genome.fa.s8105.2.7.7.80.10.50.1000.24.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: VEPZ01008105.1 Hibiscus syriacus cultivar Beakdansim tig00110637_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5962497

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  24  of  30  ( 3521 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)
4533071--4533153	20	4.1	21	86	6	118	39	18	19	22	1.92
4533071--4533153	41	2.0	40	90	2	130	39	18	19	22	1.92
4533087--4533264	20	8.6	20	78	8	135	28	19	17	33	1.95
4534127--4534180	24	2.2	24	93	0	90	20	18	20	40	1.91
4536692--4536842	19	8.8	17	69	23	77	44	19	23	11	1.84
4536730--4536784	14	3.6	14	73	21	56	45	20	23	10	1.82
4536712--4536838	33	3.8	33	95	0	227	45	18	23	11	1.83
4536848--4536927	33	2.4	33	89	0	115	11	21	20	47	1.80
4536869--4536927	19	3.4	18	73	22	63	11	22	18	47	1.81
4537034--4537070	14	2.6	14	91	0	65	45	21	0	32	1.52
4538939--4539030	20	4.9	20	72	17	81	47	18	21	11	1.80
4538981--4539035	14	3.6	14	73	21	56	45	21	23	9	1.80
4538962--4539054	33	2.8	33	95	1	159	46	19	23	10	1.81
4539066--4539149	33	2.5	33	90	0	132	7	20	23	48	1.74
4539085--4539154	19	3.9	19	73	17	78	8	21	21	48	1.76
4539245--4539618	94	4.1	94	90	3	566	47	18	12	21	1.81
4541312--4541424	20	6.1	19	74	13	110	45	18	23	13	1.84
4541455--4541541	20	4.3	20	76	9	88	13	16	18	51	1.76
4542072--4542159	20	4.3	21	68	17	51	31	20	22	25	1.98
4545325--4545355	16	1.9	16	100	0	62	51	19	9	19	1.74
4547497--4547592	21	4.6	21	74	0	66	25	29	23	21	1.99
4547497--4547593	42	2.3	42	83	3	124	25	28	23	21	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4548117--4548165	13	3.6	13	78	8	53	26	4	12	57	1.53
4551322--4551346	9	2.8	9	100	0	50	76	0	0	24	0.80
4551454--4551491	11	3.5	11	85	3	51	68	0	0	31	0.90
4551452--4551490	16	2.4	16	87	8	53	69	0	0	30	0.89
4560010--4560049	21	1.9	21	85	10	55	42	2	10	45	1.51
4560755--4560787	14	2.4	14	100	0	66	24	0	6	69	1.10
4562994--4563049	27	2.1	27	89	0	85	46	12	0	41	1.42
4565388--4565420	16	2.1	15	94	5	57	33	3	0	63	1.10
4565599--4565640	21	2.0	21	95	0	75	35	0	0	64	0.94
4566084--4566126	21	2.1	20	91	4	68	34	0	0	65	0.93
4571458--4571537	32	2.5	32	80	11	85	55	2	1	41	1.21
4572791--4572865	3	26.0	3	76	12	77	60	1	0	38	1.06
4572790--4572861	18	4.0	18	81	12	94	58	1	0	40	1.07
4573092--4573153	3	20.7	3	83	0	61	45	0	54	0	0.99
4573092--4573159	15	4.7	15	82	10	88	47	0	52	0	1.00
4573086--4573177	27	3.4	27	89	3	123	50	0	47	2	1.13
4573095--4573171	12	6.2	12	83	8	91	49	0	49	1	1.09
4573126--4573188	24	2.6	24	84	0	72	57	0	38	4	1.20
4575048--4575094	18	2.6	18	89	0	76	34	0	21	44	1.52
4578058--4578624	200	2.8	198	83	2	672	37	13	14	34	1.85
4583256--4583293	20	1.9	20	89	10	60	50	18	5	26	1.68
4585971--4586367	108	3.6	107	75	9	418	32	15	14	37	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4585728--4586372	226	2.9	226	89	1	963	33	15	14	37	1.87
4589013--4589044	13	2.4	14	90	10	50	46	9	0	43	1.35
4590136--4590248	60	1.9	60	83	3	147	37	4	26	31	1.76
4590120--4590261	60	2.4	59	76	9	144	40	4	23	31	1.74
4599331--4599356	9	2.9	9	100	0	52	69	0	11	19	1.18
4600932--4600995	2	32.0	2	100	0	128	50	0	0	50	1.00
4608404--4608429	2	13.0	2	100	0	52	50	0	0	50	1.00
4618342--4618440	45	2.2	45	83	5	137	31	17	25	26	1.97
4618460--4618497	20	1.9	20	94	0	67	18	15	34	31	1.92
4628155--4628211	25	2.2	26	81	12	64	36	5	5	52	1.47
4628155--4628210	26	2.1	27	81	15	64	35	5	5	53	1.47
4642301--4642343	18	2.4	18	92	0	68	23	11	23	41	1.87
4652793--4652843	26	2.0	26	88	0	75	27	29	17	25	1.98
4653867--4654615	258	2.9	255	86	3	975	36	15	13	34	1.86
4653867--4654615	259	2.9	256	85	3	1009	36	15	13	34	1.86
4655804--4655829	11	2.4	11	100	0	52	7	0	15	76	0.99
4667987--4668080	41	2.3	41	81	1	107	34	22	14	28	1.94
4669752--4669802	17	2.9	17	77	16	52	68	0	7	23	1.15
4670549--4670692	75	2.0	71	91	5	234	56	11	2	29	1.49
4673808--4674196	194	2.0	194	87	0	562	37	20	15	25	1.93
4674372--4674467	32	3.0	31	76	13	88	29	18	13	38	1.89
4678101--4678180	3	27.0	3	84	2	108	40	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4678571--4678615	20	2.2	20	84	0	54	55	11	33	0	1.35
4678683--4678724	15	2.8	15	89	7	59	76	2	21	0	0.90
4678683--4678724	20	2.1	20	86	8	59	76	2	21	0	0.90
4680288--4680338	24	2.1	25	85	10	70	35	1	1	60	1.19
4690968--4691004	19	1.9	19	89	10	58	81	0	18	0	0.70
4690967--4691006	6	6.5	6	88	11	55	80	0	20	0	0.72
4692146--4692493	83	4.2	83	92	1	599	28	12	21	37	1.91
4693284--4694052	113	6.8	113	88	2	1012	37	14	17	29	1.90
4693998--4694087	36	2.5	36	92	0	144	51	10	20	18	1.75
4694339--4694417	3	26.3	3	89	0	122	37	0	0	62	0.96
4694811--4694855	20	2.2	20	84	0	54	55	11	33	0	1.35
4694923--4694964	15	2.8	15	89	7	59	78	2	16	2	0.96
4694923--4694964	20	2.1	20	86	8	59	78	2	16	2	0.96
4699595--4699639	21	2.1	21	95	0	81	33	11	24	31	1.90
4700481--4700512	16	2.1	15	94	5	55	0	15	0	84	0.63
4704975--4705236	45	5.8	45	89	0	380	29	19	9	41	1.83
4704967--4705275	135	2.3	134	88	1	456	29	20	9	39	1.85
4704972--4705275	90	3.4	89	81	5	351	29	20	9	39	1.85
4705689--4705875	97	1.9	95	82	2	230	27	21	16	34	1.95
4711914--4712179	45	5.9	45	88	0	372	30	19	9	40	1.83
4711923--4712178	135	1.9	135	92	0	431	30	20	9	39	1.84
4711923--4712217	90	3.3	89	81	5	333	29	21	10	38	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4711928--4712217	135	2.1	135	86	2	404	30	22	9	37	1.86
4712608--4712664	22	2.7	21	84	7	80	26	26	14	33	1.94
4712608--4712807	95	2.1	95	84	3	251	26	24	16	32	1.96
4716443--4716478	12	3.0	12	91	0	63	13	16	27	41	1.87
4716545--4716764	41	5.3	41	69	14	139	29	15	21	33	1.94
4716551--4716807	83	3.1	81	81	6	227	30	15	21	33	1.94
4716667--4716828	83	2.0	82	81	3	191	32	13	20	33	1.92
4718287--4718388	42	2.5	41	85	3	150	30	22	18	28	1.97
4721090--4721127	2	19.0	2	100	0	76	50	0	0	50	1.00
4727038--4727177	44	3.2	44	79	6	126	27	25	17	29	1.98
4727091--4727177	44	2.0	44	88	4	131	29	27	14	27	1.96
4727145--4727302	43	3.7	43	74	5	131	36	22	14	26	1.93
4729042--4729099	15	3.9	15	68	8	55	25	10	6	56	1.57
4729053--4729113	30	2.0	30	87	0	86	21	14	8	55	1.65
4729057--4729126	30	2.3	30	82	0	77	25	14	5	54	1.62
4739695--4739743	22	2.2	23	78	10	57	38	18	14	28	1.90
4740254--4740302	20	2.5	20	83	6	66	30	20	16	32	1.94
4740359--4740399	20	2.2	19	86	8	57	36	19	9	34	1.85
4740888--4740921	15	2.3	15	89	0	50	61	0	35	2	1.11
4741811--4741861	23	2.2	24	89	3	77	33	0	7	58	1.27
4743965--4744017	20	2.7	20	96	0	97	15	18	24	41	1.89
4744065--4744230	29	5.8	28	76	8	93	33	4	17	44	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4744125--4744196	28	2.6	28	79	0	90	43	1	11	44	1.48
4745153--4745400	117	2.1	117	93	0	415	18	14	35	31	1.91
4745197--4745437	117	2.1	117	84	3	315	21	13	34	29	1.92
4745989--4746063	31	2.5	30	84	4	98	33	20	4	42	1.70
4747793--4747829	20	1.9	19	89	10	58	45	10	24	18	1.81
4748467--4748562	38	2.5	38	89	0	147	22	26	23	27	2.00
4748711--4748798	46	1.9	45	95	2	158	31	18	7	42	1.79
4748723--4748797	23	3.3	22	70	15	71	32	20	8	40	1.81
4752069--4752116	16	3.0	15	79	11	51	50	18	18	12	1.78
4769167--4769201	18	1.9	18	94	0	61	25	25	14	34	1.94

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