genome.fa.s1547.2.7.7.80.10.50.1000.25.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: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10425128

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   51   

This is table  25  of  51  ( 6083 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)
4957748--4957786	16	2.4	16	95	0	69	5	30	38	25	1.78
4957757--4957793	16	2.3	16	90	0	56	13	24	40	21	1.89
4960796--4960848	21	2.5	21	96	0	97	22	28	28	20	1.99
4966201--4966263	23	2.8	23	85	2	83	22	28	22	26	1.99
4966201--4966280	23	3.7	22	81	6	74	23	28	22	25	1.99
4968901--4968942	20	2.1	20	95	0	75	16	40	28	14	1.88
4970535--4970613	25	3.1	25	66	10	70	39	35	1	24	1.63
4970535--4970611	26	3.0	26	64	16	61	40	33	1	24	1.64
4970747--4970794	7	6.6	7	76	9	51	39	41	0	18	1.51
4972108--4972164	28	2.0	28	83	6	71	35	24	10	29	1.89
4973609--4973657	2	24.5	2	100	0	98	48	0	0	51	1.00
4982621--4982813	97	2.0	97	96	0	359	24	19	19	36	1.95
4985638--4985889	129	2.0	123	90	8	402	37	11	6	44	1.65
4986559--4986591	17	1.9	17	100	0	66	69	0	6	24	1.10
4987727--4987804	15	5.4	15	69	9	72	51	2	0	46	1.14
4987687--4987789	42	2.5	41	85	9	129	51	2	0	44	1.23
4987692--4987812	22	6.1	20	68	18	74	51	2	0	45	1.20
4990783--4990983	102	2.0	102	100	0	402	47	7	21	22	1.76
4993662--4993714	23	2.3	23	80	6	63	26	24	26	22	2.00
4994164--4994223	29	2.0	30	93	6	104	35	6	15	43	1.72
4994414--4994495	41	2.0	41	85	4	112	20	26	25	26	1.99
4994414--4994487	20	3.7	19	78	10	76	20	27	24	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4997704--4997763	30	2.0	31	93	6	106	33	6	16	43	1.74
4997941--4998014	20	3.7	20	80	10	87	21	27	22	28	1.99
4997941--4998023	41	2.0	41	88	4	123	21	26	25	26	2.00
5005026--5005094	23	3.0	23	86	0	93	26	24	27	21	1.99
5007857--5007914	20	2.9	20	68	0	53	34	20	12	32	1.90
5033877--5033902	8	3.2	8	100	0	52	15	0	34	50	1.45
5042875--5042921	22	2.1	22	100	0	94	44	23	12	19	1.85
5052012--5052075	29	2.2	29	88	5	94	37	14	1	46	1.53
5055509--5055548	21	1.9	21	90	10	64	35	15	25	25	1.94
5057448--5057529	23	3.5	23	78	5	76	31	20	19	28	1.97
5060326--5060360	17	2.1	17	89	5	54	42	0	0	57	0.99
5075819--5075860	17	2.5	17	100	0	84	23	4	21	50	1.68
5077606--5077691	31	2.9	29	75	13	86	47	8	12	31	1.71
5082066--5082116	21	2.5	21	81	9	52	27	3	1	66	1.20
5085367--5085819	54	8.4	54	89	1	649	31	19	17	31	1.95
5085376--5085515	27	5.2	27	61	27	73	30	19	18	32	1.96
5085986--5086213	45	5.1	45	89	0	339	44	10	22	22	1.83
5087152--5087220	23	3.0	23	80	4	77	30	26	23	20	1.98
5087236--5087448	103	2.1	103	94	0	372	37	22	13	26	1.91
5092177--5092386	103	2.0	103	93	0	357	37	24	11	26	1.89
5095585--5095780	42	4.7	41	80	10	184	19	22	15	42	1.89
5095584--5095767	40	4.4	41	83	8	187	19	25	14	40	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5101585--5102199	51	11.7	51	81	5	620	24	24	18	33	1.97
5101585--5102164	105	5.5	104	83	7	600	24	24	18	32	1.97
5101589--5102164	265	2.2	263	87	3	827	24	24	18	33	1.97
5102171--5102550	55	7.0	55	92	0	543	27	29	14	27	1.95
5102127--5102551	110	3.9	110	88	3	589	27	28	14	28	1.96
5118123--5118206	28	3.0	28	96	0	150	25	25	21	28	1.99
5120138--5120183	21	2.2	21	100	0	92	15	30	32	21	1.94
5125269--5125297	2	15.0	2	92	7	51	51	0	0	48	1.00
5126488--5126930	125	3.5	125	87	3	631	32	16	26	24	1.96
5127687--5129992	205	11.2	205	94	1	3893	31	16	20	32	1.94
5128215--5128316	42	2.5	41	83	1	132	24	22	22	30	1.99
5128830--5128931	42	2.5	41	81	1	123	24	21	22	31	1.98
5129035--5129136	42	2.5	41	83	1	132	24	22	22	30	1.99
5129240--5129341	42	2.5	41	83	1	132	24	22	22	30	1.99
5129446--5129547	42	2.5	41	80	1	123	24	21	22	31	1.98
5129650--5129762	42	2.7	42	80	2	138	24	22	22	30	1.99
5129865--5129935	20	3.5	19	70	14	61	22	21	21	35	1.96
5129872--5129966	42	2.3	42	94	0	163	22	22	21	34	1.97
5131520--5131565	21	2.2	21	96	0	83	15	32	32	19	1.93
5139176--5139204	14	2.1	14	93	6	51	44	0	0	55	0.99
5141047--5141085	16	2.4	16	86	0	51	23	28	15	33	1.95
5141235--5141310	37	2.0	39	85	10	104	34	3	3	57	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5141923--5141982	23	2.7	23	84	2	77	35	26	11	26	1.91
5142068--5142128	20	3.0	20	80	0	59	57	16	11	14	1.65
5144464--5144496	2	16.5	2	100	0	66	51	0	0	48	1.00
5144707--5144750	12	3.7	12	75	0	52	9	2	38	50	1.47
5144706--5144751	18	2.6	18	89	0	65	8	4	39	47	1.54
5144713--5144762	24	2.1	24	88	0	73	12	6	36	46	1.66
5144725--5144762	18	2.1	18	85	9	51	13	7	34	44	1.72
5144805--5144886	6	13.7	6	69	0	56	4	10	41	42	1.61
5144832--5144884	18	2.9	18	77	8	63	5	11	37	45	1.64
5144773--5144869	24	4.1	23	78	10	88	7	9	38	45	1.64
5144805--5144881	24	3.2	24	78	10	86	5	11	40	42	1.64
5145065--5145267	103	2.0	103	84	5	268	32	4	29	33	1.79
5145210--5145375	89	1.9	89	89	0	260	28	6	30	34	1.81
5145614--5145747	61	2.2	61	86	2	189	35	11	6	46	1.66
5145778--5145857	26	2.8	27	82	16	83	46	2	6	45	1.42
5145807--5146024	51	4.3	50	76	10	212	43	6	6	44	1.55
5145844--5146007	67	2.5	65	85	9	215	43	5	6	44	1.53
5145818--5145991	16	10.4	17	67	18	64	44	6	5	43	1.53
5145836--5145949	18	6.4	18	74	14	103	43	6	5	44	1.51
5145844--5146040	67	3.0	66	83	8	172	42	6	6	45	1.55
5146037--5146091	18	2.8	18	86	10	65	43	5	9	41	1.59
5146052--5146104	18	2.9	18	83	5	63	47	5	7	39	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5146163--5146409	2	117.0	2	66	22	80	45	4	5	44	1.47
5146177--5146248	27	2.7	27	91	0	117	45	6	5	41	1.54
5146209--5146368	56	3.2	49	71	17	116	45	4	6	43	1.50
5146236--5146308	11	6.5	11	70	14	60	38	2	6	52	1.43
5146256--5146324	34	2.0	36	85	5	97	43	2	7	46	1.46
5146283--5146324	9	4.4	9	78	21	50	45	0	7	47	1.30
5146204--5146402	103	1.9	102	80	6	229	44	3	6	45	1.46
5146276--5146436	20	8.1	19	71	16	78	45	3	6	44	1.44
5146428--5146471	18	2.4	19	88	7	72	45	4	4	45	1.44
5146484--5146567	29	2.9	29	85	0	123	44	5	7	42	1.56
5146532--5146584	18	2.8	20	82	11	74	41	7	7	43	1.61
5146570--5146660	9	10.7	9	67	23	54	35	2	8	53	1.44
5146570--5146662	11	8.5	11	69	21	63	35	2	8	53	1.44
5146476--5146598	58	2.1	58	83	5	151	40	4	8	46	1.55
5146570--5146678	20	5.7	20	73	18	81	37	1	8	52	1.42
5146645--5146751	20	5.3	20	73	10	78	48	3	5	42	1.44
5146637--5146718	27	3.0	26	78	8	83	48	2	7	41	1.44
5146637--5146751	7	18.0	6	75	16	56	47	3	6	42	1.45
5146728--5146762	18	1.9	18	88	0	52	45	2	5	45	1.41
5146637--5146751	2	54.0	2	68	20	56	47	3	6	42	1.45
5146803--5146838	17	2.1	17	89	0	54	38	2	5	52	1.39
5146988--5147431	22	21.0	22	69	20	120	45	4	4	45	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5147133--5147416	20	13.5	20	72	14	123	45	4	4	45	1.45
5147001--5147185	11	16.7	11	68	19	91	45	3	3	47	1.35
5147255--5147428	10	16.5	11	77	13	122	48	3	2	45	1.34
5147276--5147428	2	73.5	2	78	12	157	49	2	2	45	1.30
5156876--5156971	38	2.5	37	80	6	102	35	13	0	51	1.42
5156904--5156987	38	2.2	39	89	2	125	33	14	1	51	1.50
5159010--5159055	20	2.2	21	85	11	60	60	0	8	30	1.26
5166264--5166315	2	26.0	2	100	0	104	50	0	0	50	1.00
5179577--5179611	17	2.1	17	88	0	52	62	2	2	31	1.24
5181036--5181467	116	3.7	116	89	1	591	28	20	22	28	1.99

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   51