genome.fa.s7999.2.7.7.80.10.50.1000.21.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: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

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   

This is table  21  of  50  ( 5918 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)
5508272--5508297	12	2.2	12	100	0	52	69	0	0	30	0.89
5508233--5508299	36	1.9	34	84	6	89	67	1	1	29	1.09
5509206--5509395	60	3.2	58	77	8	168	32	23	4	39	1.76
5509572--5509627	29	1.9	29	85	0	76	42	0	16	41	1.48
5509525--5509676	60	2.5	60	79	2	171	44	3	20	31	1.70
5512380--5512446	26	2.5	26	85	7	82	26	11	7	53	1.64
5523864--5523965	33	3.1	32	84	6	125	38	15	13	32	1.87
5524624--5524813	50	3.8	50	77	5	197	43	16	5	33	1.72
5524696--5524738	22	1.9	22	85	4	59	44	13	6	34	1.72
5524674--5524762	26	3.6	24	77	13	74	44	14	6	33	1.72
5525193--5525268	31	2.5	31	84	0	107	28	7	11	51	1.67
5527820--5527870	19	2.6	20	90	3	77	43	5	15	35	1.71
5544914--5544939	4	6.5	4	100	0	52	23	0	0	76	0.78
5545025--5545124	44	2.3	44	80	3	112	28	17	26	29	1.97
5545104--5545258	84	1.9	84	88	1	240	27	20	16	34	1.95
5545175--5545420	116	2.1	117	84	3	327	26	22	17	33	1.96
5546536--5546586	2	25.5	2	100	0	102	49	0	0	50	1.00
5546586--5546610	2	12.5	2	100	0	50	0	0	48	52	1.00
5550999--5551030	15	2.0	17	88	11	50	65	12	3	18	1.38
5556046--5556122	24	3.6	23	75	16	69	35	16	24	23	1.95
5557665--5557724	23	2.6	23	91	0	93	20	26	26	26	1.99
5567965--5568022	20	2.9	20	97	0	107	27	24	17	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5568095--5568146	19	2.7	19	96	0	95	21	23	17	38	1.93
5569478--5569564	20	4.3	20	98	0	156	34	10	4	50	1.57
5569530--5569586	19	2.9	19	87	7	71	33	12	7	47	1.68
5571385--5571424	21	1.9	21	85	10	55	32	10	22	35	1.87
5571498--5571599	44	2.3	45	94	1	179	28	14	21	35	1.93
5581612--5581644	17	2.0	17	88	5	50	69	6	0	24	1.10
5582940--5583019	3	26.7	3	80	12	76	65	1	0	33	1.01
5582940--5583019	19	4.3	19	78	10	76	65	1	0	33	1.01
5582941--5582998	25	2.3	24	85	8	80	63	0	0	36	0.94
5583346--5583757	123	3.5	116	83	7	431	26	19	15	38	1.91
5583474--5583757	123	2.3	123	91	0	460	26	19	14	39	1.89
5584943--5584977	18	1.9	18	94	0	61	60	5	2	31	1.35
5585324--5585361	19	2.0	19	89	0	58	13	13	0	73	1.09
5585337--5585391	25	2.2	24	78	9	56	18	14	1	65	1.36
5596421--5596453	17	2.0	17	88	5	50	69	6	0	24	1.10
5596907--5596949	14	3.1	14	90	6	61	0	39	0	60	0.97
5596898--5596949	19	2.6	20	87	6	70	1	38	0	59	1.08
5597754--5597851	3	33.0	3	76	11	69	63	1	1	34	1.08
5597757--5597818	13	5.0	12	76	11	54	58	0	0	41	0.98
5597775--5597853	37	2.2	37	76	2	88	67	1	1	30	1.07
5597754--5597841	40	2.3	37	83	15	108	62	1	0	36	1.03
5600203--5600232	15	1.9	16	93	6	53	50	0	6	43	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5603999--5604043	21	2.1	21	87	0	63	17	22	17	42	1.89
5604045--5604222	20	8.9	20	93	0	302	40	17	19	22	1.91
5604045--5604251	60	3.5	60	86	5	276	39	18	19	22	1.92
5604431--5604496	22	3.0	22	90	0	105	24	39	15	21	1.91
5604578--5604615	20	1.9	20	100	0	76	10	13	21	55	1.67
5604580--5604623	20	2.2	20	87	0	61	13	13	20	52	1.74
5606459--5606635	20	9.5	20	79	16	166	40	20	19	19	1.92
5606682--5606728	20	2.3	20	88	0	67	21	19	23	36	1.95
5607235--5607315	21	3.8	20	69	9	54	22	34	18	24	1.96
5607237--5607319	42	2.0	42	81	9	98	21	37	18	22	1.94
5608696--5608748	14	3.9	13	76	9	52	33	0	18	47	1.49
5608848--5608914	20	3.7	19	75	20	81	16	22	16	44	1.86
5608852--5608947	33	2.9	34	87	3	131	15	23	18	41	1.89
5608919--5609007	20	4.4	20	90	2	135	17	22	24	34	1.96
5611455--5611501	24	2.0	24	95	0	85	34	17	21	27	1.95
5611459--5611510	24	2.2	24	85	0	68	36	19	19	25	1.95
5612337--5612403	20	3.3	20	95	0	116	23	19	25	31	1.98
5612397--5612523	20	6.3	20	86	1	182	22	20	18	39	1.93
5612401--5612520	61	2.0	60	88	1	177	22	20	17	40	1.92
5612836--5613010	45	3.9	44	83	3	197	35	9	16	38	1.82
5613224--5613363	58	2.4	57	86	10	187	35	7	10	45	1.68
5613326--5613410	43	2.0	43	86	4	118	42	4	9	43	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5613264--5613450	101	1.8	101	84	5	252	40	6	10	42	1.65
5613369--5613800	58	7.4	58	74	13	237	37	6	12	44	1.67
5613604--5613800	59	3.4	59	82	2	220	40	5	8	46	1.57
5613650--5613864	58	3.8	58	76	6	154	40	6	9	43	1.62
5615862--5615903	17	2.5	17	92	0	66	19	4	28	47	1.69
5616493--5616538	19	2.4	19	81	3	56	45	0	21	32	1.52
5617117--5617172	24	2.4	24	96	3	105	39	3	14	42	1.63
5619051--5619155	44	2.4	44	82	9	117	32	18	21	27	1.97
5625375--5625464	20	4.5	20	85	0	108	41	17	17	23	1.90
5625537--5625589	27	2.0	27	88	0	79	20	26	20	32	1.98
5625518--5625689	20	8.2	20	80	10	146	22	26	17	33	1.96
5625684--5625787	20	5.2	20	97	0	199	25	18	28	26	1.98
5625776--5625823	21	2.3	21	89	3	71	27	18	29	25	1.98
5625684--5625812	60	2.2	60	89	0	195	27	17	28	26	1.97
5625776--5625850	20	3.7	21	80	3	73	28	16	28	28	1.97
5625864--5625993	20	6.4	20	89	1	170	26	25	16	32	1.96
5625864--5625993	61	2.2	60	84	1	170	26	25	16	32	1.96
5626016--5626102	20	4.3	20	88	2	122	35	11	28	24	1.90
5626094--5626160	21	3.2	21	85	2	82	37	16	19	26	1.93
5626133--5626206	21	3.6	20	81	3	85	25	13	27	33	1.93
5626215--5626266	20	2.6	20	96	0	95	30	19	13	36	1.90
5626531--5626835	82	3.7	80	80	6	222	34	17	19	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5626640--5626783	41	3.5	41	70	14	109	32	17	20	29	1.95
5626614--5626839	81	2.8	81	85	4	258	34	18	19	28	1.95
5626696--5626867	81	2.1	81	84	1	227	33	19	19	27	1.96
5627447--5627490	21	2.0	23	86	8	65	50	0	0	50	1.00
5627456--5627518	22	2.8	23	79	11	60	46	1	0	52	1.10
5627745--5627775	7	4.6	7	92	8	55	61	0	0	38	0.96
5627746--5627774	13	2.2	13	100	0	58	58	0	0	41	0.98
5627867--5627923	23	2.5	23	77	8	71	73	0	3	22	0.98
5629258--5629313	25	2.2	26	90	6	87	48	7	1	42	1.41
5629302--5629326	12	2.1	12	100	0	50	44	8	8	40	1.63
5629280--5629420	38	3.9	35	80	14	146	43	9	3	43	1.53
5629310--5629371	32	1.9	32	96	0	115	46	6	3	43	1.45
5629236--5629408	70	2.6	64	82	10	177	43	7	3	45	1.49
5630021--5630780	163	4.6	162	84	3	894	25	18	21	34	1.96
5630006--5630793	248	3.2	247	80	5	869	26	17	21	35	1.95
5630005--5630793	328	2.4	332	83	3	1043	26	17	21	35	1.95
5634852--5635113	85	3.1	84	91	3	402	30	20	17	31	1.96
5635173--5635319	2	74.5	2	91	2	235	48	1	1	48	1.18
5638943--5639005	2	31.5	2	100	0	126	50	0	0	49	1.00
5639066--5639276	85	2.5	84	85	6	266	34	17	18	29	1.94
5640472--5640529	27	2.1	27	90	0	89	44	5	1	48	1.35
5640472--5640541	27	2.5	27	86	4	86	47	5	1	45	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5640452--5640637	67	2.7	68	75	13	186	46	5	2	45	1.39
5640525--5640588	30	2.1	30	88	5	94	48	7	1	42	1.41
5640501--5640583	41	2.0	41	86	4	114	48	7	2	42	1.44
5640567--5640662	37	2.6	38	86	1	140	46	7	2	43	1.43
5640611--5640709	51	2.0	50	84	7	132	40	11	3	45	1.55
5640668--5640767	36	2.7	37	79	8	107	45	10	4	41	1.56
5640857--5640907	23	2.2	23	86	6	68	50	0	3	45	1.20
5640975--5641043	19	3.6	18	71	21	52	49	1	1	47	1.19
5641038--5641082	23	2.0	23	86	0	63	53	2	2	42	1.25
5641170--5641207	18	2.2	18	95	4	69	50	0	0	50	1.00

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