genome.fa.s2890.2.7.7.80.10.50.1000.21.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: VEPZ01002890.1 Hibiscus syriacus cultivar Beakdansim tig00005974_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5046466

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  21  of  21  ( 2516 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)
4866473--4866517	11	3.8	12	81	18	58	22	0	0	77	0.76
4866464--4866519	27	2.1	27	83	6	69	23	0	0	76	0.78
4867924--4868046	53	2.3	53	85	2	158	34	17	21	26	1.95
4868016--4868065	19	2.6	19	93	0	82	24	20	32	24	1.98
4868426--4868591	58	2.8	58	83	5	210	35	13	19	31	1.90
4868447--4868592	59	2.5	59	84	5	190	36	12	17	32	1.87
4868922--4869379	68	6.7	68	92	0	711	32	13	23	30	1.93
4869517--4869571	2	27.5	2	100	0	110	50	0	0	49	1.00
4871768--4871814	15	3.1	15	78	12	51	14	2	8	74	1.15
4871934--4872134	100	2.0	99	82	2	242	25	17	14	42	1.88
4872362--4872396	14	2.5	14	90	0	52	25	14	2	57	1.51
4876125--4876209	11	7.6	11	67	17	59	71	1	22	4	1.11
4876104--4876161	23	2.5	22	78	15	64	74	0	20	5	1.01
4876074--4876209	17	8.2	16	66	20	59	72	1	19	5	1.13
4876151--4876218	22	3.0	22	73	26	61	73	2	20	2	1.09
4880497--4880529	16	2.0	17	88	5	50	30	24	0	45	1.53
4880839--4880899	22	2.8	22	85	5	79	24	24	24	26	2.00
4882995--4883028	8	4.2	8	88	0	50	14	20	0	64	1.28
4888480--4888716	59	4.0	60	83	8	286	30	10	14	43	1.80
4888497--4888716	121	1.8	122	85	4	311	31	10	15	43	1.80
4890256--4890440	91	2.0	90	91	5	302	36	15	20	27	1.93
4891000--4891069	28	2.5	27	88	4	104	22	50	7	20	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4892164--4892508	171	2.0	173	97	2	660	23	15	11	49	1.77
4892708--4892739	14	2.3	14	100	0	64	37	40	6	15	1.73
4892924--4892959	14	2.6	14	90	0	54	27	13	0	58	1.36
4896224--4896257	2	17.0	2	93	0	59	47	0	0	52	1.00
4897526--4897610	3	29.0	3	88	7	122	68	1	1	29	1.05
4898091--4898305	112	1.9	113	91	2	353	25	16	16	41	1.89
4898126--4898456	181	1.8	178	88	3	511	25	18	16	39	1.91
4899359--4899435	22	3.5	22	80	10	86	37	11	12	37	1.81
4899383--4899442	22	2.7	22	84	5	77	38	10	15	36	1.80
4899799--4899940	54	2.6	54	78	2	169	24	21	15	38	1.92
4899799--4899960	54	3.0	53	73	7	139	24	20	16	38	1.92
4906677--4906706	14	2.1	14	93	0	51	60	6	16	16	1.56
4906926--4907011	43	2.0	43	90	0	136	36	23	10	30	1.88
4909339--4909370	2	16.0	2	100	0	64	50	0	0	50	1.00
4909422--4909478	27	2.0	29	86	6	82	66	5	3	24	1.28
4910697--4910796	3	34.0	3	88	9	145	67	0	0	33	0.91
4915915--4915960	17	2.8	17	81	18	53	76	2	2	19	1.00
4921563--4921727	59	2.8	58	87	3	240	29	15	29	26	1.96
4921745--4922230	39	12.5	39	88	0	679	36	16	16	30	1.91
4922323--4922421	42	2.4	42	86	5	139	33	23	20	23	1.97
4922420--4922538	59	2.0	59	90	0	184	27	15	28	28	1.96
4927271--4927318	12	4.2	11	80	17	53	77	4	2	16	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4930296--4930325	15	2.0	15	100	0	60	13	26	46	13	1.80
4935915--4935974	31	1.9	31	86	0	84	35	8	11	45	1.71
4940812--4940851	21	1.9	21	89	0	62	37	17	17	27	1.92
4941306--4941350	2	22.5	2	100	0	90	48	0	0	51	1.00
4941312--4941374	14	4.4	15	86	9	55	42	4	0	52	1.22
4942410--4942457	21	2.3	21	88	0	78	27	35	12	25	1.92
4945603--4945673	3	22.3	3	84	11	72	26	1	4	67	1.17
4947468--4947615	64	2.3	64	92	0	242	34	22	14	29	1.93
4947604--4948040	124	3.5	124	85	0	588	34	24	15	25	1.95
4948532--4948919	124	3.1	123	85	6	467	33	24	16	25	1.96
4949761--4949821	3	18.3	3	87	12	52	27	1	3	67	1.16
4954641--4954790	64	2.4	64	86	3	205	33	20	12	34	1.90
4954783--4954974	92	2.1	92	94	0	330	33	25	15	26	1.95
4955654--4955868	66	3.2	66	77	10	254	33	23	18	23	1.97
4956622--4956825	31	6.6	31	96	0	372	39	22	18	19	1.93
4959280--4959657	124	3.0	124	89	2	533	33	26	15	25	1.95
4960501--4960570	3	22.3	3	88	11	97	30	1	2	65	1.15
4961666--4961704	20	1.9	21	84	5	53	10	5	5	79	1.04
4965381--4965530	64	2.4	64	86	5	207	33	20	13	33	1.91
4965521--4965714	92	2.1	92	94	0	334	34	25	14	25	1.94
4965667--4965825	66	2.4	66	87	0	246	36	24	16	22	1.94
4967529--4967588	3	18.3	3	86	13	59	28	1	1	68	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4972916--4972958	2	21.5	2	100	0	86	51	0	0	48	1.00
4973149--4973188	2	20.0	2	100	0	80	50	0	0	50	1.00
4977680--4977728	20	2.5	20	83	10	64	55	2	6	36	1.37
4977691--4977782	42	2.2	43	82	3	107	51	4	7	36	1.51
4977732--4977917	35	5.5	34	79	8	200	50	3	8	37	1.50
4977735--4977933	101	1.9	104	86	5	289	50	3	8	38	1.49
4977846--4977893	25	1.9	25	84	16	64	52	4	6	37	1.46
4984480--4984512	16	2.0	17	94	5	59	39	6	6	48	1.53
4987525--4987582	22	2.6	21	73	13	53	55	3	10	31	1.50
4987541--4987914	8	49.2	8	66	25	110	50	2	9	37	1.49
4987558--4987725	17	9.4	17	72	20	55	53	2	7	36	1.43
4987539--4987930	27	15.8	25	68	21	156	50	2	9	38	1.49
4987818--4987917	33	3.1	31	79	15	89	52	0	9	39	1.33
4988057--4988266	26	8.2	26	72	16	136	40	5	3	50	1.41
4987834--4988201	2	180.5	2	65	21	124	42	5	3	48	1.44
4988223--4988321	20	5.3	18	70	21	71	44	3	3	49	1.33
4988143--4988275	18	7.4	17	73	12	86	40	3	3	52	1.35
4988261--4988315	22	2.5	22	93	0	92	47	1	1	49	1.23
4988822--4988951	54	2.4	55	90	1	199	34	17	16	31	1.92
4991445--4991489	18	2.5	18	92	0	72	46	15	6	31	1.72
4992171--4992217	20	2.4	20	85	3	60	34	2	14	48	1.56
4995990--4996028	17	2.4	17	95	4	71	43	0	5	51	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4996878--4996911	16	2.1	16	88	0	50	44	0	11	44	1.40
4998029--4998117	31	2.8	31	87	1	124	28	7	21	42	1.80
4998622--4998648	13	2.1	13	100	0	54	18	7	14	59	1.58
5000391--5000447	7	8.4	7	84	5	73	19	0	33	47	1.50
5000391--5000447	27	2.1	27	90	0	87	19	0	33	47	1.50
5001931--5002037	53	2.0	53	90	0	169	22	27	7	42	1.80
5007663--5008127	237	2.0	237	98	0	894	33	13	22	31	1.92
5022007--5022162	78	2.0	78	98	0	303	41	10	29	18	1.83
5023446--5023479	17	1.9	18	88	5	52	35	17	8	38	1.81
5023641--5023752	59	1.9	59	87	3	163	34	20	10	33	1.87
5023611--5023757	59	2.5	59	80	7	158	33	21	10	34	1.87
5023656--5023895	118	2.0	117	78	7	245	30	22	11	36	1.89
5029760--5029793	17	1.9	18	88	5	52	35	17	8	38	1.81
5029955--5030202	59	4.2	59	76	6	184	30	21	10	36	1.88
5029950--5030202	118	2.2	117	77	8	255	30	22	10	37	1.88
5031411--5031469	21	2.8	22	76	7	68	6	23	5	64	1.38
5031466--5031541	26	2.8	28	72	24	72	7	11	5	75	1.19
5032509--5032603	42	2.3	42	86	0	127	21	12	18	47	1.82
5034854--5034944	28	3.2	28	100	0	182	32	24	14	28	1.94
5034827--5034945	56	2.1	55	80	10	143	33	23	14	28	1.94
5034939--5035046	45	2.4	46	89	4	157	28	20	20	30	1.97
5035015--5035063	19	2.6	19	84	9	57	24	28	20	26	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5040839--5040911	23	3.3	22	71	9	69	27	23	21	27	1.99
5040839--5040933	43	2.2	43	79	3	102	29	24	21	25	1.99
5041307--5041347	19	2.1	20	86	4	57	63	0	9	26	1.25
5043575--5043612	19	2.0	19	100	0	76	31	31	15	21	1.94
5043584--5043723	65	2.2	65	84	6	178	29	24	20	26	1.99
5043695--5043743	19	2.6	19	84	9	57	24	28	20	26	1.99

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

The End!