genome.fa.s8243.2.7.7.80.10.50.1000.22.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: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10265705

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   

This is table  22  of  49  ( 5786 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)
4565858--4565969	33	3.5	33	86	10	178	44	21	24	9	1.82
4565910--4565974	19	3.7	19	74	19	77	44	21	23	10	1.83
4565986--4566039	14	3.6	14	77	18	63	9	25	24	40	1.85
4565981--4566027	18	2.9	17	75	18	55	8	23	23	44	1.80
4566160--4566228	32	2.2	32	91	0	111	46	20	21	11	1.82
4566179--4566228	16	3.0	18	69	22	54	44	22	22	12	1.85
4566622--4566676	22	2.5	22	81	0	74	20	16	40	23	1.91
4566293--4566729	219	2.0	218	96	3	817	29	12	28	29	1.93
4566822--4567014	20	9.6	20	82	5	219	19	19	25	35	1.95
4566822--4567014	60	3.2	60	83	0	251	19	19	25	35	1.95
4567070--4567121	20	2.6	20	96	0	95	21	13	26	38	1.90
4567857--4567976	59	2.0	59	85	6	163	35	13	15	35	1.87
4568199--4568272	32	2.2	33	95	4	132	33	14	4	47	1.64
4568210--4569384	588	2.0	585	97	2	2250	33	16	13	37	1.87
4572268--4572305	16	2.3	17	86	4	51	63	0	5	31	1.17
4575134--4575225	32	2.9	32	77	1	114	51	2	2	44	1.25
4575255--4575297	21	2.0	22	86	4	61	41	2	0	55	1.12
4582178--4582213	18	2.0	18	88	0	54	22	2	8	66	1.31
4592113--4592145	17	1.9	17	93	0	57	12	21	18	48	1.80
4607268--4607300	15	2.2	15	100	0	66	6	69	18	6	1.30
4609856--4609922	33	2.0	34	85	2	91	44	5	10	38	1.63
4612751--4612892	70	2.0	70	93	0	239	34	7	18	40	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4615933--4615989	20	2.8	20	100	0	114	24	45	14	15	1.83
4616496--4616540	20	2.4	19	82	10	56	24	24	6	44	1.77
4619500--4619545	22	2.0	22	91	8	74	13	0	60	26	1.32
4625371--4625437	28	2.3	29	87	5	91	41	20	11	25	1.87
4654475--4654530	2	28.0	2	100	0	112	50	0	0	50	1.00
4657864--4657921	16	3.6	16	73	0	53	53	5	6	34	1.50
4666889--4667036	60	2.5	60	80	5	138	31	22	4	41	1.72
4667627--4667692	29	2.3	29	100	0	132	36	18	10	34	1.85
4667565--4667738	89	2.0	89	85	0	240	33	14	13	39	1.85
4667659--4667819	60	2.7	61	87	5	206	32	17	13	37	1.88
4668026--4668075	24	2.1	24	88	0	73	34	12	16	38	1.85
4676610--4676646	17	2.2	17	100	0	74	29	32	5	32	1.80
4678798--4678880	21	3.9	21	73	9	78	18	25	34	21	1.96
4682661--4682700	21	1.9	21	85	10	55	35	10	2	52	1.48
4689421--4689475	2	28.0	2	96	3	103	50	0	0	49	1.00
4689706--4689784	2	40.5	2	94	5	144	50	0	0	49	1.00
4690061--4690130	2	36.5	2	88	8	110	48	1	0	50	1.09
4690061--4690130	15	4.6	16	87	8	110	48	1	0	50	1.09
4691066--4691104	2	20.0	2	94	5	71	51	0	0	48	1.00
4691739--4691784	23	1.9	25	91	8	78	39	4	0	56	1.19
4692902--4692961	30	2.0	31	93	3	104	61	8	8	21	1.51
4693917--4693970	21	2.6	20	78	16	56	57	1	3	37	1.27
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4693917--4693972	22	2.5	23	75	13	55	57	1	3	37	1.27
4698949--4698979	2	15.5	2	100	0	62	48	0	0	51	1.00
4717293--4717406	38	2.8	41	68	18	112	43	1	7	47	1.40
4717293--4717449	78	2.0	80	92	2	264	42	2	8	46	1.47
4725032--4725066	15	2.3	15	95	0	61	31	34	20	14	1.92
4725290--4725336	7	6.4	7	77	18	51	40	14	4	40	1.66
4726525--4726569	13	3.4	13	80	17	56	44	8	0	46	1.34
4726783--4726822	2	20.0	2	100	0	80	50	0	0	50	1.00
4726844--4726887	18	2.4	18	88	3	61	36	0	15	47	1.46
4727140--4727312	2	87.0	2	79	12	187	43	4	1	50	1.28
4727365--4727612	6	38.5	6	64	21	51	44	5	4	45	1.48
4727383--4727612	19	12.2	19	68	22	130	44	5	4	45	1.47
4727365--4727507	65	2.2	64	84	12	175	42	4	5	46	1.48
4727479--4727612	55	2.5	54	81	6	155	46	5	3	44	1.46
4727478--4727583	35	2.8	38	79	15	105	48	5	3	42	1.45
4727549--4727598	26	1.9	26	84	8	66	46	4	4	46	1.40
4728291--4728340	21	2.4	21	93	0	82	42	30	14	14	1.84
4733121--4733150	13	2.3	13	94	0	51	20	16	13	50	1.78
4734627--4734667	10	4.1	10	84	12	57	31	29	0	39	1.57
4734688--4734716	14	2.1	14	93	6	51	27	6	0	65	1.18
4734791--4735011	110	2.0	111	95	0	399	35	8	10	45	1.69
4740926--4740988	29	2.1	29	82	8	74	31	14	25	28	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4741138--4741183	20	2.3	20	96	0	83	43	17	15	23	1.87
4743375--4743462	44	2.0	43	93	2	149	26	14	22	36	1.93
4743961--4744047	43	2.0	43	91	4	140	37	39	11	11	1.78
4745160--4745192	15	2.2	15	94	0	57	9	69	15	6	1.34
4749846--4749947	31	3.3	31	68	16	95	27	18	13	40	1.89
4749804--4749963	60	2.7	60	92	0	257	33	14	13	39	1.84
4749833--4749925	29	3.1	29	65	17	73	33	13	13	38	1.85
4751965--4752001	16	2.2	17	90	4	58	40	0	5	54	1.24
4753243--4753282	2	20.0	2	100	0	80	50	0	0	50	1.00
4756192--4756260	3	22.0	3	76	8	66	36	0	2	60	1.11
4756205--4756270	13	5.2	13	75	8	55	34	1	3	60	1.21
4758018--4758055	19	2.0	20	84	5	51	21	2	5	71	1.19
4766930--4766995	22	3.0	22	100	0	132	18	31	22	27	1.97
4767322--4767347	7	3.7	7	100	0	52	61	0	11	26	1.30
4769093--4769137	22	2.0	22	87	12	65	24	2	2	71	1.09
4769112--4769147	18	2.0	18	88	0	54	33	0	0	66	0.92
4769093--4769136	21	2.0	23	86	8	65	25	2	2	70	1.10
4771360--4771405	23	2.0	23	100	0	92	17	17	13	52	1.75
4786035--4786097	33	1.9	33	90	6	101	23	14	4	57	1.56
4788170--4788194	3	8.3	3	100	0	50	32	0	0	68	0.90
4790859--4790917	10	5.9	10	95	0	73	49	8	0	42	1.33
4790862--4790917	4	14.0	4	92	0	76	50	7	0	42	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4790862--4790917	6	9.3	6	90	0	76	50	7	0	42	1.30
4791791--4791905	60	1.9	60	85	3	160	41	10	11	36	1.75
4796770--4796885	60	1.9	60	89	0	178	32	18	14	33	1.92
4802253--4802361	47	2.4	45	85	7	139	33	22	5	38	1.77
4802358--4802400	20	2.2	20	86	0	59	58	18	4	18	1.56
4802462--4802590	59	2.2	59	87	0	177	27	25	18	27	1.98
4805016--4805085	28	2.5	28	81	4	70	48	2	5	42	1.41
4811152--4811176	2	12.5	2	100	0	50	48	0	0	52	1.00
4812210--4812247	13	2.9	13	81	14	51	68	0	13	18	1.21
4813941--4813970	15	2.0	15	93	0	51	70	13	0	16	1.18
4815453--4815509	29	2.0	29	82	6	71	43	8	1	45	1.45
4817859--4817888	3	10.3	3	92	7	53	70	0	0	30	0.88
4817831--4817888	14	4.3	14	76	12	59	70	1	1	25	1.06
4817886--4818031	65	2.2	68	85	11	205	50	5	1	42	1.34
4818043--4818082	20	2.0	20	95	0	71	40	7	5	47	1.54
4817976--4818152	93	1.9	94	88	5	270	43	7	5	44	1.54
4818006--4818119	57	2.0	56	86	6	158	42	7	5	44	1.56
4818063--4818224	37	4.3	37	80	10	172	42	9	5	42	1.60
4821169--4821207	19	2.1	19	95	0	69	53	7	5	33	1.51
4822296--4822329	15	2.2	16	89	5	52	79	0	2	17	0.86
4823448--4823504	2	28.5	2	92	7	98	47	0	1	50	1.11
4833662--4833722	23	2.7	23	97	0	113	29	29	26	14	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4834542--4834635	29	3.2	29	100	0	188	38	10	20	30	1.86
4834879--4834936	20	2.7	20	86	10	71	27	22	18	31	1.97
4836967--4837080	60	1.9	60	83	1	149	31	14	16	37	1.88
4843030--4843062	3	11.0	3	93	0	57	0	0	30	69	0.88
4852620--4852659	21	1.9	21	84	0	53	25	37	27	10	1.88
4854902--4854934	16	2.1	16	100	0	66	36	0	18	45	1.49
4856628--4856748	54	2.2	54	89	0	179	23	19	25	31	1.98
4858306--4858380	31	2.4	31	88	0	114	44	9	6	40	1.63
4859307--4859350	12	3.6	12	87	3	61	11	20	45	22	1.83
4860014--4860073	31	2.0	31	86	3	86	18	15	33	33	1.92

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