genome.fa.s7999.2.7.7.80.10.50.1000.15.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  15  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)
3965435--3965808	42	8.9	42	87	4	526	18	23	25	32	1.97
3971828--3971867	7	5.7	7	93	0	71	17	30	27	25	1.97
3971867--3971933	29	2.3	29	84	5	82	23	10	23	41	1.85
3971986--3972054	29	2.3	29	82	2	84	34	4	23	37	1.75
3972974--3973479	42	12.0	42	89	2	766	20	22	24	32	1.98
3990215--3990269	12	4.4	12	73	22	51	49	0	1	49	1.11
3991252--3991703	82	5.5	82	76	4	313	32	16	16	34	1.91
3991388--3991684	162	1.8	162	82	2	380	31	15	16	37	1.89
4003286--4003823	261	2.1	259	95	0	968	43	13	11	31	1.79
4005746--4005792	24	1.9	25	86	4	69	72	0	4	23	1.02
4008301--4008790	247	2.0	248	95	2	889	40	5	6	46	1.54
4008861--4008894	18	2.0	17	88	11	52	41	0	0	58	0.98
4022039--4022195	65	2.4	65	78	8	176	24	17	24	33	1.96
4025898--4025939	20	2.1	20	100	0	84	45	14	21	19	1.85
4027370--4027517	76	2.0	75	89	4	226	28	2	10	58	1.44
4027397--4027544	75	2.0	76	89	4	228	27	2	10	60	1.41
4027397--4027546	76	2.0	76	89	5	232	27	2	10	60	1.41
4028254--4028296	18	2.6	18	85	10	56	32	4	0	62	1.15
4033733--4033759	9	3.0	9	100	0	54	11	0	0	88	0.50
4033846--4033947	53	2.0	50	83	9	125	48	13	19	18	1.81
4036368--4036430	17	3.3	18	80	17	67	20	7	1	69	1.22
4040563--4040612	13	3.8	13	81	0	55	32	10	20	38	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4043760--4043851	3	30.7	3	87	8	134	61	0	1	36	1.03
4044180--4044282	40	2.6	40	100	0	206	18	19	9	52	1.72
4044222--4044731	113	4.5	113	91	0	806	29	18	13	39	1.88
4045451--4045869	84	5.0	84	96	2	765	33	22	14	29	1.93
4045451--4045865	165	2.5	166	96	2	753	33	22	14	29	1.93
4047011--4047072	13	4.9	12	77	16	63	3	16	0	80	0.83
4047025--4047091	11	6.1	11	79	10	66	2	16	0	80	0.83
4047017--4047088	21	3.3	22	77	13	76	2	16	0	80	0.83
4050595--4050628	10	3.4	10	87	0	50	64	0	11	23	1.26
4054320--4054351	15	2.2	15	94	5	57	43	3	6	46	1.44
4059763--4059874	3	37.7	3	92	1	190	63	0	1	34	1.05
4072837--4072994	84	1.9	83	89	6	248	58	12	1	26	1.44
4074644--4074688	23	1.9	24	86	4	65	77	0	0	22	0.76
4077334--4077370	19	1.9	19	88	0	56	21	24	10	43	1.84
4077664--4077717	18	2.9	18	81	5	72	74	3	3	18	1.12
4077663--4077717	6	9.0	6	76	4	56	74	3	3	18	1.11
4077664--4077721	19	3.1	19	80	11	75	72	3	5	18	1.18
4081604--4081647	20	2.2	21	88	8	65	18	29	15	36	1.92
4084568--4084607	20	2.0	20	90	9	64	12	10	35	42	1.76
4084855--4084965	20	5.5	20	85	2	150	40	16	19	23	1.91
4084855--4084965	40	2.7	41	91	1	170	40	16	19	23	1.91
4084952--4085039	20	4.4	20	81	5	97	34	21	15	28	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4084855--4084981	40	3.2	38	83	9	146	39	18	18	23	1.92
4088162--4088228	31	2.1	32	86	10	93	43	17	23	14	1.87
4088247--4088342	33	2.9	34	90	3	149	12	23	20	42	1.86
4088269--4088322	14	3.5	14	73	22	54	11	24	20	44	1.83
4090408--4090536	20	6.4	20	87	0	150	39	20	18	20	1.93
4090601--4090665	20	3.3	20	87	8	98	18	18	23	40	1.92
4090601--4090653	18	2.8	19	94	5	90	20	18	20	39	1.92
4090601--4090732	33	3.8	34	76	6	122	17	18	20	43	1.89
4092582--4092631	20	2.5	20	90	0	73	52	24	12	12	1.72
4092996--4093061	22	3.0	22	90	0	105	21	15	39	24	1.91
4093240--4093370	20	6.6	20	96	0	226	17	20	24	37	1.94
4094996--4095046	18	2.8	18	84	3	57	64	1	1	31	1.15
4096735--4096763	12	2.3	13	94	5	51	17	0	13	68	1.20
4100955--4101010	29	1.9	29	89	7	87	17	28	23	30	1.97
4100959--4101013	19	2.8	19	73	13	58	18	27	27	27	1.98
4101025--4101071	22	2.1	22	88	0	67	19	44	21	14	1.86
4108288--4108327	19	2.1	19	90	9	64	20	20	32	27	1.97
4108250--4108328	29	2.7	30	81	11	85	16	25	29	29	1.97
4108333--4108377	22	2.0	22	91	0	72	17	46	22	13	1.83
4113680--4113722	22	2.0	21	86	13	61	13	4	37	44	1.65
4119065--4119125	22	2.8	22	90	5	88	18	4	36	40	1.72
4123356--4123435	31	2.6	30	83	13	85	42	0	5	52	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4123476--4123517	21	2.0	22	90	4	68	42	0	2	54	1.13
4123477--4123524	21	2.2	22	85	3	62	45	0	2	52	1.12
4123470--4123549	30	2.5	33	75	22	89	43	0	2	53	1.14
4123655--4123707	16	3.1	18	84	13	67	43	1	1	52	1.23
4123669--4123719	18	2.9	18	86	11	54	47	0	1	50	1.12
4124773--4124815	19	2.3	19	91	0	68	32	6	25	34	1.83
4125442--4125530	23	4.0	23	78	10	112	30	24	20	24	1.99
4125659--4125692	15	2.3	15	90	5	52	29	23	11	35	1.90
4130944--4130996	18	2.9	18	97	0	97	26	30	16	26	1.97
4131039--4131089	21	2.4	21	80	0	57	35	21	17	25	1.95
4131412--4131454	18	2.4	19	80	11	54	51	18	0	30	1.47
4131410--4131464	11	4.4	12	74	21	51	49	18	0	32	1.48
4131927--4131979	21	2.5	21	100	0	106	24	30	16	28	1.97
4134083--4134217	21	6.3	21	70	16	82	31	25	18	23	1.97
4134067--4134153	23	3.9	23	73	10	90	29	24	19	26	1.98
4134156--4134217	21	3.0	21	88	2	90	33	29	17	19	1.95
4134784--4134828	19	2.4	19	88	0	72	24	35	13	26	1.92
4144903--4144955	19	2.8	19	79	0	61	45	3	5	45	1.45
4147332--4147368	13	2.8	13	91	0	56	35	0	8	56	1.29
4153750--4153825	31	2.4	32	82	10	95	18	18	7	55	1.66
4154300--4154356	30	1.9	30	85	7	80	50	15	7	26	1.69
4154431--4154491	28	2.2	27	85	5	77	57	9	4	27	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4159866--4159903	19	2.0	19	94	0	67	55	0	26	18	1.43
4177863--4178193	81	4.1	81	88	1	484	34	13	22	29	1.92
4179633--4179838	73	2.8	73	90	3	324	33	13	20	32	1.91
4179643--4179829	36	5.1	36	68	7	144	33	12	21	32	1.91
4186238--4186267	12	2.5	12	100	0	60	20	16	0	63	1.31
4189263--4189340	26	3.0	27	67	17	74	26	16	20	35	1.94
4189330--4189889	153	3.7	151	82	6	632	31	7	17	43	1.78
4189330--4189882	51	10.9	50	79	7	535	31	7	17	43	1.77
4195654--4195861	56	3.7	56	90	0	335	34	12	18	34	1.89
4199889--4199933	11	3.8	12	82	8	56	17	4	4	73	1.17
4199884--4199935	23	2.2	24	89	3	79	17	5	3	73	1.19
4205770--4205861	42	2.2	42	92	0	148	19	10	36	32	1.87
4209242--4209271	15	2.0	15	93	0	51	63	0	20	16	1.31
4216278--4216313	17	2.1	17	89	0	54	8	16	2	72	1.21
4217858--4217900	15	2.8	16	80	16	54	55	4	6	32	1.47
4220756--4220793	20	2.0	20	94	5	69	31	13	28	26	1.93
4222358--4222411	14	3.8	13	77	22	56	66	1	3	27	1.19
4222492--4222606	34	3.3	34	78	10	117	42	6	3	46	1.47
4222468--4222650	36	5.1	36	74	16	121	42	8	4	44	1.55
4222603--4222680	31	2.4	32	85	6	95	34	10	5	50	1.59
4234948--4235043	41	2.5	39	81	11	117	42	8	6	42	1.60
4235009--4235075	34	2.0	34	88	2	100	43	7	0	49	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4234948--4235171	37	6.3	36	70	16	119	42	8	5	43	1.56
4235190--4235296	35	3.0	36	80	4	135	35	7	4	52	1.51
4235184--4235315	37	3.6	37	79	8	126	38	6	3	50	1.47
4235261--4235366	38	2.7	39	83	1	124	47	6	1	44	1.40
4241324--4241352	14	2.1	14	100	0	58	27	44	0	27	1.54
4246991--4247018	12	2.3	12	100	0	56	21	0	17	60	1.36
4247014--4247066	27	1.9	28	81	11	65	1	1	13	83	0.82
4247014--4247067	21	2.6	21	88	2	74	1	1	12	83	0.81
4250194--4250233	6	6.7	6	94	0	71	50	0	2	47	1.14
4251675--4251719	21	2.1	21	87	0	63	17	26	17	37	1.93

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