genome.fa.s8527.2.7.7.80.10.50.1000.21.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: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9057482

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   

This is table  21  of  37  ( 4336 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)
5089556--5089599	21	2.1	21	91	0	70	29	0	15	54	1.42
5089576--5089629	28	1.9	28	96	0	99	29	0	12	57	1.36
5092752--5093019	10	26.7	10	66	21	53	39	0	14	44	1.49
5092699--5093121	60	7.2	60	90	7	651	39	0	13	46	1.46
5092872--5093020	21	7.4	20	62	20	60	40	0	14	44	1.45
5093068--5093137	25	3.1	22	79	16	63	38	0	11	50	1.39
5093003--5093117	48	2.3	49	92	2	187	40	0	11	47	1.39
5093089--5093136	14	3.6	14	81	16	66	35	0	16	47	1.47
5093209--5093235	7	3.9	7	100	0	54	55	14	14	14	1.70
5093231--5093368	26	5.5	26	74	14	103	44	2	10	42	1.50
5093231--5093449	98	2.2	98	96	1	404	43	1	10	44	1.48
5093302--5093449	26	5.9	26	73	12	121	43	2	9	45	1.48
5093411--5093502	24	3.8	24	73	9	80	43	2	4	50	1.34
5093410--5093505	11	7.9	12	75	14	81	43	2	4	50	1.33
5093462--5093511	24	2.1	24	81	7	57	48	2	4	46	1.32
5093591--5093655	14	5.2	13	75	17	50	38	7	7	46	1.61
5093602--5093635	11	3.2	11	83	8	52	38	8	5	47	1.59
5093602--5093645	21	2.1	21	86	0	61	40	9	4	45	1.56
5093640--5093672	17	1.9	17	100	0	66	36	6	9	48	1.60
5095822--5095852	15	2.1	14	94	5	53	54	6	0	38	1.26
5095827--5095873	16	3.0	16	84	9	53	59	10	0	29	1.31
5095909--5095990	34	2.5	34	84	9	100	48	12	0	39	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5095971--5096023	12	4.3	12	84	11	63	52	16	0	30	1.44
5096053--5096143	43	2.0	47	85	12	129	49	10	0	39	1.38
5096053--5096183	43	3.0	45	77	17	125	48	11	0	39	1.39
5096123--5096211	41	2.2	40	78	8	90	46	10	1	42	1.45
5096247--5096285	16	2.3	18	86	8	55	56	5	0	38	1.22
5096497--5096603	49	2.2	48	91	6	173	22	18	38	20	1.94
5096638--5096732	29	3.3	29	95	0	163	23	32	30	13	1.93
5096719--5096790	32	2.2	32	90	0	117	8	30	30	30	1.87
5096805--5096842	19	2.0	19	100	0	76	10	21	36	31	1.87
5102610--5102647	17	2.2	18	86	9	53	42	0	0	57	0.98
5106058--5106122	17	3.9	16	74	16	51	32	0	3	64	1.09
5106044--5106123	34	2.3	32	83	12	97	30	0	3	66	1.09
5106064--5106122	18	3.4	18	75	25	56	32	0	1	66	1.02
5106099--5106136	20	1.9	20	88	0	58	36	0	0	63	0.95
5106061--5106150	35	2.5	35	84	8	103	36	0	1	62	1.03
5110478--5110627	76	2.0	76	82	5	187	44	5	10	39	1.62
5117930--5118030	15	7.5	13	71	20	50	58	1	3	35	1.28
5117943--5118032	15	5.9	15	72	21	71	56	1	4	37	1.27
5118012--5118096	36	2.4	35	77	15	93	49	4	1	44	1.30
5118110--5118189	23	3.4	23	79	6	97	41	13	1	43	1.52
5118157--5118329	35	4.9	35	74	11	140	42	10	3	43	1.55
5118155--5118329	70	2.5	70	85	3	246	42	10	3	43	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5118589--5118636	2	24.0	2	100	0	96	50	0	0	50	1.00
5119308--5119349	12	3.2	13	86	10	59	59	7	4	28	1.44
5123092--5123136	18	2.5	18	85	7	65	51	2	13	33	1.53
5123179--5123207	2	14.5	2	100	0	58	51	0	0	48	1.00
5126817--5126866	26	1.9	26	84	8	66	50	8	0	42	1.32
5130523--5131592	214	5.0	214	100	0	2140	23	21	15	38	1.92
5132406--5132455	24	2.0	25	92	3	84	46	0	0	54	1.00
5132441--5132526	31	2.8	31	90	0	127	46	11	2	39	1.53
5154646--5154926	154	1.8	155	83	7	383	38	8	9	43	1.67
5154908--5155292	75	5.1	75	81	5	402	35	13	10	41	1.78
5154908--5155292	150	2.5	152	84	3	483	35	13	10	41	1.78
5156140--5156205	14	4.6	14	74	11	53	42	3	0	54	1.15
5157573--5157602	14	2.1	14	93	0	51	23	36	30	10	1.87
5157658--5157763	29	3.7	29	97	0	185	22	27	34	15	1.94
5169456--5169499	2	22.0	2	100	0	88	50	0	0	50	1.00
5171134--5171279	60	2.4	59	78	6	150	39	3	21	35	1.70
5171278--5171324	22	2.1	22	100	0	94	44	8	17	29	1.78
5172015--5172056	18	2.4	17	81	14	50	42	0	0	57	0.99
5179566--5179656	23	4.0	23	81	5	103	24	21	29	24	1.99
5184878--5184932	23	2.4	23	84	0	65	29	21	25	23	1.99
5185134--5185193	21	2.8	21	94	2	102	25	18	23	33	1.97
5186254--5186300	16	3.1	16	85	11	55	34	0	6	59	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5186371--5186410	19	2.0	20	85	4	55	52	10	0	37	1.35
5186454--5186522	2	34.5	2	100	0	138	50	0	0	49	1.00
5186562--5186591	2	15.0	2	100	0	60	50	0	0	50	1.00
5186803--5187171	20	18.5	20	84	5	451	34	26	18	20	1.96
5190378--5190670	19	16.4	19	83	14	392	47	18	20	14	1.83
5190406--5190692	52	5.4	55	90	8	356	46	17	21	14	1.83
5190378--5190692	128	2.6	128	88	7	462	46	18	20	14	1.83
5190699--5190800	19	5.6	19	85	12	151	14	23	17	44	1.86
5190907--5190943	14	2.6	14	91	0	65	45	21	0	32	1.52
5192847--5192962	19	6.6	19	75	19	108	45	22	19	12	1.83
5192884--5192940	14	3.7	14	77	20	60	45	22	21	10	1.82
5192865--5192957	33	2.8	33	95	0	168	47	21	20	10	1.80
5192958--5193085	19	7.3	19	71	19	107	7	17	28	45	1.77
5192958--5193049	33	2.8	33	91	3	141	6	19	28	45	1.75
5193129--5193506	93	4.1	93	97	1	717	46	18	12	22	1.83
5193129--5193506	184	2.0	185	98	0	731	46	18	12	22	1.83
5195209--5195298	14	5.7	14	74	23	81	42	23	25	8	1.83
5195201--5195315	33	3.5	33	95	0	212	45	20	24	9	1.81
5195208--5195320	19	6.8	18	72	23	88	43	22	24	9	1.83
5195332--5195386	14	3.6	14	73	21	56	9	25	23	41	1.83
5195316--5195386	33	2.2	33	94	0	124	8	22	25	43	1.81
5195329--5195449	41	3.4	34	84	11	127	11	25	20	42	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5195396--5195468	21	3.5	21	81	3	103	13	23	17	45	1.84
5195376--5195469	41	2.3	41	100	0	188	13	25	18	42	1.87
5195339--5195468	20	6.8	20	73	14	112	13	24	18	43	1.85
5195548--5195618	33	2.2	33	92	0	115	47	18	22	11	1.80
5195799--5195853	22	2.5	22	81	0	74	20	16	40	23	1.91
5195999--5196191	20	9.6	20	82	5	219	19	19	25	35	1.95
5195999--5196191	60	3.2	60	83	0	251	19	19	25	35	1.95
5196247--5196298	20	2.6	20	96	0	95	21	13	26	38	1.90
5196949--5196992	23	2.0	23	81	4	54	59	0	2	38	1.10
5213237--5213276	8	5.2	8	93	3	57	22	0	0	77	0.77
5213237--5213269	7	4.6	7	92	7	57	24	0	0	75	0.80
5213237--5213269	15	2.3	14	94	5	57	24	0	0	75	0.80
5214147--5214304	21	7.8	20	70	7	77	38	24	17	19	1.92
5214271--5214540	20	13.5	20	81	6	260	37	24	17	20	1.94
5214310--5214540	40	5.8	40	92	4	297	35	24	17	22	1.95
5214291--5214540	60	4.2	60	84	4	290	36	25	17	20	1.94
5215223--5215269	24	2.0	24	87	8	69	25	14	21	38	1.92
5217696--5217911	33	6.2	34	80	12	201	46	18	21	14	1.84
5217710--5217917	19	11.7	19	80	15	257	45	17	21	15	1.85
5217738--5217917	52	3.3	52	92	4	279	45	16	22	15	1.85
5217926--5218023	19	5.4	19	84	13	143	14	22	17	45	1.84
5217907--5218023	53	2.2	53	96	1	218	13	24	17	43	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5218130--5218166	14	2.6	14	91	0	65	45	21	0	32	1.52
5220085--5220131	20	2.4	20	89	3	69	44	29	14	10	1.79
5220122--5220178	14	3.7	14	77	20	60	45	22	21	10	1.82
5220103--5220195	33	2.8	33	91	0	150	47	23	19	9	1.79
5220136--5220200	19	3.7	19	78	19	86	46	20	21	12	1.83
5220196--5220258	19	3.3	19	93	2	99	9	14	30	46	1.76
5220306--5220773	93	5.1	93	98	0	895	46	19	12	22	1.83
5222477--5222533	14	3.7	14	70	20	51	43	22	22	10	1.84
5222469--5222550	33	2.5	33	95	0	146	47	19	23	9	1.79
5222491--5222555	19	3.7	18	70	19	57	44	21	23	10	1.83

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