genome.fa.s9643.2.7.7.80.10.50.1000.19.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: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8859806

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   

This is table  19  of  41  ( 4862 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)
3963399--3964626	106	12.1	95	87	9	1413	33	25	18	22	1.96
3963599--3964759	106	11.3	106	91	3	1690	33	24	18	22	1.97
3963815--3964064	43	5.4	43	65	15	142	33	26	19	20	1.97
3963858--3964021	51	3.4	51	66	13	155	32	26	18	21	1.97
3963395--3964759	400	3.3	401	89	5	2020	33	25	18	22	1.97
3966572--3966609	16	2.4	16	100	0	76	31	0	0	68	0.90
3967029--3967094	32	2.1	32	100	0	132	27	31	6	34	1.81
3967077--3967215	69	2.0	69	100	0	278	44	25	12	17	1.84
3969770--3969826	20	2.9	19	84	7	62	49	1	0	49	1.11
3970131--3970178	22	2.2	23	85	7	64	50	6	2	41	1.39
3971156--3971239	9	8.8	9	71	12	51	17	25	27	29	1.98
3971177--3971243	19	3.5	19	84	11	84	16	25	29	28	1.97
3971242--3971284	22	2.0	22	100	0	86	18	48	23	9	1.76
3972897--3972933	18	2.1	17	90	5	56	29	0	8	62	1.24
3973963--3973989	2	13.5	2	100	0	54	51	0	0	48	1.00
3974549--3974575	2	13.5	2	100	0	54	51	0	0	48	1.00
3978859--3978916	31	2.0	30	83	10	75	62	6	0	31	1.22
3978973--3979008	2	18.0	2	88	0	54	0	55	0	44	0.99
3982090--3982119	16	1.9	15	93	6	51	86	0	3	10	0.67
3982630--3982704	28	2.6	28	89	4	114	54	6	8	30	1.55
3988231--3988275	23	1.9	24	86	4	65	33	2	2	62	1.20
3989678--3989745	23	3.0	23	88	0	100	27	23	26	22	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3989789--3990061	103	2.7	103	98	0	519	35	24	13	26	1.93
3991433--3991492	20	2.9	21	85	7	86	20	26	25	28	1.99
3995024--3995083	21	2.9	21	87	0	93	23	41	28	6	1.79
4006571--4006625	17	3.4	16	82	10	67	21	32	27	18	1.96
4006557--4006625	32	2.2	32	89	0	102	21	28	27	21	1.99
4006566--4006613	15	3.1	15	77	11	60	22	33	27	16	1.96
4006661--4006705	15	2.9	16	83	6	65	24	28	31	15	1.96
4006651--4006699	15	3.1	16	82	8	64	28	28	28	14	1.95
4015073--4015117	22	2.0	22	95	0	81	44	4	8	42	1.56
4016379--4016406	2	14.0	2	100	0	56	50	0	0	50	1.00
4017721--4017754	16	2.1	16	88	0	50	35	8	23	32	1.86
4024786--4024826	2	20.5	2	100	0	82	51	0	0	48	1.00
4026303--4026348	21	2.2	21	96	0	83	13	17	19	50	1.78
4029398--4029437	16	2.5	16	79	0	53	65	5	5	25	1.34
4033655--4033712	20	2.8	22	84	12	86	31	18	17	32	1.94
4033723--4033774	20	2.6	20	96	0	95	36	25	17	21	1.94
4034244--4034308	34	1.9	34	83	0	85	30	15	27	26	1.96
4037708--4037772	34	1.9	34	87	0	94	29	13	27	29	1.95
4040004--4040058	20	2.8	20	77	0	65	29	32	16	21	1.95
4040045--4040095	20	2.5	20	93	3	84	37	23	17	21	1.94
4040086--4040134	20	2.5	20	96	3	91	46	22	14	16	1.82
4040683--4040735	19	2.8	20	88	8	83	13	16	22	47	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4042456--4042497	21	2.0	21	81	9	50	19	9	38	33	1.84
4042843--4042964	41	3.0	41	86	1	154	21	34	19	24	1.96
4042851--4042964	21	5.5	20	72	10	86	21	34	21	23	1.97
4044418--4044453	18	2.0	18	94	0	63	19	2	22	55	1.56
4045607--4045651	6	7.5	6	82	0	54	51	8	4	35	1.54
4045607--4045651	18	2.5	18	92	0	72	51	8	4	35	1.54
4046037--4046086	25	2.0	25	96	0	91	44	22	8	26	1.80
4046157--4046285	63	2.0	63	86	2	179	26	17	21	34	1.95
4048827--4048880	24	2.2	24	90	0	81	42	20	18	18	1.89
4049887--4050019	20	6.6	21	79	14	106	23	15	24	37	1.93
4049867--4050019	40	3.8	41	75	14	122	24	15	24	35	1.94
4049858--4050101	20	12.0	21	75	8	96	28	15	24	31	1.96
4052661--4052727	34	1.9	34	82	14	84	20	11	19	47	1.81
4053588--4053614	3	9.0	3	100	0	54	0	0	33	66	0.92
4055759--4055816	30	1.9	30	86	6	82	44	20	8	25	1.80
4060316--4060373	30	1.9	30	86	6	82	44	20	8	25	1.80
4063639--4063683	22	2.0	22	100	0	90	46	4	8	40	1.55
4065561--4065614	3	18.0	3	100	0	108	33	0	66	0	0.92
4068275--4068323	25	2.0	25	87	0	71	26	38	14	20	1.91
4069148--4069190	12	3.8	11	85	11	52	23	2	0	74	0.93
4069240--4069271	2	16.0	2	100	0	64	50	0	0	50	1.00
4070419--4070491	23	3.3	22	80	16	71	15	21	0	63	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4070427--4070504	23	3.4	23	76	15	72	14	17	1	66	1.31
4075864--4075946	23	3.7	22	80	10	80	22	30	22	24	1.99
4078641--4078677	16	2.4	16	95	4	67	21	10	18	48	1.78
4078932--4079015	24	3.6	22	78	12	80	17	14	2	65	1.37
4079089--4079152	33	1.9	33	84	12	87	26	4	1	67	1.19
4084379--4084433	23	2.3	23	87	6	74	18	32	20	29	1.96
4084391--4084450	23	2.7	22	80	12	70	21	31	21	25	1.98
4086562--4086586	11	2.3	11	100	0	50	52	0	0	48	1.00
4087473--4087547	23	3.2	22	78	10	78	14	17	1	66	1.32
4090320--4090518	99	2.0	99	89	3	303	33	15	19	31	1.93
4091324--4091612	64	4.5	64	95	0	497	36	21	12	30	1.90
4091636--4092587	113	8.3	113	85	2	1142	35	23	15	25	1.94
4092594--4093020	80	5.2	81	85	5	500	34	22	19	22	1.96
4094432--4094456	11	2.3	11	100	0	50	52	0	0	48	1.00
4095343--4095400	23	2.5	22	79	17	64	13	20	0	65	1.26
4098201--4098393	99	1.9	99	88	4	291	34	15	18	31	1.92
4099175--4099398	64	3.5	64	93	1	378	36	21	12	29	1.90
4099422--4100319	113	7.9	113	89	1	1241	35	24	16	24	1.95
4100378--4100801	80	5.1	83	82	5	450	35	21	19	23	1.96
4100403--4100723	164	2.0	160	85	2	435	34	23	18	23	1.96
4102740--4102807	24	2.8	23	80	12	66	22	13	0	64	1.27
4103108--4103137	12	2.5	12	88	0	51	33	10	0	56	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4108762--4109010	137	1.9	131	80	7	295	45	7	7	40	1.59
4110682--4110722	3	13.7	3	85	10	57	60	0	0	39	0.96
4111009--4111266	74	3.5	74	91	0	408	31	22	20	26	1.98
4111157--4111413	116	2.2	116	87	3	372	28	22	20	28	1.99
4110892--4111390	264	1.9	265	89	2	770	29	21	20	29	1.98
4112083--4112139	22	2.6	22	91	0	87	36	12	15	35	1.85
4112498--4112608	54	2.1	54	82	3	134	27	24	13	35	1.93
4113444--4113767	75	4.4	74	79	10	292	27	22	17	32	1.96
4116704--4116910	73	2.9	72	92	1	333	36	16	18	28	1.93
4121805--4121864	31	2.0	30	83	9	77	36	3	23	36	1.71
4128717--4128776	31	2.0	30	83	9	77	36	3	23	36	1.71
4131204--4131246	23	1.9	22	81	13	52	51	0	4	44	1.22
4131054--4131307	137	1.8	138	81	6	318	44	8	7	40	1.63
4133096--4133136	3	13.7	3	85	10	57	60	0	0	39	0.96
4135835--4135880	21	2.2	21	92	0	74	8	15	23	52	1.70
4146768--4146822	29	1.9	28	81	3	65	36	5	9	49	1.58
4147278--4147318	15	2.6	16	77	18	50	31	0	0	68	0.90
4147168--4147438	144	1.9	143	83	7	354	38	8	7	45	1.63
4147426--4147472	2	23.5	2	95	0	85	51	0	0	48	1.00
4147212--4147488	144	1.9	143	79	8	303	40	8	6	44	1.62
4149518--4149550	13	2.5	13	95	0	57	15	21	48	15	1.81
4149558--4149593	11	3.6	10	89	10	56	33	30	22	13	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4159463--4159566	54	1.9	54	86	0	145	38	11	21	28	1.88
4159757--4159833	22	3.5	22	78	16	88	33	12	15	37	1.86
4160208--4160916	124	5.9	122	82	9	781	38	16	18	26	1.91
4160473--4160771	110	2.7	111	91	2	474	36	15	20	27	1.93
4160456--4160771	113	2.8	111	88	3	490	36	16	19	27	1.93
4160682--4160916	123	1.9	121	83	5	305	39	16	18	25	1.91
4164474--4164523	24	2.1	23	96	3	91	20	18	30	32	1.96
4165293--4165348	24	2.3	24	96	0	103	16	58	10	14	1.62
4165317--4165432	45	2.7	42	78	4	115	17	53	10	18	1.71
4168386--4168475	32	2.8	32	77	8	94	31	18	16	33	1.94

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