genome.fa.s7960.2.7.7.80.10.50.1000.29.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  29  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)
5511568--5511614	23	2.1	22	92	4	76	34	4	8	53	1.51
5525890--5525915	4	6.5	4	100	0	52	76	0	0	23	0.78
5526780--5526818	16	2.4	16	100	0	78	23	7	10	58	1.56
5527659--5527696	15	2.4	16	86	8	60	52	0	0	47	1.00
5527659--5527700	17	2.7	15	80	16	50	54	0	0	45	0.99
5531448--5531485	20	1.9	20	88	0	58	39	15	0	44	1.47
5536723--5536870	67	2.2	67	83	7	185	52	6	2	39	1.38
5537476--5537575	29	3.4	29	72	15	105	41	4	23	32	1.73
5537428--5537592	60	2.8	60	86	3	226	41	4	23	30	1.75
5537685--5537794	55	2.0	55	100	0	220	49	9	7	34	1.62
5538148--5538182	19	1.9	18	88	11	54	68	0	0	31	0.90
5539267--5539319	25	2.2	24	90	6	81	47	3	1	47	1.31
5539450--5539495	23	2.1	21	84	8	56	47	2	0	50	1.13
5539404--5539497	30	3.2	28	78	12	84	51	1	3	44	1.24
5539467--5539508	14	3.1	14	79	6	50	40	2	0	57	1.12
5539449--5539505	19	2.8	19	78	17	53	47	3	0	49	1.18
5539443--5539517	28	2.7	28	81	8	82	46	2	0	50	1.15
5539887--5539962	31	2.5	31	93	0	125	25	22	3	48	1.67
5546721--5546790	16	4.4	16	69	8	54	50	0	4	45	1.21
5548242--5548291	21	2.4	21	93	0	82	30	30	22	18	1.97
5548300--5548642	21	16.6	21	72	12	273	20	19	23	35	1.96
5548325--5548667	82	4.2	84	94	1	563	21	19	23	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5548325--5548667	42	8.3	42	95	1	563	21	19	23	36	1.95
5548760--5548786	6	4.5	6	100	0	54	33	51	14	0	1.43
5549393--5549625	42	5.5	42	89	1	340	36	22	18	21	1.95
5550272--5550316	23	2.0	22	83	12	56	31	0	4	64	1.13
5550286--5550324	18	2.2	18	95	4	71	33	0	2	64	1.08
5552619--5552700	34	2.4	34	77	18	89	26	8	10	53	1.64
5553691--5553730	20	2.0	21	85	14	57	42	5	7	45	1.54
5553900--5554106	65	3.2	63	83	7	220	30	25	16	27	1.96
5553947--5554110	65	2.5	65	87	1	231	30	26	15	27	1.96
5562496--5562702	65	3.2	63	83	7	229	30	25	16	27	1.97
5562543--5562706	65	2.5	65	88	1	240	29	26	15	27	1.96
5563945--5564011	29	2.3	29	79	7	73	40	7	20	31	1.80
5565043--5565145	47	2.3	46	86	6	140	39	8	19	32	1.82
5565658--5565696	13	3.0	13	78	14	53	23	23	12	41	1.88
5568787--5568825	14	2.6	15	88	8	53	69	5	5	20	1.28
5569253--5569296	15	3.0	15	76	6	54	61	6	4	27	1.41
5575329--5575390	25	2.5	25	81	5	72	74	8	1	16	1.13
5577104--5577168	20	3.2	20	71	4	67	27	21	24	26	1.99
5576868--5577399	235	2.3	235	89	2	802	34	20	16	28	1.94
5577339--5577452	42	2.7	41	80	6	131	32	22	21	23	1.98
5577489--5577644	71	2.2	72	87	3	226	35	24	10	29	1.88
5577824--5577883	24	2.6	23	75	17	61	36	1	3	58	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5579867--5580324	227	2.0	227	97	1	864	29	18	15	36	1.92
5584758--5584834	40	1.9	41	86	7	113	19	10	18	51	1.74
5588540--5588569	3	10.0	3	92	0	51	3	0	30	66	1.07
5596177--5596207	16	1.9	16	93	0	53	19	9	16	54	1.68
5596305--5596335	16	1.9	16	93	0	53	38	25	12	22	1.90
5596607--5596638	4	7.8	4	96	3	55	21	3	0	75	0.95
5605223--5605304	43	1.9	43	87	0	119	37	14	20	26	1.92
5605317--5605434	43	2.7	42	78	7	103	27	17	19	35	1.94
5605456--5605556	43	2.4	42	78	8	105	28	11	22	36	1.90
5605970--5606021	21	2.5	21	81	6	61	3	30	17	48	1.65
5609168--5609225	21	2.8	21	94	0	107	22	18	37	20	1.94
5609443--5609482	21	1.9	21	89	0	62	50	10	10	30	1.69
5610550--5610765	114	1.9	115	82	6	278	28	14	6	50	1.68
5612008--5612062	20	2.8	20	97	0	101	23	23	36	16	1.94
5613861--5613897	7	5.3	7	100	0	74	43	27	0	29	1.55
5614055--5614140	18	4.8	18	91	0	127	25	31	23	19	1.98
5623810--5623863	20	2.7	20	94	2	90	62	0	33	3	1.12
5623829--5623869	3	13.0	3	85	10	55	65	0	31	2	1.05
5625524--5625580	18	3.0	18	80	14	69	29	10	8	50	1.67
5625524--5625580	21	2.9	19	82	12	71	29	10	8	50	1.67
5625858--5625923	18	3.9	18	72	20	70	21	39	19	19	1.93
5630760--5630793	17	2.1	16	88	5	50	14	8	0	76	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5637135--5637209	23	3.1	23	76	16	80	9	20	1	69	1.23
5641011--5641044	17	2.1	16	88	5	50	14	8	0	76	1.01
5643911--5644252	43	8.0	43	82	1	328	24	17	19	38	1.93
5647632--5647912	41	6.8	41	74	5	174	33	17	18	30	1.94
5647607--5647913	165	1.9	165	82	7	390	34	18	17	29	1.94
5647983--5648047	14	4.7	14	75	1	51	26	1	24	47	1.61
5648089--5648149	8	8.2	8	78	14	60	18	0	22	59	1.38
5648096--5648151	22	2.6	22	97	2	105	17	0	23	58	1.38
5648096--5648159	22	3.0	22	90	6	87	20	0	23	56	1.42
5650278--5650318	18	2.3	18	87	4	57	29	7	2	60	1.36
5652630--5652714	35	2.5	33	78	14	91	25	8	10	55	1.62
5659732--5659789	10	5.6	10	84	8	71	68	5	3	22	1.24
5659732--5659789	21	2.8	20	82	7	71	68	5	3	22	1.24
5660993--5661125	59	2.2	60	84	4	162	39	6	19	34	1.78
5668101--5668129	5	5.8	5	100	0	58	20	0	0	79	0.74
5671023--5671067	8	5.6	8	91	0	72	35	22	0	42	1.54
5674362--5674403	17	2.4	19	77	22	56	80	0	19	0	0.70
5678025--5678205	46	3.9	46	91	2	292	24	22	19	32	1.98
5678025--5678205	91	2.0	93	91	2	294	24	22	19	32	1.98
5678142--5678278	74	1.9	73	93	4	240	24	21	19	33	1.97
5678215--5678370	46	3.4	46	86	5	228	25	22	19	32	1.97
5678095--5678311	120	1.8	120	92	2	373	24	22	18	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5678049--5678535	165	2.9	165	93	0	832	25	22	18	33	1.97
5678260--5678489	119	1.9	120	90	2	365	25	22	19	33	1.97
5678306--5678443	74	1.9	73	87	1	204	26	21	18	34	1.96
5678380--5678798	46	9.2	46	94	1	702	25	24	18	31	1.97
5678380--5678798	91	4.6	91	95	0	698	25	24	18	31	1.97
5679054--5679121	3	21.3	3	83	8	73	35	2	0	61	1.11
5680113--5680140	5	5.6	5	100	0	56	17	0	0	82	0.68
5680493--5680540	16	3.0	16	90	6	71	31	0	2	66	1.03
5680495--5680540	4	11.5	4	81	9	58	28	0	2	69	1.00
5680799--5680847	21	2.3	21	93	6	82	46	6	2	44	1.39
5682545--5682604	2	30.0	2	100	0	120	50	0	0	50	1.00
5685588--5685977	185	2.1	185	90	1	613	43	3	7	45	1.50
5686149--5686179	2	15.5	2	100	0	62	51	0	0	48	1.00
5686647--5686706	24	2.5	24	94	0	102	46	5	6	41	1.52
5690161--5690211	23	2.1	24	85	10	68	31	17	0	50	1.46
5691314--5691351	20	1.9	20	94	0	67	23	23	21	31	1.98
5691335--5691395	24	2.5	24	100	0	122	24	21	19	34	1.96
5691383--5691543	63	2.5	62	81	9	182	24	24	17	33	1.96
5694099--5694132	13	2.7	13	95	4	61	47	0	8	44	1.34
5696416--5696534	44	2.7	44	86	1	168	30	19	19	31	1.96
5696411--5696533	21	5.7	21	65	18	56	29	18	20	31	1.96
5700202--5700241	20	2.0	21	85	5	55	25	17	10	47	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5702327--5702462	65	2.1	64	81	6	159	32	18	19	29	1.96
5704084--5704116	13	2.5	13	95	0	57	3	18	54	24	1.57
5710618--5710663	24	2.0	24	91	4	76	32	10	10	45	1.74
5713629--5713731	36	2.9	36	98	0	197	25	16	16	41	1.89
5722453--5722612	44	3.6	44	71	10	121	42	16	20	20	1.89
5722443--5722668	88	2.6	89	84	2	276	40	16	19	23	1.91
5722633--5722874	126	1.9	125	88	4	362	35	13	23	27	1.92
5723190--5723231	15	2.9	15	80	16	52	45	0	0	54	0.99
5723193--5723230	20	1.9	20	88	0	58	44	0	0	55	0.99
5724326--5724371	22	2.0	22	83	4	56	23	6	10	58	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