genome.fa.s8242.2.7.7.80.10.50.1000.63.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   

This is table  63  of  73  ( 8740 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)
14571679--14572174	200	2.5	199	83	3	617	39	15	15	29	1.88
14572211--14572330	64	1.9	64	94	0	213	30	13	15	41	1.85
14574484--14574543	20	3.2	20	70	18	65	40	0	11	48	1.40
14576242--14576266	12	2.1	12	100	0	50	44	8	16	32	1.76
14576701--14576730	10	3.0	10	90	0	51	30	23	0	46	1.52
14577517--14577548	15	2.1	15	94	0	55	53	15	25	6	1.65
14581157--14581217	30	2.0	30	93	6	106	26	16	22	34	1.95
14589218--14589594	187	2.0	190	98	1	733	32	12	15	39	1.85
14597617--14597674	30	1.9	31	82	10	75	53	5	12	29	1.59
14600255--14600351	48	2.0	48	93	0	167	39	8	7	45	1.62
14600522--14600567	18	2.6	17	86	3	56	32	6	28	32	1.83
14604132--14604344	116	1.8	118	85	2	304	48	7	15	28	1.72
14608937--14609059	64	1.9	64	86	3	176	31	16	21	30	1.95
14608937--14609123	64	2.9	64	78	10	168	29	16	22	30	1.96
14608964--14609190	64	3.5	63	77	12	183	30	16	21	31	1.95
14611827--14611908	23	3.6	23	70	20	64	29	19	25	25	1.99
14611834--14611928	45	2.1	44	84	5	120	30	18	23	27	1.98
14617709--14617894	64	2.9	64	82	4	214	30	16	22	31	1.95
14618793--14618831	12	3.0	13	85	7	53	33	10	7	48	1.66
14622311--14622424	60	1.9	60	82	7	142	34	15	18	31	1.92
14625008--14625054	24	1.9	24	86	4	67	59	0	6	34	1.23
14634965--14634998	16	2.1	16	88	0	50	38	2	8	50	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14637330--14637372	21	2.0	21	95	0	77	39	39	2	18	1.64
14639210--14639287	29	2.9	27	70	20	65	61	6	2	29	1.34
14640673--14641020	91	3.8	91	86	1	482	25	21	14	37	1.92
14640671--14641018	182	1.9	182	91	1	563	25	21	14	37	1.92
14641332--14641502	30	5.5	30	77	8	119	36	13	20	29	1.91
14641332--14641575	96	2.5	97	81	7	284	35	14	20	29	1.92
14641529--14641582	15	3.7	15	74	18	60	37	18	22	22	1.95
14641463--14641749	66	4.3	64	77	10	265	36	13	20	29	1.91
14641619--14642078	39	12.0	39	90	2	598	36	16	18	28	1.93
14642048--14642250	76	2.7	76	81	11	240	41	15	13	29	1.85
14642146--14642251	40	2.8	38	77	7	117	39	12	15	33	1.84
14648667--14648717	23	2.3	23	83	6	70	17	43	21	17	1.88
14648699--14648738	21	1.9	21	89	0	62	25	40	25	10	1.86
14653704--14654617	478	1.9	478	97	0	1720	25	23	18	31	1.98
14661236--14661493	39	6.8	38	79	12	235	44	11	6	37	1.65
14661253--14661493	38	6.4	38	81	9	251	43	12	6	38	1.67
14661236--14661493	77	3.4	76	80	7	260	44	11	6	37	1.65
14661517--14661591	39	1.9	39	88	0	114	40	12	8	40	1.72
14661422--14661664	97	2.5	97	88	4	348	43	11	6	38	1.68
14661614--14661773	38	4.2	39	74	10	143	48	10	5	35	1.60
14661923--14662154	58	4.0	57	77	7	225	43	10	8	38	1.69
14662323--14662513	45	4.3	45	81	4	199	38	16	8	36	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14662323--14662513	90	2.1	89	85	4	251	38	16	8	36	1.80
14662381--14662513	45	3.0	45	87	1	205	38	17	9	35	1.81
14662816--14662866	14	3.6	14	83	0	66	23	37	13	25	1.92
14662811--14662865	28	2.0	28	88	0	83	23	34	16	25	1.95
14663842--14663884	21	2.0	21	82	8	52	37	11	16	34	1.85
14664146--14664216	35	2.0	35	100	0	142	25	8	11	54	1.63
14673219--14673309	48	1.9	48	82	10	116	48	2	1	48	1.21
14673612--14673675	3	22.3	3	74	15	55	68	1	3	26	1.13
14673612--14673675	14	4.5	14	75	14	60	68	1	3	26	1.13
14675001--14675027	2	13.5	2	100	0	54	51	0	0	48	1.00
14675172--14675734	76	7.4	76	95	0	984	34	23	18	23	1.96
14675737--14676064	167	2.0	167	93	1	559	38	12	13	35	1.82
14676582--14676636	22	2.5	22	93	0	101	40	14	10	34	1.81
14676994--14677148	50	3.0	53	78	8	174	27	21	14	36	1.92
14679209--14679421	106	2.0	106	92	1	356	28	21	14	35	1.93
14686819--14686856	2	19.0	2	94	0	67	47	0	0	52	1.00
14686857--14686921	3	22.3	3	74	12	55	69	1	3	26	1.12
14688228--14688284	2	28.5	2	100	0	114	50	0	0	49	1.00
14689169--14689415	51	4.8	50	79	9	259	23	12	17	46	1.82
14689170--14689372	98	2.0	102	86	5	290	22	13	17	47	1.82
14689773--14689814	14	2.8	16	85	10	61	33	0	0	66	0.92
14689825--14689878	19	2.9	19	74	20	53	38	0	1	59	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14689777--14689917	62	2.2	65	74	14	143	38	2	0	58	1.15
14690081--14690139	2	30.5	2	93	6	104	52	0	0	47	1.00
14690157--14690557	37	11.1	36	80	10	376	43	2	6	47	1.43
14690168--14690557	109	3.6	110	76	13	330	43	2	6	47	1.42
14690575--14690642	9	8.2	8	73	20	52	23	1	1	73	1.00
14690589--14690632	19	2.4	18	84	3	52	20	2	2	75	1.03
14690580--14690639	24	2.5	25	79	15	65	21	1	1	75	0.99
14690586--14690641	14	4.0	14	77	9	60	19	1	1	76	0.96
14690924--14690974	21	2.4	21	96	0	93	23	33	23	19	1.97
14691891--14691915	13	1.9	13	100	0	50	16	0	0	84	0.63
14697288--14697360	32	2.3	32	97	0	137	34	30	10	24	1.90
14697453--14697793	85	4.0	85	86	1	461	35	21	18	24	1.96
14698503--14698608	41	2.6	43	82	8	123	39	1	8	50	1.44
14698503--14698642	41	3.5	42	80	12	122	40	2	8	48	1.49
14698543--14698754	35	5.6	36	79	14	146	45	3	7	43	1.49
14698585--14698754	73	2.3	70	83	10	191	46	4	6	42	1.48
14698740--14698809	2	35.5	2	97	2	133	50	0	0	50	1.00
14698794--14698976	38	4.8	39	80	12	179	43	3	5	47	1.42
14698832--14698989	71	2.2	73	80	12	191	44	2	5	47	1.38
14698997--14699059	3	20.3	3	73	23	51	26	3	0	69	1.03
14698999--14699068	9	8.2	8	79	17	63	24	2	0	72	0.98
14698999--14699068	17	4.1	16	75	21	63	24	2	0	72	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14699466--14699510	18	2.5	19	79	13	60	60	33	0	6	1.23
14700305--14700345	8	5.0	8	82	5	55	17	0	2	80	0.82
14700305--14700345	17	2.5	16	88	7	64	17	0	2	80	0.82
14700920--14701147	51	4.5	53	77	13	230	24	10	14	49	1.76
14706638--14706680	18	2.4	18	92	0	77	30	18	18	32	1.95
14710904--14710974	21	3.0	25	71	23	71	12	18	0	69	1.20
14714254--14714303	24	2.1	24	85	7	66	26	0	14	60	1.34
14718736--14718768	16	2.0	17	94	5	59	48	12	0	39	1.40
14720216--14720286	26	2.7	27	78	14	85	54	1	4	39	1.28
14720216--14720270	24	2.1	27	87	9	80	58	0	3	38	1.16
14720231--14720290	24	2.5	24	84	10	70	55	1	5	38	1.32
14720414--14720507	44	2.2	43	90	1	143	22	3	6	68	1.27
14720532--14720575	13	3.5	13	85	14	58	20	2	4	72	1.13
14722818--14722850	15	2.2	15	89	10	50	72	0	0	27	0.85
14723392--14723530	60	2.3	61	78	7	158	33	19	4	42	1.71
14724064--14724157	45	2.1	46	95	2	172	43	0	3	53	1.17
14724064--14724177	46	2.5	46	90	5	160	41	0	4	54	1.20
14724064--14724178	45	2.5	44	83	9	140	41	0	4	53	1.20
14724836--14724968	60	2.2	59	83	10	155	31	15	18	35	1.91
14725313--14725362	21	2.4	21	80	6	66	22	26	18	34	1.96
14725352--14725403	21	2.5	21	81	3	61	40	17	21	21	1.91
14725389--14725486	41	2.4	41	89	0	142	37	23	18	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14725392--14725486	20	4.6	21	74	11	81	35	24	18	21	1.95
14725653--14725696	22	2.0	22	90	0	70	22	45	13	18	1.84
14725973--14726031	20	3.0	20	87	0	73	16	18	22	42	1.89
14727350--14727397	18	2.7	18	86	0	69	27	41	12	18	1.86
14727938--14727983	20	2.3	20	84	0	56	36	23	21	17	1.94
14727980--14728035	19	3.2	19	73	23	68	50	16	19	14	1.79
14727993--14728051	14	3.9	14	78	20	64	50	22	16	10	1.75
14727980--14728068	33	2.7	33	91	3	135	49	19	17	13	1.79
14728418--14728486	21	3.3	20	75	13	68	24	39	15	20	1.92
14728411--14728498	41	2.1	42	87	2	124	22	40	13	22	1.89

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   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73