genome.fa.s8128.2.7.7.80.10.50.1000.19.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: VEPZ01008128.1 Hibiscus syriacus cultivar Beakdansim tig00110683_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4987688

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  ( 2387 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)
4535491--4535536	20	2.3	20	85	3	67	39	0	23	36	1.55
4539425--4539549	20	5.7	20	72	20	97	18	26	12	43	1.85
4539444--4539588	26	6.0	26	72	18	125	18	22	14	44	1.86
4539419--4539575	46	3.4	46	92	0	260	18	24	12	44	1.84
4545380--4545559	57	3.1	57	91	0	279	37	12	20	30	1.90
4546126--4546229	45	2.3	45	81	3	120	50	5	17	26	1.69
4548963--4549134	20	7.7	20	70	21	101	20	22	12	44	1.85
4548983--4549112	26	5.5	26	74	20	140	19	21	13	46	1.83
4548958--4549145	46	4.1	46	93	0	322	21	20	12	45	1.83
4549564--4549743	96	1.9	96	82	4	231	25	20	14	39	1.90
4552145--4552216	29	2.4	31	75	9	78	43	4	20	31	1.71
4560211--4560245	2	17.5	2	100	0	70	48	0	0	51	1.00
4562415--4562467	26	2.0	26	85	0	70	43	11	5	39	1.64
4565321--4565485	89	1.9	89	93	2	287	39	9	6	44	1.62
4565335--4565512	89	2.0	89	83	4	225	39	7	6	46	1.58
4575935--4576014	14	6.2	12	77	20	58	45	1	0	53	1.08
4575951--4576013	3	21.3	3	77	9	67	41	1	0	57	1.08
4578452--4578521	34	2.1	32	84	5	86	24	30	14	31	1.94
4578804--4578845	21	2.0	21	95	0	75	26	28	21	23	1.99
4578881--4578923	21	2.0	21	100	0	86	13	27	44	13	1.83
4578956--4579032	20	4.1	20	79	16	92	14	28	35	22	1.93
4578977--4579006	15	2.0	15	100	0	60	13	26	33	26	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4578957--4579026	35	2.0	35	91	0	113	15	28	32	22	1.95
4579122--4579181	29	2.0	31	93	6	106	43	16	6	33	1.74
4579340--4579408	22	3.1	22	97	0	129	34	1	8	55	1.40
4580487--4580534	19	2.5	20	82	3	62	29	12	6	52	1.63
4581394--4581463	34	2.1	32	89	5	104	21	31	15	31	1.95
4581746--4581787	21	2.0	21	95	0	75	26	28	21	23	1.99
4581900--4581929	15	2.0	15	93	0	51	16	26	33	23	1.96
4582025--4582084	29	2.0	31	93	6	106	43	16	6	33	1.74
4587343--4587411	34	2.1	35	81	10	83	73	0	15	10	1.08
4590151--4590418	36	7.4	36	79	4	288	35	20	18	25	1.96
4590143--4590434	72	4.0	72	86	5	367	35	20	19	24	1.95
4590151--4590419	108	2.5	109	83	1	326	34	21	18	25	1.96
4590436--4591018	56	10.6	56	79	7	402	34	16	21	26	1.95
4590766--4590928	55	3.0	54	88	1	236	32	15	22	29	1.95
4590765--4590975	55	3.9	55	81	9	220	32	16	22	28	1.95
4590599--4590975	110	3.4	109	77	6	289	33	15	22	27	1.95
4591221--4591292	3	24.3	3	79	8	76	40	2	0	56	1.13
4591202--4591293	36	2.5	37	87	7	134	43	2	0	54	1.12
4592763--4592805	21	2.0	21	86	8	61	39	4	46	9	1.57
4594382--4594451	2	35.0	2	97	0	131	50	1	0	48	1.09
4595440--4595491	15	3.7	15	72	15	56	44	0	0	55	0.99
4595450--4595491	12	3.5	12	90	0	66	47	0	0	52	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4601505--4601562	16	3.8	16	80	17	61	72	0	22	5	1.04
4601514--4601611	19	4.9	20	71	23	66	74	0	19	6	1.02
4601505--4601617	13	8.2	15	74	21	72	75	0	18	6	1.01
4601512--4601621	26	4.5	24	74	14	84	74	0	20	5	1.01
4601543--4601610	12	5.3	13	79	8	77	75	0	19	5	1.01
4603687--4604684	250	4.0	251	88	1	1416	32	16	17	33	1.92
4604696--4604892	62	3.2	62	83	2	254	24	22	14	38	1.92
4604871--4604938	29	2.3	29	80	5	75	32	20	17	29	1.96
4604816--4604983	91	1.9	90	84	3	230	26	23	14	35	1.94
4605031--4605233	86	2.3	86	78	5	212	30	18	19	32	1.96
4605220--4605432	55	3.9	55	85	3	295	31	22	18	27	1.97
4605210--4605432	109	2.0	110	89	4	344	32	22	17	27	1.96
4605387--4605572	80	2.3	82	82	4	218	36	20	18	23	1.95
4605701--4605726	3	8.7	3	100	0	52	34	0	30	34	1.58
4606726--4606774	3	16.7	3	87	4	73	36	0	2	61	1.08
4620322--4620388	17	3.8	17	90	7	91	77	0	13	8	0.98
4620322--4620403	34	2.4	35	86	8	116	78	0	13	8	0.97
4620304--4620395	17	5.3	17	73	21	75	77	1	13	8	1.05
4621275--4621625	136	2.6	136	93	0	594	34	18	22	24	1.96
4621542--4621716	92	1.9	92	89	2	271	40	15	21	23	1.91
4622079--4622121	3	14.7	3	85	4	61	37	0	2	60	1.10
4640449--4640499	15	3.4	14	84	13	57	80	1	9	7	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4640472--4640518	9	4.8	10	77	12	53	78	0	10	10	0.96
4641346--4641916	240	2.4	240	86	4	805	37	17	20	24	1.94
4644110--4644142	15	2.3	15	89	5	50	42	3	3	51	1.32
4645114--4645420	94	3.4	94	83	10	385	40	16	7	35	1.77
4645277--4645407	26	4.9	26	71	13	95	38	17	8	35	1.80
4645278--4645415	27	5.1	27	71	11	95	40	15	7	35	1.77
4645256--4645425	81	2.1	80	90	1	259	38	15	7	37	1.77
4645382--4645540	65	2.4	67	84	7	200	40	14	6	37	1.73
4645343--4645665	160	2.0	163	85	6	447	40	14	7	37	1.74
4645516--4645569	26	2.0	27	92	3	92	38	16	11	33	1.84
4645519--4645575	26	2.2	26	87	3	78	42	12	10	35	1.77
4645532--4645701	39	4.5	38	69	19	122	42	12	8	35	1.75
4647483--4647603	36	3.5	35	87	7	167	48	9	13	28	1.74
4647703--4647957	44	5.8	44	81	4	282	33	16	21	29	1.95
4647703--4647955	132	1.9	132	84	1	337	33	16	21	29	1.95
4658941--4659148	65	3.2	64	78	13	212	27	18	23	30	1.97
4659589--4659638	2	25.0	2	100	0	100	50	0	0	50	1.00
4660891--4660915	13	1.9	13	100	0	50	52	8	8	32	1.60
4661337--4661412	23	3.5	22	75	12	84	25	23	25	26	2.00
4661337--4661412	21	3.5	20	75	15	64	25	23	25	26	2.00
4667212--4667336	45	2.7	46	87	6	175	32	16	20	30	1.95
4670455--4670519	22	3.2	21	67	24	59	26	7	15	50	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4670447--4670526	38	2.1	38	95	0	142	27	6	18	47	1.73
4677613--4677678	20	3.5	20	68	23	52	42	1	3	53	1.25
4686847--4686884	19	2.0	19	100	0	76	47	15	10	26	1.78
4687294--4687342	2	24.5	2	100	0	98	48	0	0	51	1.00
4696613--4696656	23	1.9	23	81	9	54	45	9	0	45	1.35
4705123--4705942	81	10.1	81	89	0	1192	29	24	11	34	1.91
4711815--4711859	20	2.2	20	88	7	65	37	2	8	51	1.46
4714012--4714048	19	1.9	19	94	0	65	43	5	16	35	1.71
4715260--4715300	20	2.0	21	86	9	59	31	0	7	60	1.24
4715483--4715526	21	2.1	21	82	0	52	22	43	22	11	1.85
4715496--4715545	20	2.5	20	96	3	91	14	44	26	16	1.85
4716519--4716698	81	2.2	81	88	0	261	30	22	12	35	1.91
4716633--4716763	65	2.0	65	87	0	190	35	22	9	32	1.87
4716552--4716998	146	2.9	148	83	9	510	31	22	11	33	1.91
4716698--4717080	81	4.7	81	83	2	502	31	22	11	33	1.90
4717573--4717625	21	2.5	21	93	0	97	22	20	13	43	1.86
4720374--4720443	3	23.0	3	91	8	115	64	0	0	35	0.94
4720572--4720619	22	2.2	22	88	7	71	47	4	0	47	1.21
4747619--4747660	22	1.9	22	90	9	68	47	4	0	47	1.23
4747618--4747666	22	2.3	20	78	21	64	44	4	0	51	1.20
4747733--4747765	2	17.0	2	93	6	59	51	0	0	48	1.00
4751681--4751740	28	2.1	28	93	0	102	50	6	0	43	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4751681--4751757	28	2.7	29	84	9	97	49	6	0	44	1.28
4751751--4751792	22	1.9	22	90	9	68	47	4	0	47	1.23
4751999--4752038	19	2.0	20	90	4	64	22	5	30	42	1.75
4754567--4754684	55	2.1	55	100	0	236	30	8	11	49	1.69
4754884--4754908	6	4.2	6	100	0	50	0	16	16	68	1.22
4768356--4768434	30	2.7	29	75	15	81	30	13	5	50	1.63
4768372--4768429	29	2.0	30	83	10	75	31	18	6	43	1.77
4769712--4770004	146	2.0	146	100	0	586	45	10	15	28	1.79
4772832--4772865	15	2.2	16	89	5	52	14	20	0	64	1.28
4772795--4772876	40	2.0	41	80	2	94	24	20	1	53	1.53

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