genome.fa.s9585.2.7.7.80.10.50.1000.22.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: VEPZ01009585.1 Hibiscus syriacus cultivar Beakdansim tig00116962_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8285662

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   

This is table  22  of  35  ( 4106 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)
4775321--4775369	6	8.2	6	100	0	98	16	16	32	34	1.91
4775324--4775416	6	15.5	6	93	0	78	19	10	27	41	1.84
4775415--4775446	16	2.0	16	100	0	64	50	18	0	31	1.48
4781857--4781933	38	2.0	38	94	0	136	48	10	15	25	1.77
4789167--4789202	13	2.8	13	86	0	54	30	19	22	27	1.98
4791283--4791844	283	2.0	279	94	2	982	29	12	19	38	1.88
4796070--4796432	186	1.9	187	96	3	671	20	20	34	24	1.96
4796484--4796536	15	3.6	15	82	2	63	9	7	75	7	1.19
4799537--4799575	20	2.0	20	85	10	53	48	5	0	46	1.24
4811262--4811487	45	5.0	45	93	1	341	30	21	7	41	1.80
4811324--4811397	25	3.2	25	62	31	63	29	22	8	39	1.83
4814661--4814735	35	2.1	35	90	0	114	44	21	0	34	1.53
4814730--4814807	35	2.2	34	86	6	111	42	0	14	43	1.45
4816287--4816361	35	2.1	35	90	0	114	44	21	0	34	1.53
4822238--4822270	6	5.5	6	96	0	57	81	3	0	15	0.80
4822623--4822994	191	2.0	184	89	3	564	23	15	18	42	1.88
4824225--4824289	26	2.5	26	97	0	121	46	4	12	36	1.62
4824604--4824647	10	4.7	9	81	18	54	61	2	0	36	1.09
4843451--4843501	22	2.3	22	80	6	59	37	5	1	54	1.36
4849898--4849943	20	2.3	20	85	7	58	58	2	0	39	1.10
4850470--4850503	9	3.8	9	88	11	52	76	0	2	20	0.92
4850469--4850503	13	2.6	13	90	4	52	77	0	2	20	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4850973--4851011	11	3.4	11	82	10	51	69	2	2	25	1.14
4851367--4851471	37	2.8	37	85	0	138	30	13	15	40	1.85
4851936--4852274	167	2.0	168	86	2	466	23	18	25	33	1.97
4851945--4852285	83	4.1	83	85	2	423	24	19	24	32	1.97
4852459--4853416	106	9.0	106	92	0	1445	22	18	25	33	1.97
4854375--4854428	22	2.5	22	93	3	92	22	12	25	38	1.90
4855109--4855142	16	2.1	16	89	10	52	0	14	8	76	1.01
4858156--4858189	9	3.8	9	88	11	52	76	0	2	20	0.92
4858155--4858189	13	2.6	13	90	4	52	77	0	2	20	0.90
4858480--4858506	14	1.9	14	100	0	54	74	3	0	22	0.98
4858654--4858692	14	2.8	13	88	11	51	71	2	2	23	1.10
4859040--4859147	37	2.9	37	88	0	153	32	12	13	40	1.83
4862277--4862318	18	2.4	18	81	14	52	40	2	2	54	1.26
4866044--4866094	18	2.7	18	82	14	50	58	1	0	39	1.09
4866047--4866095	21	2.4	20	81	18	57	59	2	0	38	1.09
4867230--4867283	20	2.7	20	94	0	90	25	29	7	37	1.83
4884627--4884684	29	2.0	29	93	0	98	13	34	29	22	1.93
4884742--4884794	20	2.7	20	93	0	97	24	33	30	11	1.90
4884742--4884794	10	5.3	10	78	17	65	24	33	30	11	1.90
4884795--4884879	33	2.6	34	85	7	104	28	25	36	9	1.87
4884883--4884938	29	1.9	29	96	0	103	21	30	35	12	1.90
4884997--4885053	29	2.0	29	92	0	96	21	29	33	15	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4886350--4886392	21	2.0	21	95	0	77	44	0	0	55	0.99
4896366--4896405	3	14.0	3	84	10	57	67	0	2	30	1.04
4898895--4898951	23	2.6	23	91	8	93	40	3	12	43	1.59
4898969--4898996	13	2.2	13	100	0	56	60	0	0	39	0.97
4899762--4899802	8	5.2	8	82	5	57	34	0	29	36	1.58
4899870--4900153	126	2.3	126	99	0	559	21	26	21	31	1.98
4902279--4902331	2	27.0	2	92	3	90	49	1	0	49	1.12
4907347--4907398	3	17.7	3	96	4	97	67	0	0	32	0.91
4909431--4909473	13	3.3	13	75	12	52	46	4	16	32	1.67
4909428--4909477	26	1.9	26	95	0	82	50	4	18	28	1.65
4917212--4917269	30	1.9	30	96	0	107	50	5	8	36	1.56
4918931--4918966	2	18.0	2	100	0	72	50	0	0	50	1.00
4919349--4919402	23	2.2	25	80	6	67	37	1	5	55	1.34
4921279--4921511	6	38.8	6	98	0	367	11	16	50	21	1.77
4921783--4921837	22	2.5	22	75	0	56	29	9	23	38	1.85
4927370--4927413	5	8.8	5	92	0	52	6	40	36	15	1.74
4927411--4927471	6	10.2	6	96	0	86	6	16	49	27	1.70
4927745--4927799	22	2.5	22	75	0	56	29	9	23	38	1.85
4934596--4934626	2	15.5	2	93	0	53	54	0	0	45	0.99
4934877--4934949	18	3.9	18	84	7	101	28	31	20	19	1.97
4935572--4935693	64	1.9	64	86	0	172	27	19	20	32	1.97
4936401--4936431	2	15.5	2	100	0	62	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)
4937286--4937479	21	9.2	21	74	16	179	20	21	23	34	1.97
4937292--4937479	42	4.5	42	94	0	331	20	21	23	34	1.96
4937292--4937479	84	2.2	84	99	0	367	20	21	23	34	1.96
4937984--4938008	5	5.0	5	100	0	50	0	60	20	20	1.37
4939671--4939870	95	2.1	94	95	0	355	46	8	9	36	1.65
4940477--4940506	2	15.0	2	100	0	60	50	0	0	50	1.00
4941061--4941107	22	2.1	23	84	4	60	51	0	4	44	1.21
4956343--4956371	2	14.5	2	100	0	58	0	48	0	51	1.00
4968398--4968449	2	26.0	2	100	0	104	50	0	0	50	1.00
4972549--4972576	3	9.3	3	100	0	56	0	67	0	32	0.91
4973810--4973846	12	3.0	12	84	7	56	54	0	0	45	1.00
4973808--4973845	13	3.0	13	88	3	60	57	0	0	42	0.98
4974208--4975700	4	382.8	4	94	5	2591	24	0	25	49	1.55
4976143--4976183	8	5.2	8	82	5	57	34	0	29	36	1.58
4976885--4976948	28	2.2	30	83	10	80	37	1	4	56	1.30
4977468--4977537	21	3.3	20	90	5	95	18	27	35	18	1.94
4977541--4977588	21	2.3	21	85	0	60	22	12	39	25	1.89
4979276--4979346	31	2.3	32	80	11	85	61	1	1	35	1.13
4979303--4979371	34	2.1	33	81	8	77	65	4	1	28	1.21
4981393--4981435	22	2.0	22	100	0	86	51	13	0	34	1.42
4981395--4981443	22	2.2	22	88	3	71	55	12	2	30	1.48
4981415--4981544	32	4.4	32	77	18	154	53	8	1	36	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4981438--4981490	14	3.5	14	72	18	52	56	5	0	37	1.23
4981383--4981544	86	1.9	86	96	0	297	53	8	1	37	1.40
4981481--4981529	22	2.2	22	85	3	62	55	10	2	32	1.45
4981524--4981626	15	6.5	15	76	15	100	50	1	0	47	1.12
4981470--4981626	67	2.3	67	85	5	201	50	4	0	43	1.26
4981567--4981626	30	2.0	30	100	0	120	46	0	0	53	1.00
4985371--4985457	43	2.0	43	100	0	174	39	11	22	26	1.88
4985388--4985456	21	3.2	21	64	11	59	42	13	21	23	1.88
4987881--4987928	24	2.0	24	84	12	62	54	2	2	41	1.24
4988376--4988418	22	1.9	23	86	13	63	51	0	2	46	1.13
4988366--4988424	29	2.0	29	80	6	66	49	0	5	45	1.24
4989069--4989106	20	1.9	20	89	10	60	42	2	2	52	1.29
4989579--4989622	21	2.1	21	87	8	63	56	0	2	40	1.11
4989680--4989867	95	2.0	95	100	0	376	44	15	22	18	1.87
5009192--5009219	2	14.0	2	100	0	56	50	0	0	50	1.00
5018365--5018434	34	2.0	36	91	5	117	32	34	11	21	1.89
5021689--5022057	186	2.0	183	95	4	663	29	19	16	34	1.94
5037275--5037312	20	1.9	20	84	10	51	44	2	0	52	1.14
5038828--5038870	18	2.5	17	76	3	50	27	2	9	60	1.40
5039737--5039779	21	2.0	21	86	0	59	65	4	0	30	1.13
5039776--5039807	15	2.0	17	88	11	50	46	6	15	31	1.71
5039803--5039845	21	2.0	21	81	0	50	53	6	6	32	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5040345--5040379	3	11.7	3	100	0	70	31	0	0	68	0.90
5045644--5046143	250	2.0	253	95	1	907	29	24	16	29	1.96
5047106--5047140	11	3.2	11	91	0	61	0	2	8	88	0.61
5054387--5054444	2	29.0	2	100	0	116	50	0	0	50	1.00
5065121--5065155	18	1.9	18	88	11	54	62	0	0	37	0.95
5065603--5065666	4	16.0	4	93	0	101	25	4	0	70	1.06
5082896--5082958	2	31.5	2	100	0	126	50	0	0	49	1.00
5091128--5091178	19	2.6	20	87	6	61	39	1	1	56	1.22
5091135--5091178	19	2.3	19	92	0	70	40	2	2	54	1.25
5094546--5094638	7	13.3	7	100	0	186	29	29	13	27	1.95

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