genome.fa.s8428.2.7.7.80.10.50.1000.18.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: VEPZ01008428.1 Hibiscus syriacus cultivar Beakdansim tig00111213_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6915314

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   27   28   29   30   

This is table  18  of  30  ( 3508 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)
4176003--4176343	170	2.0	172	98	1	659	29	6	17	46	1.73
4179491--4179623	23	6.2	22	78	14	118	17	28	23	30	1.97
4179493--4179570	39	2.0	39	89	0	120	14	32	25	28	1.94
4179625--4179673	24	2.0	24	88	0	71	20	22	24	32	1.98
4180634--4180748	57	2.0	57	100	0	230	38	5	12	44	1.64
4180644--4180734	29	3.2	29	67	14	89	40	3	13	42	1.60
4183223--4183274	22	2.4	22	84	9	63	17	23	25	34	1.96
4183257--4183306	24	2.1	24	92	0	82	18	22	22	38	1.94
4186486--4186575	44	2.0	44	82	4	110	40	8	20	31	1.83
4186692--4186788	23	4.4	22	79	6	88	16	21	24	37	1.94
4190744--4190820	24	3.2	24	74	3	75	23	20	14	41	1.89
4196902--4196947	12	3.6	12	81	16	56	45	17	19	17	1.85
4196908--4196948	12	3.1	13	80	19	57	46	14	17	21	1.84
4199231--4199270	21	1.9	21	94	0	71	30	15	7	47	1.72
4199265--4199363	33	3.0	33	94	1	164	32	7	15	45	1.73
4199349--4199403	13	4.2	13	75	13	58	34	3	12	49	1.59
4199733--4199785	15	3.4	15	72	10	52	37	7	7	47	1.60
4199879--4199910	16	2.0	17	88	11	50	43	21	21	12	1.86
4200446--4200498	15	3.4	15	76	5	52	47	7	7	37	1.60
4200828--4200882	13	4.2	13	75	13	58	49	12	3	34	1.59
4200868--4200966	33	3.0	33	94	1	164	45	15	7	32	1.73
4200961--4201000	21	1.9	21	94	0	71	47	7	15	30	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4200963--4201008	21	2.2	21	84	0	56	56	4	10	28	1.53
4203293--4203338	12	3.6	12	81	16	56	17	19	17	45	1.85
4203292--4203331	15	2.9	14	85	14	57	20	17	15	47	1.83
4208864--4209031	39	4.3	39	81	4	169	33	21	25	19	1.96
4208882--4209025	78	1.8	78	84	0	198	35	21	27	15	1.94
4209784--4209832	24	2.0	24	88	0	71	24	18	24	32	1.97
4211535--4211965	54	8.0	54	89	1	596	36	17	13	32	1.89
4214614--4214669	23	2.4	23	78	0	67	28	17	26	26	1.98
4219744--4220441	54	12.9	54	88	2	967	37	17	12	32	1.87
4221510--4221570	23	2.7	23	90	7	97	27	26	29	16	1.97
4228564--4228654	3	29.7	3	75	8	76	41	1	0	57	1.06
4228591--4228655	22	2.9	22	81	4	67	41	3	0	55	1.15
4230790--4230840	19	2.7	18	72	16	50	25	3	3	66	1.26
4241455--4241541	10	8.8	10	82	13	101	87	0	12	0	0.55
4241458--4241523	1	66.0	1	81	0	78	90	0	9	0	0.44
4241458--4241541	9	9.4	9	84	10	111	88	0	11	0	0.53
4242687--4243864	83	14.2	83	96	0	2122	27	13	22	37	1.91
4244657--4245420	113	6.8	113	85	4	1032	37	14	18	28	1.91
4245366--4245444	36	2.2	36	95	0	140	49	10	20	20	1.77
4245695--4245791	3	31.7	3	80	8	106	39	1	0	59	1.04
4249161--4249277	39	3.0	39	82	2	128	34	18	26	20	1.96
4250590--4250659	34	2.1	32	89	5	104	21	31	15	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4250873--4250911	20	1.9	21	94	5	71	12	10	41	35	1.77
4251016--4251075	29	2.0	31	90	6	97	41	15	6	36	1.73
4251545--4251599	20	2.6	21	77	16	60	45	0	0	54	0.99
4256016--4256186	60	2.8	59	88	5	202	31	17	15	35	1.92
4256070--4256171	31	3.4	31	62	10	75	26	22	17	33	1.96
4256049--4256186	60	2.3	60	94	2	224	33	18	15	31	1.93
4256388--4256537	59	2.5	61	77	11	159	35	12	18	34	1.88
4257571--4257732	83	2.0	83	91	0	261	44	9	5	40	1.61
4262780--4262811	6	5.3	6	100	0	64	50	0	34	15	1.45
4263086--4263118	16	2.1	16	88	5	50	33	15	3	48	1.60
4268288--4268335	21	2.2	21	85	10	62	29	29	16	25	1.97
4275088--4275536	229	2.0	227	94	1	783	45	8	7	39	1.62
4275602--4275647	20	2.3	19	89	10	74	54	10	17	17	1.70
4275769--4275815	20	2.4	19	82	10	67	53	10	17	19	1.72
4275778--4275820	20	2.3	19	88	11	63	51	11	16	20	1.75
4278047--4278111	21	3.1	21	77	6	60	40	13	29	16	1.88
4278145--4278210	33	2.0	33	90	0	105	28	0	48	22	1.51
4278634--4279694	197	5.4	197	98	0	2041	35	15	16	32	1.90
4278634--4279694	395	2.7	395	98	0	2043	35	15	16	32	1.90
4281153--4281214	18	3.4	18	79	0	79	37	9	35	17	1.83
4281153--4281238	6	14.3	6	77	0	64	37	8	34	19	1.82
4281168--4281242	3	25.0	3	73	0	60	36	6	34	22	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4281156--4281234	36	2.2	36	90	0	122	35	8	35	20	1.84
4281156--4281238	12	6.9	12	83	0	94	36	8	34	20	1.83
4282711--4283478	183	4.2	183	97	1	1432	36	13	16	33	1.88
4282711--4283478	365	2.1	366	97	0	1432	36	13	16	33	1.88
4283763--4283816	23	2.3	23	93	0	90	37	5	16	40	1.72
4284248--4284284	18	2.1	18	89	0	56	32	5	10	51	1.60
4284240--4284286	24	2.0	24	86	0	67	34	4	14	46	1.64
4284541--4284627	39	2.2	39	91	0	147	48	19	13	18	1.81
4285050--4285122	23	3.2	23	88	0	101	34	4	21	39	1.73
4285484--4285556	23	3.2	23	88	0	101	34	4	21	39	1.73
4284837--4285898	434	2.5	433	97	0	2015	40	8	12	38	1.72
4288714--4288755	17	2.5	17	100	0	84	26	19	11	42	1.85
4291756--4291899	49	3.0	48	85	3	191	18	13	16	50	1.78
4294642--4294687	21	2.2	21	92	0	74	39	0	13	47	1.42
4295273--4295319	20	2.6	17	81	18	51	36	2	0	61	1.08
4295990--4296040	21	2.4	21	83	0	66	35	15	27	21	1.94
4296902--4296949	25	1.9	25	91	0	78	33	12	22	31	1.91
4297841--4297886	2	23.0	2	100	0	92	50	0	0	50	1.00
4298199--4298239	2	21.0	2	95	5	75	48	0	0	51	1.00
4299138--4299195	23	2.4	25	82	8	66	41	0	5	53	1.23
4300261--4300317	24	2.4	24	81	0	69	42	3	0	54	1.17
4303118--4303162	18	2.6	18	89	3	65	37	26	4	31	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4303812--4303865	2	27.0	2	100	0	108	50	0	0	50	1.00
4305331--4305381	21	2.4	21	90	0	75	37	15	25	21	1.93
4307384--4307428	21	2.1	21	88	8	65	60	17	8	13	1.58
4311298--4311337	20	2.0	21	90	5	64	32	27	17	22	1.96
4313779--4314201	210	2.0	212	98	1	823	30	25	16	28	1.96
4325040--4325100	23	2.7	23	86	0	95	21	24	26	27	1.99
4327167--4327228	23	2.7	24	75	12	58	50	0	20	29	1.49
4329516--4329568	23	2.3	23	90	0	88	18	28	28	24	1.98
4337751--4338012	135	1.9	137	96	1	492	40	5	12	42	1.65
4339641--4339700	32	1.9	32	96	3	113	53	11	10	25	1.68
4342344--4342376	3	10.7	3	93	6	57	0	33	0	66	0.92
4346051--4346171	42	3.2	37	87	12	190	28	7	30	33	1.85
4346801--4346938	21	6.7	21	69	6	59	34	25	18	21	1.96
4346906--4347274	20	18.5	20	85	4	458	34	26	18	20	1.96
4348177--4348201	12	2.1	12	100	0	50	72	0	28	0	0.86
4350485--4350791	19	17.4	19	80	16	376	46	18	20	14	1.83
4350513--4350791	52	5.2	52	93	4	388	46	17	21	14	1.83
4350552--4350791	71	3.4	71	86	11	373	47	17	20	14	1.83
4350485--4350829	142	2.5	138	90	6	518	46	18	20	14	1.84
4350485--4350813	52	6.3	55	88	9	332	46	18	20	14	1.84
4350820--4350921	19	5.6	19	85	12	151	14	23	17	44	1.86
4351028--4351064	14	2.6	14	91	0	65	45	21	0	32	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4353045--4353101	14	3.7	14	77	20	60	45	22	21	10	1.82
4353026--4353118	33	2.8	33	93	0	159	47	21	19	11	1.81
4352989--4353123	19	7.6	19	76	16	119	45	23	18	11	1.82
4353119--4353247	19	7.3	19	75	17	125	8	17	28	45	1.77
4353119--4353210	33	2.8	33	93	3	150	7	18	28	45	1.76
4353291--4353854	93	6.1	93	98	0	1089	46	18	12	22	1.83
4353291--4353854	276	2.0	279	98	1	1089	46	18	12	22	1.83
4355560--4355649	14	5.7	14	74	23	81	42	23	25	8	1.83
4355552--4355666	33	3.5	33	95	0	212	45	20	24	9	1.81
4355559--4355671	19	6.8	18	72	23	88	43	22	24	9	1.83

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   27   28   29   30