genome.fa.s761.2.7.7.80.10.50.1000.18.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: VEPZ01000761.1 Hibiscus syriacus cultivar Beakdansim tig00001478_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5609167

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  18  of  23  ( 2686 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)
4434256--4434314	12	4.9	12	80	15	61	49	3	3	44	1.36
4446069--4446192	7	17.6	7	72	22	91	57	2	0	40	1.12
4446072--4446193	5	23.2	5	72	18	88	57	2	0	40	1.12
4446069--4446195	52	2.5	49	85	12	159	58	2	0	39	1.11
4447562--4447597	17	2.1	17	100	0	72	16	38	11	33	1.84
4447699--4447825	40	3.2	40	86	4	150	24	22	8	44	1.80
4462574--4462797	95	2.4	94	81	4	227	32	16	24	27	1.96
4463201--4463363	78	2.1	79	85	1	220	39	10	22	27	1.87
4463288--4463543	45	5.7	45	87	2	273	38	9	22	29	1.86
4463315--4463558	90	2.7	90	84	3	330	40	9	21	29	1.84
4463328--4463582	135	1.9	134	82	4	325	40	8	20	30	1.81
4471181--4471454	45	6.1	45	87	2	363	39	10	22	28	1.87
4471214--4471493	90	3.1	88	77	8	278	40	10	19	30	1.84
4472807--4472864	21	2.9	20	84	5	64	65	3	0	31	1.09
4472813--4473124	5	63.6	5	69	21	132	57	2	1	38	1.22
4472853--4473112	2	141.0	2	68	25	130	55	3	1	40	1.25
4472829--4473105	7	40.1	7	74	15	199	55	3	1	39	1.25
4483482--4483569	39	2.3	39	82	4	106	35	18	27	19	1.95
4485784--4485837	20	2.6	21	94	5	101	33	18	18	29	1.95
4485784--4485850	20	3.3	20	87	10	84	31	19	22	26	1.98
4488668--4488695	10	2.8	10	100	0	56	42	0	25	32	1.55
4489874--4489939	33	2.1	31	91	8	107	30	21	19	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4500030--4500219	31	6.1	31	77	8	179	32	16	18	32	1.94
4500030--4500195	63	2.7	63	92	2	264	32	16	18	33	1.93
4504800--4505206	54	7.5	54	91	1	618	36	16	14	31	1.90
4511748--4512089	54	6.3	54	86	3	427	38	16	12	32	1.86
4511748--4512089	163	2.1	164	85	2	447	38	16	12	32	1.86
4517770--4517889	57	2.1	57	98	1	231	26	16	12	44	1.84
4521621--4521665	20	2.2	20	84	0	63	42	11	22	24	1.86
4525532--4525579	25	1.9	25	83	8	62	72	8	10	8	1.27
4531049--4531113	25	2.6	25	100	0	130	36	23	13	26	1.92
4534726--4534770	22	2.0	22	91	0	72	40	8	13	37	1.76
4538247--4538407	44	3.7	44	83	3	164	29	23	14	32	1.94
4538135--4538407	43	6.3	44	77	6	200	31	23	13	31	1.93
4538396--4538556	85	1.9	85	94	0	286	36	21	14	26	1.93
4538397--4538556	43	3.7	43	89	1	250	36	21	15	26	1.93
4539248--4539359	54	2.1	54	91	0	179	42	13	20	23	1.87
4541868--4541906	2	19.5	2	100	0	78	48	0	0	51	1.00
4542732--4542803	31	2.4	29	83	6	81	58	4	8	29	1.46
4545771--4545810	17	2.4	17	87	8	55	35	5	0	60	1.19
4546579--4546612	15	2.3	15	89	0	50	38	11	17	32	1.86
4548348--4548480	67	2.0	67	93	0	230	28	23	16	31	1.96
4548364--4548468	30	3.3	30	65	21	77	28	22	17	31	1.96
4559840--4560220	190	2.0	190	98	0	744	27	13	27	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4561616--4561733	40	3.0	40	100	0	236	27	12	17	41	1.86
4562002--4562045	21	2.1	21	87	8	63	27	0	0	72	0.85
4564104--4564176	38	1.9	37	83	2	92	28	8	38	24	1.84
4564222--4564268	20	2.3	21	82	14	62	19	6	0	74	1.03
4567381--4567778	36	11.1	35	79	11	382	26	19	13	40	1.88
4567356--4567778	73	5.9	70	74	14	289	26	19	13	40	1.89
4567520--4567584	21	3.4	21	66	24	61	24	18	12	44	1.84
4567381--4567768	109	3.6	110	81	9	462	26	19	13	40	1.88
4567356--4567739	138	2.7	138	81	9	388	26	19	13	40	1.88
4567727--4568049	67	4.7	68	76	12	302	32	20	11	35	1.88
4567831--4567947	35	3.4	35	87	5	161	38	19	11	30	1.87
4570840--4571052	91	2.3	91	82	5	250	39	7	20	32	1.80
4570840--4571055	47	4.8	45	83	6	247	40	7	19	32	1.80
4571856--4571899	3	14.7	3	82	17	56	34	0	0	65	0.93
4571856--4571899	10	4.5	10	88	11	65	34	0	0	65	0.93
4571856--4571899	13	3.4	13	84	15	56	34	0	0	65	0.93
4571856--4571899	16	2.9	15	84	15	56	34	0	0	65	0.93
4571860--4571899	19	2.2	18	95	4	71	32	0	0	67	0.91
4574343--4574378	15	2.4	15	90	0	54	25	8	19	47	1.77
4575236--4575287	21	2.5	21	81	3	61	38	19	25	17	1.93
4575276--4575410	20	6.7	20	78	7	130	33	23	17	25	1.96
4575273--4575404	61	2.2	61	88	0	192	35	23	16	24	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4575571--4575614	22	2.0	22	90	0	70	20	43	15	20	1.88
4575860--4575897	20	1.9	20	100	0	76	21	21	26	31	1.98
4575859--4575909	20	2.5	20	87	0	75	15	19	25	39	1.91
4576059--4576113	25	2.2	24	78	15	58	20	9	18	52	1.71
4577235--4577279	18	2.5	18	85	0	63	26	42	15	15	1.87
4577755--4577821	20	3.4	20	81	2	73	38	23	22	14	1.92
4577755--4577857	19	5.6	19	75	14	72	41	23	21	13	1.88
4577869--4577925	14	3.8	14	76	17	60	12	17	22	47	1.81
4577885--4577941	18	3.4	18	76	18	77	14	19	21	45	1.85
4577864--4577941	32	2.4	32	95	0	138	12	19	21	46	1.83
4580023--4580114	20	4.6	20	73	2	76	21	18	20	39	1.93
4580102--4580150	20	2.4	20	86	3	62	22	22	16	38	1.92
4580915--4580968	24	2.2	24	90	0	81	25	16	20	37	1.93
4583366--4583492	33	3.8	33	86	4	193	43	18	22	14	1.87
4583367--4583499	66	2.0	66	95	0	239	42	18	22	16	1.89
4583521--4583567	19	2.5	19	96	0	85	12	21	21	44	1.85
4583675--4583711	14	2.6	14	91	0	65	45	24	0	29	1.53
4585066--4585132	21	3.2	21	68	4	55	19	20	35	23	1.95
4585406--4585590	91	2.0	90	89	6	282	46	18	12	22	1.83
4586708--4586752	22	2.0	22	100	0	90	31	20	0	48	1.49
4587286--4587405	52	2.3	52	91	0	204	47	20	20	10	1.80
4587286--4587410	19	7.1	19	71	17	99	46	20	21	11	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4587984--4588036	20	2.7	20	93	0	88	26	20	28	24	1.99
4587985--4588079	20	4.7	20	77	5	82	23	18	24	33	1.97
4588068--4588139	20	3.5	20	86	1	90	18	22	18	41	1.90
4588170--4588210	21	2.0	21	85	0	55	34	31	17	17	1.93
4595058--4595152	35	2.7	35	81	1	111	40	24	3	32	1.71
4596079--4596176	35	2.8	35	82	1	108	29	0	25	44	1.54
4602445--4602612	78	2.2	77	89	8	252	25	22	22	30	1.99
4606379--4606510	20	6.6	20	99	0	255	39	21	20	18	1.93
4606497--4606583	20	4.3	20	92	0	138	31	26	19	22	1.98
4606397--4606528	60	2.2	60	89	5	178	38	21	20	18	1.93
4607425--4607471	24	1.9	24	91	4	76	25	21	17	36	1.94
4609893--4609966	20	3.7	20	90	3	114	36	25	20	17	1.94
4609958--4610011	14	3.5	14	73	22	54	44	20	24	11	1.83
4609938--4610033	33	2.8	33	92	3	147	43	20	22	12	1.86
4609971--4610039	19	3.8	19	73	21	76	46	18	21	13	1.83
4610039--4610103	33	1.9	34	87	3	96	12	24	21	41	1.87
4610201--4610237	14	2.6	14	86	0	56	48	21	0	29	1.50
4611593--4611704	42	2.7	42	80	5	111	22	16	38	22	1.93
4612188--4612349	20	8.3	20	80	10	147	36	22	20	19	1.95
4612215--4612365	76	2.0	76	93	0	257	36	21	22	19	1.95
4612394--4612511	20	5.5	20	76	15	101	18	17	22	41	1.90
4612445--4612488	14	3.1	14	83	0	61	11	15	22	50	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4614373--4614413	20	2.0	20	95	0	73	56	21	14	7	1.63
4614378--4614516	20	7.3	20	72	12	96	42	25	17	15	1.88
4614378--4614549	73	2.3	73	94	1	299	43	25	18	13	1.87
4614396--4614550	20	8.5	19	71	18	105	41	25	18	14	1.89
4614886--4614951	22	3.0	22	88	0	96	21	13	39	25	1.90
4615177--4615252	21	3.5	21	83	3	98	43	14	22	19	1.87
4618720--4618749	15	2.0	15	93	0	51	0	26	43	30	1.55
4621608--4621731	60	2.1	60	89	1	187	36	13	13	36	1.85
4621620--4621744	60	2.1	60	86	3	171	36	15	12	36	1.84
4621935--4622075	60	2.4	60	83	8	164	36	14	15	33	1.88

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23