genome.fa.s7823.2.7.7.80.10.50.1000.32.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: VEPZ01007823.1 Hibiscus syriacus cultivar Beakdansim tig00110160_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6287495

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   

This is table  32  of  33  ( 3920 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)
5925452--5925499	21	2.4	20	86	6	62	75	2	8	14	1.13
5925564--5925594	2	15.5	2	100	0	62	51	0	0	48	1.00
5925759--5925789	16	2.0	16	93	6	55	77	0	0	22	0.77
5925752--5925797	20	2.4	19	81	3	56	71	2	2	23	1.08
5929646--5929702	2	29.5	2	92	7	100	50	0	0	49	1.00
5929565--5929753	33	5.8	33	74	17	132	43	2	7	46	1.43
5929842--5929884	9	4.7	9	78	16	52	55	6	0	37	1.27
5929840--5930024	11	18.1	11	66	17	62	49	7	3	40	1.47
5930056--5930177	2	63.0	2	70	20	82	45	2	3	48	1.32
5930109--5930216	19	5.3	20	71	17	71	49	4	4	41	1.44
5930088--5930209	63	2.0	62	90	4	192	47	4	4	44	1.41
5931351--5931375	13	1.9	13	100	0	50	12	0	8	80	0.92
5931487--5931518	3	10.7	3	100	0	64	34	0	0	65	0.93
5932970--5933016	15	3.2	14	75	21	51	27	4	2	65	1.22
5932968--5933084	60	2.0	60	84	6	157	23	5	6	63	1.42
5932970--5933084	30	3.8	30	72	3	97	24	4	6	64	1.37
5934329--5934379	17	3.1	17	83	8	61	19	1	1	76	0.98
5934346--5934379	15	2.3	15	94	0	59	20	0	2	76	0.92
5934438--5934465	11	2.5	11	100	0	56	7	10	7	75	1.20
5934574--5934687	4	27.2	4	68	15	52	15	1	7	75	1.10
5934573--5934687	9	13.1	9	75	18	82	15	1	6	75	1.09
5934565--5934697	18	7.6	18	81	10	111	15	1	7	75	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5936179--5936204	2	13.0	2	100	0	52	50	0	0	50	1.00
5937208--5937267	22	2.7	22	78	0	66	28	6	21	43	1.78
5937286--5937327	18	2.3	18	84	8	50	14	7	23	54	1.64
5943066--5943105	20	2.0	20	90	0	62	12	32	17	37	1.87
5949187--5949216	14	2.1	15	93	6	53	26	50	20	3	1.64
5955098--5955149	26	2.0	26	100	0	104	26	23	15	34	1.94
5959150--5959210	31	2.0	30	84	12	81	21	8	4	65	1.38
5961718--5961769	19	2.8	19	94	2	88	26	25	11	36	1.90
5962817--5962869	18	2.9	18	94	0	88	22	35	22	18	1.95
5965483--5965519	17	2.2	17	100	0	74	32	16	18	32	1.93
5973031--5973074	18	2.4	18	76	0	52	36	9	45	9	1.68
5973111--5973142	10	3.4	10	83	16	50	40	0	25	34	1.56
5973791--5973828	3	12.7	3	100	0	76	68	0	0	31	0.90
5973838--5973880	21	2.0	21	100	0	86	62	4	4	27	1.35
5976113--5976190	31	2.6	30	75	2	75	29	25	10	34	1.89
5978126--5978234	31	3.5	30	87	5	146	33	14	28	23	1.94
5978537--5978603	23	2.8	23	86	6	89	61	10	8	19	1.54
5978537--5978605	24	2.9	24	82	8	86	60	10	8	20	1.54
5981873--5981935	27	2.2	28	81	13	76	36	3	3	57	1.31
5984565--5984596	13	2.3	15	89	10	50	65	6	21	6	1.38
5990096--5990138	17	2.5	16	78	14	50	34	0	2	62	1.08
5991677--5991709	10	3.4	10	87	4	50	27	0	0	72	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5992508--5992586	30	2.6	30	84	4	88	30	6	13	49	1.67
5992810--5992859	20	2.4	20	83	6	64	28	32	14	26	1.94
5995057--5995155	42	2.4	42	92	0	162	27	36	19	17	1.94
5995270--5995319	21	2.4	21	79	0	64	22	12	30	36	1.90
5995355--5995454	21	4.8	21	71	4	76	22	12	30	36	1.90
5995747--5995822	21	3.6	21	83	0	98	23	36	17	22	1.94
5998151--5998338	20	9.4	20	70	8	67	33	12	23	29	1.92
5998142--5998238	40	2.4	40	79	3	106	36	13	22	27	1.92
6001263--6001287	7	3.6	7	100	0	50	64	0	0	36	0.94
6003352--6003418	2	35.0	2	91	8	113	50	0	0	49	1.00
6003352--6003418	19	3.6	19	92	8	120	50	0	0	49	1.00
6003352--6003418	13	5.0	14	89	10	113	50	0	0	49	1.00
6003350--6003418	17	3.9	17	92	7	120	50	0	0	49	1.00
6003902--6003935	14	2.4	14	90	0	50	50	0	2	47	1.16
6004781--6004837	29	2.0	28	82	3	69	47	7	3	42	1.47
6010129--6010194	23	2.7	24	79	6	71	45	1	15	37	1.55
6010850--6010880	2	15.5	2	100	0	62	51	0	0	48	1.00
6011539--6011597	29	2.0	29	90	6	91	55	3	8	32	1.46
6021086--6021117	16	2.0	16	100	0	64	25	31	18	25	1.98
6023647--6023742	30	3.2	31	91	7	153	51	0	2	46	1.12
6031366--6031422	23	2.3	25	80	17	66	56	5	3	35	1.39
6031421--6031453	12	2.8	12	90	9	50	63	18	0	18	1.31
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6040229--6040309	32	2.5	31	80	9	92	37	25	17	19	1.94
6040334--6040367	16	2.2	16	89	5	52	20	29	14	35	1.93
6040432--6040467	19	1.9	19	94	5	65	50	0	5	44	1.25
6041861--6042062	101	2.0	101	91	1	325	37	9	26	26	1.87
6042059--6042262	28	7.2	28	75	16	154	50	1	2	46	1.24
6042201--6042385	31	5.8	30	73	20	126	49	3	4	42	1.40
6042208--6042254	24	1.9	25	82	4	60	55	4	2	38	1.31
6042172--6042421	131	1.9	132	82	7	312	48	3	4	43	1.41
6042266--6042356	43	2.2	40	88	7	128	46	4	5	43	1.46
6042336--6042386	15	3.3	15	74	15	59	50	1	3	43	1.31
6042171--6042357	31	5.6	34	70	22	114	47	3	4	44	1.40
6042397--6042449	21	2.5	21	87	0	79	47	5	7	39	1.56
6042480--6042617	59	2.4	55	81	7	168	42	6	9	42	1.63
6042533--6042573	15	2.6	16	88	7	57	41	2	9	46	1.50
6042480--6042612	57	2.3	57	82	5	162	42	6	9	41	1.63
6042546--6042584	20	2.0	19	90	5	60	41	2	7	48	1.45
6042575--6042648	37	2.1	36	84	5	96	39	10	8	41	1.70
6042670--6042709	7	5.7	7	82	11	55	17	0	37	45	1.49
6042693--6042772	35	2.3	34	84	4	106	26	1	23	48	1.58
6042718--6042789	35	2.1	34	84	2	90	30	4	19	45	1.69
6043148--6043291	2	75.0	2	84	10	194	49	0	0	49	1.11
6043652--6043678	2	13.5	2	100	0	54	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6043753--6043826	18	4.2	17	79	16	71	45	1	4	48	1.29
6049837--6049925	13	6.3	13	79	14	88	15	43	22	17	1.87
6049855--6049932	8	10.5	8	70	25	64	15	41	24	19	1.90
6049837--6049925	31	3.2	26	76	17	88	15	43	22	17	1.87
6049863--6049904	18	2.3	18	95	0	75	16	47	23	11	1.80
6049833--6049925	44	2.1	45	93	4	161	16	45	21	17	1.86
6049851--6049910	31	1.9	31	96	0	111	16	46	21	15	1.83
6049902--6049933	7	4.4	7	92	7	55	12	34	28	25	1.92
6055562--6055676	36	3.2	36	73	11	101	46	6	5	42	1.51
6055560--6055679	35	3.4	34	75	13	100	46	5	5	42	1.49
6055560--6055692	71	1.9	71	85	0	185	45	5	4	44	1.46
6055591--6055692	35	2.9	33	72	15	80	47	3	2	46	1.36
6062909--6063948	201	5.2	201	86	4	1204	31	14	16	37	1.89
6062772--6063948	398	2.9	396	81	7	1216	31	14	16	37	1.88
6062909--6064020	596	1.9	598	79	7	1274	31	13	16	38	1.88
6067430--6068186	201	3.8	201	84	5	814	31	14	16	38	1.88
6069648--6069697	3	16.7	3	78	0	55	26	30	2	42	1.66
6070501--6070534	2	17.0	2	100	0	68	50	0	0	50	1.00
6071905--6071968	23	2.8	22	79	13	76	26	25	26	21	2.00
6071984--6072201	103	2.1	103	98	0	418	37	25	12	24	1.91
6072647--6072774	64	2.0	67	90	7	210	25	19	19	35	1.95
6072659--6072819	64	2.5	62	84	8	189	26	21	18	34	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6073612--6074634	199	5.2	199	91	1	1642	27	14	15	42	1.86
6074958--6075007	19	2.6	19	90	0	73	58	8	2	32	1.39
6078458--6078524	19	3.6	19	95	2	118	34	17	0	47	1.48
6079015--6079347	162	2.1	162	91	1	553	28	15	11	44	1.82
6079172--6079603	182	2.4	182	85	4	595	26	15	14	43	1.85
6081506--6081563	2	29.0	2	100	0	116	50	0	0	50	1.00
6084307--6084431	40	3.0	41	96	3	234	24	2	12	61	1.42
6085102--6085163	31	2.0	31	93	0	106	37	16	16	30	1.90
6085226--6085360	68	2.0	69	91	1	218	32	20	11	35	1.89
6085562--6085618	18	3.4	17	76	11	55	45	0	7	47	1.30

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