genome.fa.s9625.2.7.7.80.10.50.1000.19.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: VEPZ01009625.1 Hibiscus syriacus cultivar Beakdansim tig00117017_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6938204

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   

This is table  19  of  25  ( 2922 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)
5482069--5482117	10	5.1	10	80	9	57	28	32	24	14	1.94
5482079--5482133	19	2.8	20	88	2	76	30	29	21	18	1.97
5482064--5482133	19	3.6	19	84	1	68	28	30	24	17	1.97
5485361--5485420	31	1.9	31	86	0	84	46	6	8	38	1.60
5487559--5487650	26	3.5	26	100	0	184	29	22	23	23	1.99
5487697--5487734	20	1.9	20	88	0	58	23	15	28	31	1.96
5496023--5496113	45	2.0	46	91	2	148	27	19	25	27	1.99
5496133--5496170	20	1.9	20	94	0	67	18	15	34	31	1.92
5496683--5496739	22	2.8	19	86	10	69	42	7	3	47	1.47
5505969--5506001	8	4.1	8	92	0	57	63	0	9	27	1.24
5510139--5510165	3	9.0	3	100	0	54	33	0	0	66	0.92
5518209--5518266	20	2.8	20	86	2	71	22	32	25	18	1.97
5518366--5518429	19	3.4	19	70	8	67	28	31	4	35	1.78
5518352--5518430	38	2.1	38	100	0	158	29	31	5	34	1.79
5522700--5522765	34	1.9	35	93	3	116	56	3	3	37	1.30
5522737--5522804	21	3.2	21	72	12	59	50	1	1	47	1.19
5523050--5523082	17	1.9	17	93	0	57	18	12	3	66	1.36
5524601--5524797	44	4.5	44	72	8	132	37	25	16	20	1.93
5526765--5526798	18	1.9	17	88	5	50	29	0	2	67	1.05
5528043--5528068	6	4.3	6	100	0	52	53	0	0	46	1.00
5528228--5528271	22	2.0	22	86	8	63	75	2	2	20	1.03
5528235--5528273	19	2.1	19	85	9	53	76	2	2	17	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5528388--5528459	34	2.1	34	87	2	101	68	5	4	22	1.28
5528474--5528538	22	3.0	23	76	15	66	67	0	4	27	1.10
5528432--5528516	38	2.2	39	81	8	93	72	1	4	21	1.09
5528511--5528564	16	3.2	16	72	10	54	64	1	7	25	1.30
5528471--5528541	27	2.6	27	80	10	74	70	0	4	25	1.05
5528431--5528536	39	2.8	38	72	18	98	69	0	5	23	1.15
5528603--5528651	24	2.0	24	84	8	62	57	0	4	38	1.18
5528611--5528662	19	2.7	19	85	5	61	61	0	3	34	1.14
5528622--5528660	14	2.7	14	84	15	53	64	0	2	33	1.08
5529940--5530048	36	3.1	36	80	5	132	39	15	21	23	1.91
5529948--5530037	34	2.6	35	87	3	119	43	17	20	18	1.88
5530062--5530120	30	2.0	30	83	12	77	33	11	16	37	1.86
5530106--5530275	36	4.9	36	68	15	124	38	14	20	27	1.91
5530204--5530275	37	1.9	37	88	0	108	40	15	20	23	1.91
5530075--5530457	102	3.8	101	84	2	417	38	13	19	28	1.90
5530240--5530712	167	2.8	167	94	0	811	40	13	18	27	1.88
5530417--5530608	102	1.9	102	82	4	244	42	13	17	27	1.85
5530535--5530675	65	2.2	65	84	5	178	40	12	18	29	1.86
5530905--5531223	106	3.0	106	85	0	397	22	20	23	33	1.97
5531805--5531892	32	2.8	32	80	3	97	35	21	14	28	1.93
5532778--5532915	69	2.0	69	95	0	249	27	13	20	38	1.90
5532987--5533024	19	1.9	20	89	10	60	5	13	5	76	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5536114--5536174	22	2.6	23	71	26	56	75	6	3	14	1.13
5536114--5536172	25	2.3	24	77	11	64	74	6	3	15	1.16
5536132--5536191	19	3.2	18	77	11	57	75	6	3	15	1.15
5536396--5536448	27	2.0	27	88	3	81	73	0	3	22	0.99
5538958--5539038	18	4.6	18	77	9	67	40	13	13	32	1.84
5538972--5539026	17	3.1	17	78	5	56	40	12	14	32	1.84
5539531--5539587	29	2.0	29	96	0	105	22	29	8	38	1.85
5541293--5541325	11	3.0	11	95	0	57	12	9	33	45	1.73
5542290--5542665	187	2.0	189	98	1	738	26	19	19	34	1.95
5544533--5544582	22	2.3	22	86	6	66	14	14	14	58	1.65
5552418--5552480	32	2.0	32	87	0	90	19	9	36	34	1.84
5554346--5554519	87	2.0	87	100	0	348	28	17	16	37	1.91
5556020--5556068	24	2.0	24	81	14	57	61	0	2	36	1.08
5556266--5556314	26	1.9	26	83	4	64	24	20	18	36	1.94
5563805--5563830	13	2.0	13	100	0	52	61	23	7	7	1.49
5565266--5565325	20	3.0	20	73	2	59	38	21	8	31	1.83
5566625--5566664	20	2.0	20	85	4	55	7	15	37	40	1.75
5566782--5566829	21	2.3	21	88	0	69	35	18	10	35	1.85
5573486--5573528	21	2.0	21	81	0	50	55	4	0	39	1.20
5573782--5573831	27	1.9	26	84	8	66	58	4	0	38	1.17
5574685--5574747	21	3.0	20	82	8	81	52	9	14	23	1.71
5577372--5577420	18	2.7	18	93	0	80	20	22	32	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5579020--5579072	21	2.5	21	90	0	88	52	13	15	18	1.74
5580674--5580735	23	2.7	23	89	0	97	30	24	24	20	1.99
5582065--5582113	20	2.5	20	93	0	80	24	20	22	32	1.98
5582943--5582979	19	1.9	19	88	0	56	29	29	13	27	1.94
5583327--5583351	5	5.0	5	100	0	50	20	0	20	60	1.37
5585289--5585336	19	2.4	21	79	6	55	50	4	4	41	1.41
5585544--5585598	27	2.1	25	83	6	65	25	10	20	43	1.84
5586953--5587022	30	2.3	31	82	5	79	24	1	27	47	1.61
5587187--5587257	30	2.3	32	83	7	85	56	9	7	26	1.57
5587570--5587618	21	2.3	21	96	0	89	28	16	30	24	1.96
5589421--5589671	102	2.5	102	80	3	283	31	13	23	30	1.94
5602846--5602918	24	3.0	24	74	7	76	17	10	19	52	1.74
5603077--5603157	2	41.0	2	95	2	146	51	0	0	48	1.00
5604479--5604591	57	1.9	61	89	7	180	30	3	22	43	1.70
5608028--5608091	24	2.7	24	87	4	85	23	14	14	48	1.79
5609536--5609573	20	1.9	20	94	0	67	34	31	15	18	1.92
5609584--5609745	65	2.5	65	85	1	209	32	23	15	29	1.95
5609584--5609761	64	2.8	64	81	4	196	31	23	16	28	1.96
5614766--5614846	23	3.6	22	72	14	67	27	24	20	27	1.99
5617471--5617508	20	1.9	20	88	0	58	34	34	13	18	1.89
5617558--5617659	45	2.2	45	85	1	141	32	18	15	33	1.93
5618741--5618803	2	31.5	2	100	0	126	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5619439--5619707	108	2.5	108	87	1	360	27	16	20	35	1.94
5619434--5619707	54	5.1	54	83	2	327	27	16	20	35	1.94
5626843--5626946	48	2.1	50	91	3	167	25	3	16	54	1.58
5629051--5629102	19	2.8	18	88	5	77	21	11	30	36	1.89
5629178--5629221	21	2.1	21	100	0	88	18	13	0	68	1.22
5629514--5629553	20	2.0	20	100	0	80	25	10	30	35	1.88
5635254--5635327	37	2.0	36	82	7	87	45	4	2	47	1.35
5635557--5635686	59	2.2	59	97	0	242	37	20	13	28	1.91
5641334--5641381	13	3.7	13	75	10	53	66	10	4	18	1.37
5641334--5641383	26	1.9	26	87	0	73	64	10	6	20	1.45
5643531--5643568	17	2.2	18	81	13	53	60	2	2	34	1.24
5643634--5643682	10	4.9	10	89	0	71	42	0	36	20	1.52
5644236--5644371	67	2.0	67	100	0	272	29	17	17	35	1.93
5644769--5644844	32	2.4	32	86	4	102	28	11	10	48	1.73
5651157--5651209	27	2.0	26	85	3	70	30	15	22	32	1.94
5655207--5655543	170	2.0	165	95	4	613	18	24	21	36	1.95
5661385--5661682	153	1.9	154	82	2	375	30	17	16	36	1.91
5664518--5664568	13	3.9	13	81	0	57	33	17	21	27	1.96
5669638--5669674	18	2.1	18	94	0	65	5	37	27	29	1.79
5671604--5671668	22	3.0	22	95	0	112	16	26	24	32	1.96
5672562--5672594	17	1.9	17	93	0	57	39	6	6	48	1.53
5675912--5675950	19	2.1	19	100	0	78	35	0	25	38	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5676208--5676242	11	3.1	11	87	4	52	45	0	2	51	1.16
5676853--5676899	23	2.0	23	100	0	94	53	0	4	42	1.20
5680314--5680340	13	2.1	13	100	0	54	14	22	0	62	1.31
5680568--5680611	12	3.7	12	82	11	54	38	9	0	52	1.33
5680608--5680690	32	2.5	32	83	14	91	43	0	1	55	1.07
5680646--5680690	6	7.5	6	81	18	58	46	0	0	53	1.00
5680638--5680697	18	3.3	18	72	9	59	45	0	0	55	0.99
5680633--5680729	12	7.7	14	80	13	54	39	1	0	59	1.04
5680685--5680758	12	6.1	12	80	14	80	27	2	0	70	1.01
5680699--5680742	13	3.3	14	85	14	58	22	0	0	77	0.77

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