genome.fa.s8959.2.7.7.80.10.50.1000.19.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: VEPZ01008959.1 Hibiscus syriacus cultivar Beakdansim tig00112293_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4521124

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  19  of  21  ( 2431 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)
3951828--3951865	3	13.0	3	83	5	51	63	2	0	34	1.09
3952241--3952412	43	4.0	43	81	6	195	30	27	13	29	1.94
3952241--3952410	86	2.0	86	88	2	252	30	27	12	29	1.93
3952571--3952624	17	3.1	17	70	15	56	24	18	11	46	1.81
3952574--3952632	19	3.3	18	67	23	52	18	22	8	50	1.73
3952695--3952870	91	1.9	92	91	3	293	24	23	14	37	1.92
3953498--3953640	66	2.2	65	81	8	168	41	14	16	27	1.87
3953588--3954025	36	12.4	36	83	7	504	39	14	22	23	1.91
3953605--3953672	21	3.5	21	69	19	74	36	14	23	25	1.93
3953617--3953961	170	2.0	170	84	6	448	39	14	21	24	1.91
3953850--3954019	21	9.2	20	61	27	74	38	14	24	22	1.92
3953534--3953997	206	2.2	207	88	5	670	39	14	21	24	1.91
3953588--3954071	242	2.0	243	85	2	659	39	14	21	24	1.91
3954398--3954513	34	3.4	34	87	0	169	31	11	20	36	1.88
3954618--3954784	32	5.2	32	89	1	244	32	24	14	28	1.94
3955827--3955885	6	9.5	6	77	14	57	0	16	5	77	0.93
3955829--3955894	21	3.3	21	69	16	68	0	18	6	75	1.00
3955826--3955902	29	2.5	30	83	12	86	1	18	5	75	1.06
3955833--3955903	19	3.8	18	70	17	56	1	16	7	74	1.10
3957063--3957212	27	5.6	27	86	0	203	52	10	18	20	1.73
3957172--3957211	21	2.0	20	85	5	53	47	15	20	17	1.83
3957063--3957212	6	22.4	7	68	18	54	52	10	18	20	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3957063--3957212	14	11.2	13	68	17	67	52	10	18	20	1.73
3961967--3962004	3	13.0	3	83	5	51	63	2	0	34	1.09
3970763--3970825	21	2.9	22	81	11	67	69	1	4	23	1.16
3972454--3972486	2	16.5	2	100	0	66	51	0	0	48	1.00
3972770--3972900	34	3.8	33	74	11	102	40	13	13	32	1.84
3972907--3973136	37	6.4	36	77	8	101	40	9	18	32	1.82
3972953--3973053	37	2.7	37	85	0	139	38	8	20	31	1.84
3973766--3973824	20	2.9	21	84	5	75	28	10	25	35	1.89
3974818--3974872	16	3.2	17	85	12	69	54	5	5	34	1.46
3975193--3975241	1	49.0	1	83	0	62	0	8	0	91	0.41
3975193--3975241	24	2.1	23	92	3	80	0	8	0	91	0.41
3981249--3981306	9	6.6	9	82	9	66	84	0	15	0	0.62
3981240--3981310	24	2.9	24	85	10	99	81	0	18	0	0.69
3981243--3981315	12	5.8	12	83	15	78	80	0	17	1	0.78
3981638--3981671	16	2.2	16	94	5	61	32	5	5	55	1.48
3984113--3984174	3	20.0	3	83	6	52	56	0	0	43	0.99
3984382--3984605	121	1.8	122	84	5	310	25	16	14	42	1.86
3984523--3985007	113	4.3	113	81	4	555	30	18	13	36	1.90
3985527--3985837	83	3.6	83	92	3	469	25	12	24	37	1.90
3985527--3985837	175	1.8	166	88	6	478	25	12	24	37	1.90
3986214--3986318	52	2.0	52	98	0	201	35	13	18	33	1.89
3986698--3986883	95	2.0	95	83	2	239	34	13	17	34	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3986793--3987401	113	5.3	113	80	4	585	38	13	17	29	1.89
3986793--3987401	229	2.6	225	82	4	673	38	13	17	29	1.89
3987194--3987420	124	1.8	124	86	0	330	42	14	17	25	1.87
3987628--3987678	3	16.0	3	88	8	66	37	0	0	62	0.95
3994215--3994257	21	2.0	21	95	0	77	27	27	13	30	1.95
3996743--3996773	16	1.9	16	93	0	53	80	0	3	16	0.83
3999524--3999649	63	2.0	63	100	0	252	26	30	20	22	1.98
4012394--4012469	20	4.1	19	67	21	61	44	6	0	48	1.28
4012369--4012485	56	2.1	56	95	3	209	43	7	0	47	1.37
4013731--4013997	29	9.4	27	78	12	168	39	1	15	43	1.58
4013835--4013997	29	5.8	28	83	7	206	40	1	15	41	1.58
4013823--4013975	57	2.7	56	90	3	234	39	1	16	42	1.57
4013819--4013997	56	3.2	55	85	7	225	39	1	15	43	1.57
4016774--4016868	29	3.3	29	86	2	138	38	2	16	42	1.61
4016875--4017067	28	6.9	27	87	5	260	35	4	17	43	1.68
4021178--4021389	28	7.6	27	83	9	173	37	1	15	46	1.54
4021180--4021275	26	3.5	27	88	4	131	36	1	14	47	1.51
4021281--4021439	28	5.8	27	85	6	187	38	3	14	43	1.61
4021178--4021393	83	2.6	82	80	11	210	37	1	14	45	1.56
4021281--4021439	55	2.9	55	84	4	205	38	3	14	43	1.61
4021282--4021439	83	1.9	82	87	6	230	38	3	14	43	1.61
4024240--4024288	7	7.6	7	84	11	61	10	12	0	77	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4024225--4024319	10	9.7	10	72	21	53	8	9	0	82	0.86
4024237--4024312	12	6.4	12	82	10	79	9	7	0	82	0.83
4024240--4024321	19	4.7	19	82	14	72	8	9	0	81	0.87
4024238--4024322	7	12.3	7	80	12	59	8	9	0	82	0.85
4029681--4029731	20	2.5	20	83	0	66	17	27	0	54	1.43
4030909--4031053	76	1.9	75	87	2	202	26	2	14	55	1.53
4037361--4037448	5	16.8	5	73	13	61	19	9	1	70	1.20
4037361--4037403	11	3.8	11	93	6	77	16	6	0	76	0.99
4037352--4037450	23	4.3	23	75	18	91	18	9	2	70	1.23
4037412--4037448	19	1.9	19	88	0	56	18	5	0	75	0.99
4037412--4037447	14	2.5	15	90	4	56	19	5	0	75	1.00
4046505--4046562	18	3.1	19	75	18	59	56	3	0	39	1.16
4055554--4055602	24	2.0	24	100	0	98	38	8	8	44	1.64
4065653--4066430	133	5.8	132	83	4	859	27	17	24	30	1.97
4068910--4069040	65	2.0	65	100	0	262	16	38	10	33	1.84
4068942--4069044	31	3.2	31	62	22	77	16	37	9	35	1.82
4078489--4078571	6	13.0	6	70	12	58	15	7	3	73	1.19
4078495--4078547	22	2.7	20	82	14	65	16	9	3	69	1.30
4078526--4078573	25	1.9	25	87	8	71	14	8	2	75	1.13
4078489--4078575	12	6.8	12	71	17	68	14	8	3	73	1.20
4086606--4086894	43	6.7	43	83	4	325	18	23	23	35	1.96
4086832--4086921	43	2.1	42	81	6	101	24	23	18	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4088840--4088879	11	3.6	11	86	0	53	22	35	17	25	1.95
4091310--4091462	43	3.5	43	85	0	198	18	22	22	35	1.96
4093181--4093222	22	1.9	21	85	9	57	26	21	16	35	1.94
4093386--4093425	11	3.6	11	86	0	53	22	32	22	22	1.98
4095846--4096041	43	4.5	43	86	0	248	18	21	23	36	1.95
4097878--4098034	78	2.0	79	96	3	291	22	38	26	12	1.90
4099941--4100059	58	2.0	59	98	1	231	32	10	11	45	1.74
4103053--4103096	22	2.2	19	84	12	52	13	9	0	77	0.99
4103480--4103563	6	13.0	6	71	16	53	16	5	2	75	1.11
4103486--4103539	19	2.7	20	82	11	65	14	7	3	74	1.18
4103516--4103564	13	3.8	13	77	17	50	16	8	0	75	1.03
4108657--4108877	45	4.9	45	89	7	342	32	22	6	38	1.81
4108997--4109112	59	2.0	59	89	0	178	29	24	17	29	1.97
4114186--4114266	24	3.5	24	70	21	73	66	2	8	22	1.31
4114345--4114489	22	6.5	22	70	23	90	65	1	3	29	1.17
4114345--4114475	66	2.0	65	81	10	151	66	0	3	29	1.14
4114614--4114644	2	15.5	2	100	0	62	51	0	0	48	1.00
4115190--4115282	37	2.5	37	75	6	89	32	15	11	40	1.83
4116013--4117183	106	11.0	106	90	0	1696	22	18	24	34	1.96
4118121--4118175	22	2.5	22	93	0	92	25	10	27	36	1.89
4118783--4118845	32	2.0	31	82	17	76	3	11	6	79	1.03
4118808--4118854	25	1.9	24	86	4	67	2	12	6	78	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4122207--4122243	19	1.9	19	89	10	58	67	0	24	8	1.17
4123454--4123501	6	8.0	6	86	9	53	60	0	0	39	0.97
4123648--4123704	29	1.9	30	86	10	82	70	0	7	22	1.11
4123780--4123816	2	18.5	2	100	0	74	51	0	0	48	1.00
4124273--4124362	37	2.4	37	84	0	108	31	14	15	38	1.87
4151183--4151302	62	2.0	57	85	7	159	45	8	14	32	1.74
4152320--4152351	2	16.0	2	100	0	64	50	0	0	50	1.00
4152654--4152697	18	2.4	19	80	3	54	45	4	2	47	1.35
4153243--4153284	22	1.9	22	90	0	66	59	0	2	38	1.10
4155270--4155296	13	2.1	13	100	0	54	22	7	0	70	1.12

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