genome.fa.s7960.2.7.7.80.10.50.1000.28.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: VEPZ01007960.1 Hibiscus syriacus cultivar Beakdansim tig00110387_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7905731

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   31   32   
          33   34   35   36   37   38   39   

This is table  28  of  39  ( 4646 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)
5360791--5360943	68	2.2	68	86	2	200	26	26	28	18	1.98
5361246--5361317	29	2.5	29	90	0	108	38	11	12	37	1.79
5361331--5361408	30	2.6	29	80	8	84	34	8	20	35	1.84
5361611--5361677	22	3.0	22	95	0	125	20	26	26	25	1.99
5365168--5365368	95	2.1	95	91	0	321	35	12	18	32	1.89
5366498--5366716	86	2.5	86	80	4	210	30	21	22	25	1.99
5366711--5366997	85	3.4	85	86	1	344	34	20	17	27	1.95
5368978--5369017	20	2.0	20	95	0	71	20	22	37	20	1.94
5369002--5369031	15	2.0	15	93	0	51	23	26	23	26	2.00
5369110--5369190	20	4.1	20	88	0	99	28	17	29	24	1.97
5369413--5369470	18	3.0	19	85	14	91	50	6	10	32	1.63
5372525--5372616	31	3.0	31	80	1	105	39	26	13	21	1.90
5372533--5372627	31	3.1	29	77	8	91	40	24	14	21	1.90
5373474--5373526	26	2.0	26	100	0	106	26	18	20	33	1.96
5374581--5374624	20	2.2	20	91	0	70	29	20	27	22	1.99
5375816--5375845	13	2.3	13	100	0	60	33	0	0	66	0.92
5381020--5381058	20	2.0	20	84	0	51	20	2	30	46	1.64
5383874--5383915	18	2.3	19	84	8	52	14	2	7	76	1.10
5385530--5385564	16	2.2	16	100	0	70	31	22	40	5	1.78
5388348--5388421	21	3.5	21	88	0	112	32	17	20	29	1.95
5389186--5389480	68	4.3	68	92	1	484	32	16	23	27	1.96
5389470--5389772	81	3.8	80	80	5	315	35	12	21	29	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5389808--5390167	45	8.0	45	84	4	422	37	11	23	27	1.90
5393647--5393720	20	3.7	20	78	12	71	35	17	22	24	1.95
5394155--5394277	55	2.2	55	80	8	135	39	10	15	34	1.82
5394462--5394781	68	4.7	68	94	0	550	31	16	23	27	1.96
5394922--5395307	45	8.6	45	86	0	502	36	9	23	30	1.87
5395378--5395499	45	2.7	45	87	0	136	38	10	23	27	1.88
5395400--5395580	90	2.0	91	81	7	217	38	8	23	29	1.85
5395415--5395543	45	2.9	45	89	0	186	36	8	23	31	1.85
5395131--5395637	253	2.0	253	98	0	978	41	7	22	28	1.81
5396263--5396312	24	2.1	24	100	0	100	42	18	8	32	1.79
5397259--5397300	22	2.0	21	86	9	59	47	2	0	50	1.14
5397358--5397703	30	11.6	29	71	11	227	38	7	2	52	1.42
5397417--5397495	32	2.6	30	86	7	113	39	6	1	53	1.35
5397533--5397696	63	2.7	61	83	4	172	40	8	3	47	1.49
5397598--5397695	32	3.1	32	76	1	108	42	7	2	47	1.42
5397706--5397771	29	2.2	31	89	5	100	51	0	7	40	1.30
5397760--5397794	2	17.5	2	100	0	70	51	0	0	48	1.00
5397854--5398012	27	5.9	28	71	12	93	54	0	7	37	1.29
5397846--5397970	54	2.3	53	80	8	128	56	0	7	36	1.33
5398191--5398231	19	2.1	20	90	4	66	56	0	0	43	0.99
5403130--5403192	21	3.1	20	84	8	83	38	6	31	23	1.80
5403645--5403689	23	1.9	24	86	4	65	40	24	2	33	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5415574--5415627	23	2.3	24	75	9	58	55	1	18	24	1.52
5415688--5415728	21	1.9	22	85	5	57	29	0	14	56	1.39
5416046--5416090	22	2.1	21	83	4	54	22	20	28	28	1.98
5420303--5420353	23	2.3	23	86	6	79	19	21	41	17	1.91
5430541--5430601	23	2.5	24	74	10	63	54	1	16	27	1.52
5430668--5430708	21	1.9	22	85	5	57	29	0	14	56	1.39
5434222--5434248	10	2.7	10	100	0	54	74	0	0	25	0.83
5434784--5434938	60	2.6	60	83	4	179	33	18	7	40	1.79
5434833--5434928	29	3.1	31	70	17	92	34	20	5	39	1.75
5434840--5434938	31	3.3	30	71	16	96	33	23	7	36	1.82
5434832--5434971	60	2.3	59	83	9	176	32	23	7	36	1.82
5435691--5435872	31	6.0	31	94	3	298	28	26	6	38	1.81
5437168--5437216	20	2.5	20	82	0	62	69	4	2	24	1.17
5440117--5440198	23	3.6	22	75	8	85	25	21	26	25	2.00
5448483--5448522	17	2.4	18	84	12	50	60	0	0	40	0.97
5448470--5448524	18	2.9	19	76	15	60	58	0	1	40	1.09
5450117--5450175	2	29.0	2	87	3	82	49	0	3	47	1.18
5455340--5455392	13	4.0	13	80	11	63	66	11	3	18	1.38
5462084--5462137	20	2.7	19	75	8	63	33	31	18	16	1.93
5462124--5462236	21	5.5	20	71	13	77	35	22	19	23	1.96
5462185--5462422	20	11.8	20	74	11	146	39	24	17	18	1.92
5462186--5462421	40	5.8	41	84	4	293	38	24	17	18	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5462507--5462575	20	3.5	20	96	4	122	40	20	18	20	1.92
5462490--5462575	40	2.2	39	87	6	120	39	19	19	20	1.93
5462877--5462957	20	4.1	20	90	3	110	34	22	22	20	1.97
5462959--5463060	20	5.8	20	70	24	86	13	22	18	45	1.85
5462964--5463093	34	3.9	34	91	4	201	14	23	19	43	1.87
5462964--5463093	67	1.9	68	89	4	201	14	23	19	43	1.87
5463195--5463231	14	2.6	14	86	0	56	48	21	0	29	1.50
5464602--5464694	42	2.2	42	80	3	107	22	17	39	20	1.92
5465174--5465261	20	4.4	20	89	1	124	42	22	19	15	1.89
5465304--5465383	33	2.4	33	93	0	133	10	21	22	46	1.81
5465323--5465421	19	5.3	19	72	15	82	12	20	22	45	1.83
5465471--5465851	94	4.1	94	92	2	595	47	17	11	22	1.80
5467623--5467714	40	2.3	40	85	7	116	13	19	18	48	1.80
5467627--5467717	20	4.6	20	80	9	105	13	17	18	50	1.78
5468278--5468473	20	9.6	20	75	13	186	17	18	23	39	1.92
5468276--5468510	41	5.8	41	92	1	375	18	18	24	38	1.93
5468299--5468571	20	13.5	20	75	15	204	18	18	24	38	1.93
5468341--5468583	61	4.0	61	77	12	139	19	18	24	37	1.94
5472169--5472201	10	3.4	10	95	4	59	66	6	0	27	1.15
5472168--5472211	20	2.3	19	80	4	52	63	9	0	27	1.24
5473805--5473853	25	2.0	25	87	0	71	46	0	22	30	1.52
5473805--5473860	25	2.2	25	83	0	67	46	0	21	32	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5474206--5474239	10	3.4	10	88	12	52	35	26	0	38	1.57
5474288--5474328	18	2.3	18	91	4	66	29	4	2	63	1.28
5474398--5474722	111	2.9	111	97	0	605	36	7	11	44	1.69
5476232--5476289	18	3.2	18	97	0	107	25	31	18	24	1.98
5476640--5476679	21	1.9	21	89	0	62	32	15	37	15	1.88
5478059--5478128	34	2.1	32	89	5	104	21	31	12	34	1.91
5478476--5478518	21	2.0	21	95	0	77	13	27	41	16	1.86
5480812--5480876	34	2.0	32	82	11	80	26	30	15	27	1.96
5481151--5481210	21	3.0	21	90	7	97	15	28	40	16	1.89
5484085--5484138	21	2.6	21	96	0	99	29	25	24	20	1.99
5484491--5484620	51	2.5	50	79	9	129	24	26	30	18	1.98
5485381--5485438	25	2.2	27	81	15	84	55	15	17	12	1.70
5485390--5485443	25	2.2	25	100	0	108	50	20	18	11	1.77
5486572--5486615	23	2.0	22	86	4	61	34	4	9	52	1.54
5488165--5488219	23	2.3	26	81	12	73	54	0	3	41	1.18
5488210--5488409	107	1.9	108	81	7	246	42	9	8	40	1.67
5489770--5489836	3	22.7	3	86	8	93	68	1	0	29	0.98
5489772--5489836	34	1.9	34	90	6	105	69	1	0	29	0.98
5490002--5490185	84	2.2	82	82	5	210	27	16	17	38	1.91
5490151--5490671	225	2.3	221	84	7	678	28	18	14	38	1.90
5490150--5490675	113	4.7	113	83	6	578	28	18	14	38	1.90
5491443--5491990	93	5.9	93	92	1	902	34	20	15	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5492970--5493027	1	58.0	1	82	0	71	0	8	0	91	0.42
5492970--5493032	9	7.0	9	87	8	85	0	11	0	88	0.50
5492971--5493025	25	2.2	25	90	0	83	0	9	0	90	0.44
5504082--5504136	23	2.3	26	81	12	73	54	0	3	41	1.18
5504127--5504326	107	1.9	108	80	9	239	42	9	8	40	1.68
5505715--5505779	3	21.7	3	87	6	96	67	1	0	30	1.00
5506036--5506068	3	11.7	3	87	12	52	33	0	0	66	0.92
5506035--5506068	11	3.1	11	95	0	59	35	0	0	64	0.94
5506036--5506068	14	2.4	14	94	0	57	33	0	0	66	0.92
5509876--5509936	31	2.0	31	96	0	113	54	3	8	34	1.47

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   31   32   
          33   34   35   36   37   38   39