genome.fa.s2647.2.7.7.80.10.50.1000.18.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: VEPZ01002647.1 Hibiscus syriacus cultivar Beakdansim tig00005406_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7027529

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   

This is table  18  of  26  ( 3011 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)
4537953--4538051	50	2.0	48	90	3	153	32	23	26	18	1.97
4538640--4538675	13	2.8	13	91	4	56	19	19	0	61	1.35
4538479--4538873	195	2.0	195	96	0	718	25	25	3	45	1.70
4542696--4542887	96	2.0	96	82	4	235	23	20	18	38	1.94
4549367--4549404	20	1.9	20	88	0	58	42	7	7	42	1.63
4549368--4549410	19	2.2	20	83	4	52	46	6	9	37	1.63
4558180--4558213	16	2.2	16	89	5	52	0	20	0	79	0.73
4558202--4558255	23	2.2	25	87	6	76	9	16	12	61	1.56
4562136--4562169	16	2.2	16	89	5	52	0	20	0	79	0.73
4565590--4565632	18	2.4	18	84	3	52	76	4	16	2	1.05
4569670--4569720	24	2.2	23	89	3	75	60	11	21	5	1.52
4573945--4573995	24	2.2	23	89	3	75	60	11	21	5	1.52
4578858--4578906	15	3.2	16	78	18	59	77	6	16	0	0.96
4586936--4586995	24	2.5	24	81	7	70	60	10	20	10	1.57
4588065--4588115	24	2.1	24	85	0	66	35	11	17	35	1.87
4592368--4592410	21	2.1	20	87	12	61	62	0	20	16	1.32
4603395--4603425	6	5.3	6	92	7	55	0	16	0	83	0.64
4603395--4603425	11	2.7	11	95	5	53	0	16	0	83	0.64
4605827--4605873	19	2.5	19	96	0	85	29	27	17	25	1.97
4606336--4606386	24	2.1	24	85	0	66	33	17	11	37	1.86
4607963--4609260	474	2.7	473	90	1	1992	30	25	19	24	1.98
4611148--4611202	23	2.3	25	78	15	62	63	14	14	7	1.50
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4611148--4611208	24	2.6	23	77	15	61	62	13	16	8	1.53
4621930--4622009	35	2.2	37	91	4	128	31	37	3	27	1.74
4622423--4622496	15	4.8	16	71	17	66	52	4	10	32	1.55
4622425--4622496	31	2.3	31	100	0	144	52	4	11	31	1.56
4627231--4627284	23	2.2	25	87	6	76	9	16	11	62	1.52
4632365--4632389	13	1.9	13	100	0	50	16	0	32	52	1.44
4636427--4636474	24	2.0	25	83	4	62	50	12	25	12	1.75
4645062--4645099	18	2.1	18	95	0	67	34	36	7	21	1.82
4656774--4656876	36	2.9	36	92	1	172	29	4	36	29	1.78
4657215--4657264	19	2.5	20	87	3	66	46	6	14	34	1.69
4659979--4660083	36	2.9	36	88	1	167	29	4	36	29	1.78
4664027--4664092	8	7.6	8	74	15	60	3	15	3	78	0.99
4675816--4675865	21	2.5	19	90	6	73	38	14	6	42	1.70
4691529--4691597	20	3.3	20	70	21	61	31	24	23	20	1.98
4691508--4691600	42	2.2	42	88	3	134	32	24	21	21	1.98
4695780--4695809	15	1.9	16	93	6	53	53	3	13	30	1.56
4703122--4703163	19	2.2	19	91	8	68	59	0	14	26	1.35
4704480--4704509	2	15.5	2	93	6	53	50	0	0	50	1.00
4707743--4707784	19	2.2	19	91	8	68	59	0	14	26	1.35
4711435--4711483	24	2.0	24	92	7	82	26	20	20	32	1.97
4715745--4715875	42	3.1	42	85	0	190	32	25	21	20	1.97
4720634--4720672	17	2.4	17	95	4	71	46	0	23	30	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4723519--4723547	15	2.0	15	93	6	51	0	20	3	75	0.94
4730957--4730998	17	2.5	17	84	0	57	42	11	14	30	1.81
4737562--4737603	17	2.5	17	84	0	57	42	11	14	30	1.81
4744930--4744956	14	1.9	14	100	0	54	14	0	0	85	0.61
4744929--4744963	14	2.5	14	85	0	52	11	2	5	80	1.00
4746369--4746410	17	2.5	17	84	0	57	42	11	14	30	1.81
4751006--4751041	18	1.9	19	88	5	56	16	25	5	52	1.65
4751908--4751933	7	3.7	7	100	0	52	11	0	0	88	0.52
4756889--4756964	35	2.1	36	85	2	91	28	39	2	28	1.70
4759788--4759829	17	2.5	17	84	0	57	42	11	14	30	1.81
4761832--4761889	30	2.0	29	86	3	80	12	12	3	72	1.24
4763290--4763331	17	2.5	17	84	0	57	42	11	14	30	1.81
4765066--4765118	16	3.4	16	94	2	90	5	35	13	45	1.67
4766818--4766859	17	2.5	17	84	0	57	42	11	14	30	1.81
4768503--4768534	16	2.0	16	93	0	55	12	37	3	46	1.57
4768785--4768844	31	2.0	30	90	3	93	13	11	3	71	1.26
4775372--4775400	15	2.0	15	93	6	51	75	3	20	0	0.94
4782089--4782152	15	4.4	14	70	21	51	62	0	21	15	1.32
4787755--4787796	22	1.9	22	85	9	59	40	19	0	40	1.51
4794366--4794405	16	2.4	16	91	4	62	37	30	27	5	1.78
4794375--4794409	16	2.2	16	100	0	70	28	34	31	5	1.81
4794414--4794448	18	1.9	18	88	11	54	20	34	31	14	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4795132--4795170	16	2.4	16	100	0	78	25	12	15	46	1.81
4796745--4796776	13	2.5	13	100	0	64	25	46	0	28	1.53
4802587--4802629	23	1.9	21	81	13	50	34	13	18	32	1.90
4803850--4803909	23	2.6	23	78	7	68	10	15	10	65	1.48
4803865--4803909	23	2.0	23	90	0	72	11	13	13	62	1.55
4808941--4808970	10	3.0	10	100	0	60	30	10	30	30	1.90
4811596--4811630	18	2.0	18	88	5	54	14	8	17	60	1.58
4816486--4816523	13	2.8	14	88	4	51	26	44	0	28	1.54
4827378--4827448	18	3.7	18	77	22	65	7	15	1	76	1.07
4827381--4827461	17	4.7	16	75	13	72	7	14	1	76	1.06
4827391--4827483	11	8.5	10	70	15	60	5	13	3	77	1.07
4827381--4827477	17	5.8	17	70	22	71	6	14	2	77	1.05
4827452--4827492	14	2.9	14	88	3	64	0	14	4	80	0.87
4827380--4827490	17	6.8	15	69	23	57	5	14	2	77	1.06
4830336--4830436	47	2.2	46	87	3	141	30	24	5	38	1.79
4841788--4841930	72	2.0	72	88	0	214	46	17	7	27	1.75
4841788--4841930	36	4.0	36	80	5	164	46	17	7	27	1.75
4843890--4843915	2	13.0	2	100	0	52	50	0	0	50	1.00
4846182--4846355	51	3.4	51	73	3	163	40	23	7	28	1.81
4848345--4848503	80	2.0	80	97	0	300	46	11	14	27	1.79
4850357--4850732	36	10.5	35	80	3	349	38	18	14	29	1.89
4850338--4850732	108	3.7	107	79	3	396	38	17	14	29	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4855830--4855868	21	1.9	20	84	5	51	35	20	15	28	1.93
4865422--4865524	2	51.5	2	100	0	206	49	0	0	50	1.00
4865677--4865845	81	2.1	81	82	2	196	28	21	12	37	1.90
4866209--4866259	26	2.0	26	96	0	93	23	21	7	47	1.77
4871341--4871423	26	3.4	26	77	12	97	22	20	8	48	1.76
4871749--4871826	22	3.6	22	69	19	65	26	24	14	34	1.93
4871752--4871885	41	3.2	41	87	4	180	26	25	12	35	1.92
4871820--4871885	19	3.3	19	65	19	53	25	25	12	36	1.91
4871794--4871865	22	3.4	21	65	18	51	29	22	13	34	1.93
4875198--4875284	17	5.1	16	72	12	57	78	2	16	3	0.99
4875237--4875356	17	7.3	16	76	16	86	83	0	7	9	0.82
4875236--4875355	1	120.0	1	68	0	69	84	0	7	8	0.79
4875222--4875309	17	4.9	17	82	10	88	81	2	11	4	0.92
4875203--4875350	7	20.6	7	79	16	83	81	1	9	7	0.92
4875201--4875355	8	18.6	8	75	17	81	81	1	10	7	0.93
4875201--4875356	51	3.1	49	77	16	135	80	1	10	7	0.95
4875253--4875350	12	7.7	13	83	10	98	84	0	5	10	0.76
4877911--4878582	136	4.9	136	86	0	880	34	18	20	26	1.95
4881839--4882039	51	3.9	52	80	5	171	35	20	11	31	1.89
4886551--4886599	18	2.7	18	93	0	80	44	8	36	10	1.68
4887509--4887569	16	3.8	16	97	0	113	49	14	16	19	1.80
4889244--4889313	31	2.3	31	82	5	79	27	24	12	35	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4889255--4889321	31	2.1	32	88	2	100	22	29	13	34	1.92
4890238--4890503	140	1.9	140	97	0	505	28	15	28	27	1.96
4891210--4891393	64	2.9	65	78	5	214	29	26	17	27	1.97
4891210--4891369	65	2.5	65	84	3	207	30	26	16	27	1.97
4897792--4897990	36	5.6	36	79	7	181	44	17	11	27	1.82
4899020--4899174	77	2.0	78	81	9	183	45	5	10	38	1.62
4899532--4899688	36	4.3	36	81	3	163	39	17	14	29	1.88
4903234--4903408	51	3.4	50	71	10	149	41	22	6	29	1.80
4906685--4906728	23	1.9	23	90	0	70	22	36	15	25	1.94
4907535--4907957	36	11.8	36	91	2	670	18	23	22	34	1.96

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