genome.fa.s8082.2.7.7.80.10.50.1000.22.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: VEPZ01008082.1 Hibiscus syriacus cultivar Beakdansim tig00110584_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6025995

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   

This is table  22  of  28  ( 3312 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)
4420713--4420762	21	2.4	21	80	6	57	50	0	2	48	1.12
4421086--4421271	92	2.0	93	95	1	338	38	13	16	31	1.88
4423637--4423678	19	2.2	19	91	8	68	38	4	0	57	1.20
4423635--4423735	12	7.8	14	66	24	53	36	3	1	57	1.29
4423637--4423692	19	3.0	20	84	10	64	37	5	1	55	1.33
4423658--4423720	26	2.5	25	75	14	65	36	3	3	57	1.31
4423705--4423738	15	2.4	14	90	5	50	35	2	0	61	1.11
4431494--4431519	13	2.0	13	100	0	52	15	7	15	61	1.55
4432063--4432283	44	5.0	44	90	1	345	24	21	12	41	1.87
4434509--4434682	73	2.4	73	80	7	201	35	14	10	39	1.81
4434552--4434688	36	3.8	35	76	9	116	30	14	10	44	1.78
4434556--4435083	39	14.0	36	71	12	138	32	15	12	39	1.84
4434648--4434791	76	1.9	76	81	8	177	34	18	9	37	1.84
4434819--4435071	39	6.6	39	83	2	300	30	15	15	39	1.88
4435090--4435259	59	2.9	59	87	4	254	29	25	10	34	1.90
4435085--4435289	59	3.5	57	81	10	234	29	26	11	32	1.91
4435240--4435475	92	2.6	92	84	1	303	33	24	16	25	1.96
4436524--4436563	16	2.4	18	80	16	50	80	0	5	15	0.88
4437572--4437596	5	5.0	5	100	0	50	40	0	0	60	0.97
4437554--4437746	92	2.0	97	93	4	333	31	1	9	56	1.41
4440117--4440169	21	2.5	21	84	0	61	41	18	18	20	1.91
4445550--4445637	47	1.9	46	83	4	115	55	11	11	21	1.66
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4447448--4447481	17	2.0	17	88	0	50	23	0	2	73	0.97
4451257--4451298	22	1.9	22	85	9	59	14	9	7	69	1.37
4454052--4454093	22	1.9	22	90	9	68	14	11	4	69	1.34
4458758--4458795	20	1.9	20	94	0	67	21	26	26	26	1.99
4458962--4459000	20	2.0	19	85	5	51	43	12	28	15	1.83
4460402--4460469	25	2.5	28	77	15	81	26	0	0	73	0.83
4460407--4460470	6	9.8	6	77	15	56	25	0	0	75	0.81
4461838--4461880	22	1.9	23	85	4	61	11	20	0	67	1.22
4466441--4466523	43	1.9	43	82	0	103	30	25	18	26	1.98
4466484--4467004	240	2.2	241	84	2	661	33	22	16	27	1.95
4467184--4467500	36	9.2	36	73	17	244	28	19	12	40	1.88
4467542--4467643	37	2.8	36	82	2	132	27	22	12	37	1.91
4467629--4467756	33	3.9	33	85	6	170	40	17	9	32	1.82
4467940--4468182	83	3.0	82	81	4	251	32	24	18	24	1.97
4468403--4468472	3	23.0	3	88	2	104	30	2	0	67	1.05
4469865--4469913	23	2.2	22	82	14	64	18	16	0	65	1.28
4469872--4469913	21	1.9	22	90	9	68	14	16	0	69	1.20
4469996--4470023	6	4.7	6	100	0	56	46	0	0	53	1.00
4471178--4471218	20	2.0	20	95	0	73	9	26	36	26	1.88
4471477--4471508	12	2.7	12	100	0	64	46	6	9	37	1.61
4473713--4473763	22	2.4	22	80	6	61	21	25	31	21	1.98
4477847--4477910	2	33.5	2	90	9	107	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)
4478445--4478490	24	1.9	24	100	0	92	41	15	13	30	1.85
4479685--4479742	30	1.9	30	89	0	89	34	17	8	39	1.80
4482234--4482275	20	2.1	20	86	0	57	11	11	14	61	1.56
4486856--4486932	14	5.5	14	87	0	118	7	12	16	62	1.53
4487289--4487354	34	1.9	34	81	6	80	16	15	16	51	1.77
4489104--4489131	2	14.0	2	100	0	56	50	0	0	50	1.00
4489565--4489609	16	2.8	16	82	0	63	33	13	11	42	1.79
4491094--4491196	3	34.7	3	89	1	154	33	0	0	66	0.99
4492800--4492852	17	3.1	18	72	10	56	54	0	5	39	1.24
4504889--4505201	84	3.7	84	97	0	590	26	15	22	35	1.93
4505814--4506567	113	6.7	113	96	0	1294	37	12	20	29	1.90
4506858--4506955	3	32.7	3	87	4	144	32	1	0	66	0.99
4508558--4508610	17	3.1	18	72	10	56	54	0	5	39	1.24
4511672--4511704	16	2.0	17	88	5	50	69	0	6	24	1.10
4518384--4518412	15	1.9	15	100	0	58	34	31	0	34	1.58
4519469--4519526	23	2.6	23	81	5	75	36	15	15	32	1.89
4535185--4535882	118	6.1	118	69	13	459	37	13	16	32	1.87
4535280--4535987	225	3.1	225	87	2	1026	38	12	15	32	1.86
4538255--4539547	444	2.9	442	88	3	1864	30	14	15	40	1.87
4542514--4543461	200	4.7	200	91	0	1464	31	14	13	41	1.84
4548031--4548061	12	2.6	12	100	0	62	0	41	0	58	0.98
4548043--4548082	21	1.9	21	84	0	53	5	47	0	47	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4550346--4551013	194	3.4	195	90	1	1038	30	13	12	42	1.81
4550825--4551216	174	2.3	174	91	0	624	30	13	11	43	1.81
4551648--4551718	28	2.7	26	93	6	117	64	8	12	14	1.48
4551732--4551767	17	2.2	16	90	5	54	66	0	0	33	0.92
4558583--4558639	23	2.5	23	80	8	62	28	3	10	57	1.48
4561100--4561170	20	3.5	20	78	0	70	26	21	15	36	1.93
4561707--4561745	20	2.0	20	100	0	78	51	15	12	20	1.76
4563319--4563471	42	3.6	42	87	0	171	26	38	13	20	1.90
4563585--4563638	21	2.6	21	87	0	81	20	12	29	37	1.90
4563653--4563761	21	5.2	21	73	6	87	18	11	33	36	1.87
4563653--4563748	42	2.3	43	76	5	115	18	9	35	36	1.83
4563580--4563761	63	2.9	62	76	3	184	19	11	32	35	1.88
4564045--4564089	21	2.1	21	92	8	74	22	31	15	31	1.95
4564098--4564148	21	2.4	21	93	0	84	27	37	11	23	1.90
4564136--4564176	21	2.0	21	90	0	64	24	39	14	21	1.91
4565630--4565676	20	2.3	20	96	0	85	40	17	27	14	1.89
4565750--4565855	54	2.0	54	80	0	122	21	14	21	42	1.88
4565804--4565842	20	2.0	20	90	10	62	20	12	17	48	1.80
4567366--4567420	19	2.9	19	74	15	60	65	1	9	23	1.31
4567505--4567631	22	5.7	21	72	18	78	66	0	3	29	1.15
4567587--4567680	22	4.2	21	71	16	57	65	2	3	28	1.19
4567633--4567701	29	2.3	30	78	12	70	63	1	5	28	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4567755--4567803	21	2.2	21	82	10	53	61	0	4	34	1.15
4567824--4567879	23	2.4	25	79	11	64	66	1	0	32	1.03
4568271--4568372	37	2.8	37	86	0	132	32	13	13	40	1.84
4569125--4570397	106	12.0	106	92	1	1975	22	18	24	34	1.96
4570911--4570946	18	2.0	18	94	0	63	47	27	5	19	1.72
4571008--4571032	12	2.1	12	100	0	50	48	0	16	36	1.46
4571300--4571355	22	2.5	22	88	0	85	26	12	25	35	1.91
4571933--4571980	15	3.1	15	83	13	62	2	10	6	81	0.95
4571928--4571975	18	2.7	18	83	6	53	2	10	6	81	0.95
4576365--4576420	20	2.9	19	75	19	62	66	1	8	23	1.30
4576520--4576600	22	3.6	22	72	22	62	65	0	3	30	1.10
4576542--4576634	22	3.9	24	71	17	86	62	1	3	33	1.18
4576507--4576706	18	10.6	20	65	24	64	63	1	4	30	1.23
4576761--4576790	11	2.9	10	90	9	51	60	0	0	40	0.97
4576819--4576883	23	2.8	24	79	13	64	67	1	1	29	1.09
4576836--4576880	19	2.4	18	81	3	54	66	2	0	31	1.04
4577284--4577379	37	2.6	37	91	0	147	31	11	15	41	1.83
4579086--4579131	19	2.4	19	88	0	65	41	8	19	30	1.82
4579098--4579135	19	2.0	19	94	0	67	39	10	18	31	1.85
4579859--4580252	20	19.5	20	73	12	157	31	14	22	30	1.94
4580020--4580252	60	3.8	60	79	8	238	27	18	23	30	1.98
4580040--4580252	20	10.5	20	80	6	214	26	19	23	30	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4580769--4581215	180	2.4	182	85	3	585	39	8	12	39	1.73
4582162--4582384	110	2.0	110	88	7	329	30	9	9	50	1.67
4585438--4585878	44	10.0	44	91	1	679	33	18	7	40	1.78
4586011--4586205	60	3.3	59	83	8	186	28	21	11	38	1.89
4586031--4586186	60	2.6	60	87	4	226	30	23	11	34	1.90
4586192--4586522	59	5.6	59	87	3	452	29	21	11	37	1.89
4586030--4586523	118	4.2	118	81	7	481	29	22	11	36	1.89
4589959--4590022	12	5.4	11	78	15	56	32	1	3	62	1.20
4591743--4591801	21	2.8	21	78	0	82	8	28	40	22	1.83
4596765--4596828	31	2.1	31	82	5	76	45	3	1	50	1.27

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