	12	44	1.42
3755162--3755330	49	3.2	49	81	16	221	41	0	13	44	1.48
3755214--3755316	35	3.2	35	64	25	100	42	0	11	45	1.40
3755211--3755358	60	2.5	60	97	0	278	41	0	14	43	1.50
3755623--3755799	49	3.6	49	84	10	202	42	1	10	45	1.45
3755782--3755847	14	5.1	14	75	20	72	43	1	10	43	1.48
3755782--3755881	26	4.0	25	77	12	75	42	2	9	47	1.46
3755793--3755941	11	12.4	11	70	20	61	42	1	10	44	1.47
3756237--3756314	24	3.4	22	71	20	70	39	2	12	44	1.56
3756253--3756353	50	2.1	49	90	5	161	42	3	14	38	1.65
3756270--3756354	27	3.3	27	71	18	90	43	3	14	38	1.62
3758971--3759014	22	2.0	22	91	4	72	56	18	0	25	1.41
3759161--3759218	26	2.3	26	90	3	91	10	31	10	48	1.71
3759605--3759681	29	2.7	29	93	0	136	27	25	35	11	1.91
3760675--3760740	32	2.1	32	94	0	114	40	21	15	22	1.90
3761369--3761417	23	2.3	21	78	18	57	55	0	2	42	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3761374--3761417	23	1.9	23	90	0	70	54	0	2	43	1.12
3762174--3762233	28	2.1	28	85	11	79	73	1	0	25	0.93
3762179--3762238	20	3.1	20	76	21	65	75	0	0	25	0.81
3762189--3762238	4	11.8	4	89	6	64	76	0	0	24	0.80
3763447--3763956	139	3.7	138	86	1	653	24	15	29	30	1.95
3763745--3763850	40	2.5	43	72	10	103	22	16	30	30	1.96
3764255--3764359	30	3.3	30	64	21	77	40	12	20	26	1.87
3764102--3764394	67	4.4	67	88	2	403	37	12	19	29	1.89
3764211--3764421	36	6.1	36	65	18	117	37	13	19	29	1.90
3764519--3764766	67	3.7	66	79	5	216	38	12	16	33	1.86
3764595--3764766	67	2.6	66	84	2	227	36	12	18	32	1.88
3764878--3764965	35	2.4	37	83	7	117	38	11	18	31	1.86
3767856--3767900	17	2.7	17	83	12	58	2	22	4	71	1.15
3767850--3767904	19	2.9	19	75	20	53	1	21	3	72	1.09
3773104--3773588	133	3.6	133	84	2	569	30	16	21	31	1.95
3781031--3781369	131	2.6	131	79	5	337	39	16	12	32	1.85
3783358--3783402	3	15.0	3	95	0	72	62	0	4	33	1.15
3783398--3783426	4	7.2	4	100	0	58	75	0	0	24	0.80
3789945--3789991	19	2.5	19	92	0	76	36	25	12	25	1.92
3800516--3800847	55	6.2	53	78	14	276	27	15	19	37	1.92
3800624--3800717	47	2.0	47	89	0	143	29	12	18	39	1.88
3800516--3800847	102	3.1	104	78	13	302	27	15	19	37	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3807565--3807618	27	2.0	27	100	0	108	25	29	18	25	1.98
3819478--3819512	17	2.1	17	88	0	52	40	14	14	31	1.86
3821163--3821200	19	2.0	20	94	5	69	31	13	5	50	1.63
3824516--3824553	19	2.0	19	100	0	76	36	26	15	21	1.93
3825803--3825855	3	17.7	3	100	0	106	32	0	0	67	0.91
3826496--3826539	3	14.7	3	100	0	88	34	0	0	65	0.93
3827528--3827582	15	3.6	15	72	20	51	43	5	0	50	1.25
3827529--3827578	17	3.1	17	73	26	63	44	4	0	52	1.20
3830078--3830199	61	2.0	61	100	0	244	40	21	16	21	1.91
3833169--3833277	52	2.1	53	92	3	184	41	15	23	19	1.90

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