genome.fa.s8747.2.7.7.80.10.50.1000.21.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: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12616935

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   40   41   42   43   44   45   46   47   48   
          49   50   51   

This is table  21  of  51  ( 6054 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)
5443908--5443949	17	2.4	18	80	7	52	45	11	14	28	1.80
5444111--5444167	28	2.2	25	77	17	69	22	19	15	42	1.89
5447581--5447627	18	2.6	18	86	0	67	53	8	6	31	1.57
5449036--5449080	20	2.3	19	84	7	54	15	28	6	48	1.70
5449031--5449080	19	2.5	20	78	12	59	16	28	6	50	1.68
5450981--5451065	28	3.0	29	79	10	111	52	8	12	25	1.67
5451453--5451503	21	2.6	19	75	19	52	17	27	3	50	1.63
5453890--5453937	18	2.7	18	93	0	78	45	14	6	33	1.70
5457780--5457820	18	2.3	18	87	8	57	48	9	7	34	1.64
5457881--5457922	17	2.4	18	80	7	52	45	11	14	28	1.80
5461877--5461926	21	2.6	19	74	20	50	20	24	4	52	1.63
5462754--5462778	13	1.9	13	100	0	50	0	20	0	80	0.72
5464319--5464365	18	2.6	18	86	0	67	51	10	6	31	1.62
5473421--5473485	19	3.5	19	72	19	73	61	10	20	7	1.53
5473404--5473492	37	2.4	37	98	1	171	65	10	16	7	1.46
5473402--5473466	18	3.6	18	71	20	64	67	7	18	6	1.36
5473459--5473512	24	2.3	23	81	9	65	61	14	16	7	1.55
5478189--5478248	30	2.0	31	86	3	86	28	8	8	55	1.59
5479135--5479186	21	2.6	21	84	6	72	36	11	5	46	1.64
5481144--5481183	12	3.5	11	89	6	53	80	0	17	2	0.83
5483524--5483583	30	2.0	31	83	3	77	30	10	8	51	1.64
5493469--5493565	13	8.0	12	71	23	71	28	3	37	30	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5493451--5493590	36	3.9	36	91	0	219	30	4	35	30	1.77
5495191--5495456	132	2.0	133	97	0	498	42	10	13	33	1.79
5497497--5497527	5	6.2	5	92	0	53	0	19	3	77	0.90
5499182--5499444	133	2.0	133	97	0	499	41	10	14	33	1.80
5500385--5500427	23	1.9	21	81	13	50	32	16	18	32	1.93
5501676--5501706	5	6.2	5	92	0	53	0	19	3	77	0.90
5503273--5503538	133	2.0	133	96	0	496	41	9	14	34	1.78
5508999--5509055	17	3.3	17	82	7	62	42	10	12	35	1.77
5513085--5513139	24	2.3	25	81	6	60	29	21	16	32	1.95
5514669--5514720	21	2.6	21	90	6	81	32	13	7	46	1.72
5515683--5515717	17	2.0	18	94	5	63	11	28	0	60	1.32
5517560--5517600	19	2.3	18	84	12	57	31	12	4	51	1.60
5518897--5518932	17	2.1	17	89	0	54	38	5	19	36	1.75
5519075--5519400	168	2.0	166	96	3	606	37	15	17	29	1.91
5521447--5521483	7	4.9	8	87	12	51	5	13	0	81	0.86
5521446--5521517	8	9.7	7	71	16	56	2	18	1	77	0.96
5521446--5521522	15	5.1	15	71	20	54	2	18	1	77	0.95
5521462--5521523	29	2.2	28	85	5	81	0	19	1	79	0.82
5521489--5521522	18	1.9	17	94	5	59	0	20	2	76	0.92
5521789--5521833	19	2.4	19	85	14	58	66	0	13	20	1.24
5524237--5524313	36	2.2	36	95	2	138	31	2	37	28	1.71
5524249--5524306	13	4.7	13	72	12	50	31	1	39	27	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5530501--5530575	38	2.0	38	100	0	150	26	13	17	42	1.86
5538082--5538222	36	3.9	36	92	0	230	30	4	34	29	1.79
5538100--5538221	11	10.2	12	69	23	55	31	4	35	29	1.76
5543855--5543951	13	8.0	12	69	23	53	30	3	35	30	1.73
5543868--5543973	23	4.5	23	70	24	60	30	3	34	31	1.75
5543836--5543976	36	3.9	36	90	0	221	29	4	35	29	1.79
5546455--5546496	12	3.8	12	78	18	54	80	14	4	0	0.86
5546455--5546503	21	2.3	21	92	0	80	83	12	4	0	0.77
5546454--5546511	11	5.5	11	73	22	54	79	15	5	0	0.90
5546478--5546511	10	3.5	10	84	8	52	79	14	5	0	0.91
5546454--5546511	19	2.9	19	85	12	80	79	15	5	0	0.90
5557209--5557293	11	7.2	11	72	22	66	31	36	3	28	1.74
5557206--5557310	36	2.9	36	94	1	176	30	37	4	27	1.77
5558707--5558919	106	2.0	106	95	0	381	34	15	23	26	1.94
5561815--5561899	11	7.2	11	72	22	66	31	36	3	28	1.74
5561812--5561916	36	2.9	36	94	1	176	30	37	4	27	1.77
5563857--5563897	11	3.7	11	87	6	57	70	0	12	17	1.16
5564281--5564314	16	2.1	17	89	10	54	73	2	0	23	0.97
5573805--5573871	30	2.2	30	100	0	134	31	14	10	43	1.80
5575508--5575572	13	5.2	13	73	17	50	32	3	33	30	1.73
5575490--5575593	36	2.9	36	89	1	147	31	4	35	27	1.78
5575934--5575984	19	2.6	20	87	3	68	45	5	15	33	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5579443--5579478	15	2.4	15	90	0	54	55	0	25	19	1.43
5579638--5579723	13	7.2	12	72	22	58	30	3	36	30	1.74
5579620--5579724	36	2.9	36	94	1	176	29	4	35	30	1.78
5588698--5588757	30	2.0	31	86	3	86	53	10	8	28	1.63
5589820--5589860	19	2.1	19	86	4	55	58	7	7	26	1.51
5591268--5591309	22	1.9	22	90	9	68	14	11	4	69	1.34
5595857--5595898	22	2.0	21	86	13	59	14	11	2	71	1.24
5600597--5600648	22	2.3	23	93	3	88	28	3	34	32	1.76
5600599--5600714	36	3.2	37	81	13	143	30	5	34	30	1.79
5600617--5600724	36	3.0	36	97	0	207	28	5	36	29	1.80
5605139--5605190	22	2.3	23	93	3	88	28	3	34	32	1.76
5605141--5605256	36	3.2	37	81	13	143	30	5	34	30	1.79
5605159--5605258	36	2.8	36	98	0	191	29	5	36	30	1.79
5610209--5610346	36	3.9	36	85	2	172	35	2	34	27	1.72
5610209--5610346	71	1.9	71	86	1	195	35	2	34	27	1.72
5611449--5611524	23	3.2	23	65	17	64	40	3	14	40	1.64
5611421--5611528	49	2.2	49	95	3	191	43	4	12	38	1.64
5617054--5617087	13	2.6	13	95	0	59	29	35	0	35	1.58
5617732--5617781	22	2.3	20	83	12	64	32	34	2	32	1.69
5622024--5622064	12	3.3	13	90	10	68	14	14	0	70	1.16
5622244--5622281	13	2.9	13	88	7	51	81	0	13	5	0.85
5633216--5633275	9	6.4	9	80	14	59	78	1	18	1	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5633234--5633283	20	2.8	18	82	11	59	78	0	18	4	0.91
5633216--5633284	9	7.6	8	76	20	57	78	1	17	2	0.95
5633216--5633275	20	3.1	20	85	4	79	78	1	18	1	0.92
5640202--5640243	21	2.0	22	81	13	52	21	35	9	33	1.86
5640294--5640340	20	2.3	20	92	0	85	23	29	19	27	1.98
5643386--5643428	20	2.2	20	87	4	61	34	9	6	48	1.62
5643940--5644020	25	3.2	25	96	0	144	25	22	0	51	1.48
5643950--5644020	15	5.4	15	63	30	54	23	23	0	52	1.48
5644232--5644265	6	5.7	6	86	13	52	85	0	14	0	0.60
5644232--5644265	13	2.9	11	87	12	50	85	0	14	0	0.60
5644453--5644501	16	2.9	16	84	6	53	16	22	0	61	1.34
5648282--5648405	11	10.3	12	69	23	59	30	4	35	29	1.76
5648296--5648401	23	4.5	23	68	24	69	30	4	34	30	1.78
5648264--5648403	36	3.9	36	94	0	237	30	4	35	30	1.77
5652844--5652880	15	2.4	16	90	4	58	13	10	5	70	1.32
5653232--5653280	11	4.5	11	89	0	80	87	10	2	0	0.62
5653238--5653289	23	2.3	23	96	3	97	82	13	3	0	0.80
5653232--5653289	11	5.3	11	85	4	73	84	12	3	0	0.74
5653232--5653280	10	4.6	10	82	12	62	87	10	2	0	0.62
5658194--5658230	19	1.9	19	88	0	56	0	13	10	75	1.04
5658174--5658226	26	2.2	23	83	10	61	1	16	3	77	1.01
5658624--5658745	11	10.2	12	70	23	64	29	4	36	29	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5658638--5658743	23	4.5	23	70	24	78	29	4	35	30	1.78
5658606--5658746	36	3.9	36	95	0	248	29	4	36	29	1.78
5660638--5660759	48	2.6	46	80	8	138	42	7	19	30	1.79
5667632--5667697	21	3.5	21	67	28	67	34	3	12	50	1.55
5669300--5669346	20	2.4	20	89	3	69	34	8	6	51	1.58
5673571--5673612	22	2.0	21	85	4	57	35	30	9	23	1.87
5675443--5675480	13	2.9	13	88	0	58	78	0	21	0	0.74
5686480--5686572	48	1.9	48	80	4	107	19	19	25	35	1.95
5687429--5687489	18	3.2	18	72	20	52	3	14	4	77	1.07
5690499--5690548	22	2.2	24	82	7	59	10	14	14	62	1.55

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   40   41   42   43   44   45   46   47   48   
          49   50   51