genome.fa.s7999.2.7.7.80.10.50.1000.30.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: VEPZ01007999.1 Hibiscus syriacus cultivar Beakdansim tig00110450_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11700749

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   

This is table  30  of  50  ( 5918 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)
7321434--7321694	138	1.9	138	85	3	364	29	11	17	41	1.84
7327664--7327692	2	14.5	2	100	0	58	51	48	0	0	1.00
7331746--7331792	24	1.9	25	82	4	60	21	14	10	53	1.71
7334050--7334086	2	18.5	2	100	0	74	51	0	0	48	1.00
7335121--7335166	19	2.4	19	100	0	92	34	28	26	10	1.90
7335735--7335915	7	25.9	7	100	0	362	56	14	28	0	1.38
7343455--7343499	20	2.5	17	80	19	56	24	22	11	42	1.86
7345589--7345691	35	2.9	36	89	4	163	30	3	19	46	1.68
7350187--7350247	21	3.2	21	65	29	64	31	4	21	42	1.74
7350185--7350297	35	3.2	36	92	5	185	31	4	20	43	1.71
7356916--7356991	34	2.2	34	92	0	125	30	7	15	46	1.75
7363116--7364345	205	5.9	203	75	8	829	29	20	19	30	1.97
7363522--7364338	216	3.8	213	77	9	686	29	20	19	30	1.97
7362736--7364345	420	3.8	418	79	7	1246	29	20	19	30	1.97
7362742--7364151	625	2.2	624	77	6	1405	29	20	19	30	1.97
7364535--7365074	205	2.6	210	79	7	553	28	20	19	31	1.97
7367036--7367135	41	2.4	42	88	3	141	28	19	19	34	1.95
7372423--7372804	191	2.0	191	99	0	755	23	34	17	24	1.96
7373706--7373742	8	4.8	8	87	12	51	21	0	0	78	0.75
7373707--7373742	11	3.2	11	88	7	54	22	0	0	77	0.76
7373702--7373943	41	5.8	39	67	21	102	20	5	2	70	1.21
7373725--7373957	40	6.2	37	73	17	162	19	6	3	70	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7373764--7373816	25	2.2	24	89	3	79	26	1	0	71	0.96
7376922--7376992	16	4.7	15	73	15	65	78	4	15	1	0.97
7376922--7377014	36	2.6	35	81	6	98	77	5	15	2	1.04
7376922--7377025	36	2.9	36	81	8	97	75	4	17	2	1.11
7378677--7379517	106	7.9	106	94	0	1414	33	26	19	21	1.97
7379870--7380251	191	2.0	191	100	0	764	23	34	17	24	1.96
7381152--7381188	8	4.8	8	87	12	51	21	0	0	78	0.75
7381153--7381188	11	3.2	11	88	7	54	22	0	0	77	0.76
7381134--7381401	40	6.5	40	67	26	129	19	6	3	70	1.25
7381171--7381401	39	6.2	35	74	18	157	19	6	3	70	1.24
7381213--7381269	30	1.9	30	88	0	87	26	3	0	70	1.03
7381167--7381401	40	6.2	38	74	18	179	19	6	3	70	1.23
7381292--7381344	5	10.8	5	80	8	56	16	5	1	75	1.08
7407012--7407050	2	19.5	2	100	0	78	48	0	0	51	1.00
7409132--7409164	13	2.4	14	90	5	50	18	3	36	42	1.66
7417744--7417772	13	2.2	13	100	0	58	44	0	0	55	0.99
7417743--7417863	9	11.7	10	73	19	58	41	2	0	55	1.19
7417786--7417862	3	24.7	3	82	10	75	38	1	1	58	1.15
7417827--7417870	13	3.2	13	84	15	54	47	0	0	52	1.00
7426233--7426314	42	2.0	42	87	0	119	23	17	21	37	1.93
7426530--7426593	3	21.0	3	73	20	53	37	1	1	59	1.16
7426606--7426646	2	20.5	2	100	0	82	48	0	0	51	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7426531--7426673	16	10.4	13	75	18	89	43	1	1	53	1.18
7426530--7426673	20	8.2	17	72	16	73	43	1	1	54	1.17
7429277--7429330	20	2.7	19	78	18	56	38	22	9	29	1.85
7429856--7429919	33	1.9	33	84	6	85	32	17	25	25	1.96
7430984--7431085	23	4.4	23	77	4	98	20	22	23	33	1.97
7433851--7433895	18	2.5	18	81	0	54	22	26	13	37	1.91
7441578--7441635	14	4.1	14	88	0	89	20	18	8	51	1.72
7446058--7446105	20	2.5	20	82	3	62	25	29	16	29	1.97
7448843--7449057	103	2.1	103	91	1	342	38	14	25	21	1.91
7463646--7463906	135	1.9	135	89	0	405	27	13	18	40	1.88
7465657--7465701	23	2.0	23	81	0	54	2	20	22	55	1.54
7466144--7466177	3	11.3	3	100	0	68	64	0	0	35	0.94
7466392--7467106	45	15.8	45	84	4	725	30	18	21	28	1.97
7466392--7467106	90	7.9	90	83	3	828	30	18	21	28	1.97
7466392--7467106	135	5.3	135	82	3	810	30	18	21	28	1.97
7467764--7467816	20	2.5	21	87	9	81	33	11	15	39	1.83
7467777--7467818	20	2.1	20	100	0	84	35	9	16	38	1.81
7468185--7468346	54	3.0	54	93	0	261	24	26	14	34	1.94
7473540--7473583	21	2.1	21	86	0	61	56	6	15	20	1.62
7477930--7477995	3	22.0	3	77	0	69	66	0	4	28	1.11
7485121--7485179	23	2.5	22	83	8	73	45	5	1	47	1.34
7485199--7485237	20	2.0	20	90	10	62	43	0	5	51	1.24
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7485397--7485449	27	2.0	25	89	7	79	54	0	3	41	1.18
7489390--7489437	7	6.9	7	97	0	87	25	31	0	43	1.55
7494848--7494955	30	3.6	30	78	9	96	61	25	9	3	1.43
7495231--7495276	22	2.1	22	95	0	83	32	15	4	47	1.65
7495276--7495351	28	2.7	27	82	13	100	36	6	17	39	1.75
7497210--7497369	75	2.1	75	92	0	266	38	13	21	26	1.91
7498465--7498514	22	2.2	22	82	3	55	44	8	20	28	1.79
7498546--7498595	22	2.2	22	82	3	55	44	8	18	30	1.78
7497783--7498658	81	10.9	81	82	5	1010	37	13	20	28	1.90
7504298--7504466	84	2.0	84	97	0	320	28	2	20	47	1.64
7505314--7506149	81	10.3	80	85	1	956	37	12	20	29	1.89
7515869--7515895	14	1.9	14	100	0	54	33	7	22	37	1.82
7517277--7517349	22	3.3	22	100	0	146	35	13	19	31	1.91
7530757--7530783	11	2.5	11	100	0	54	85	0	14	0	0.61
7530729--7530809	19	4.4	19	75	17	55	77	2	13	6	1.05
7531327--7531376	24	2.0	25	88	3	75	40	20	0	40	1.52
7531335--7531416	42	1.9	43	90	7	132	39	18	0	42	1.50
7533947--7534012	6	11.0	6	96	0	123	66	1	16	15	1.32
7533929--7534004	18	4.0	20	87	6	70	68	2	15	13	1.32
7534556--7534581	2	13.0	2	100	0	52	50	0	0	50	1.00
7536317--7536345	15	1.9	15	100	0	58	34	3	0	62	1.12
7538854--7539120	54	4.9	54	89	0	408	32	21	17	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7539624--7539677	21	2.6	21	100	0	108	24	25	16	33	1.96
7543231--7543262	15	2.1	15	100	0	64	34	25	21	18	1.96
7545808--7546028	54	4.1	54	85	1	291	31	17	19	31	1.95
7547423--7547478	26	2.2	26	100	0	112	33	33	3	28	1.75
7547978--7548045	5	13.2	5	80	9	57	76	1	19	2	0.99
7548605--7548652	25	2.0	24	83	4	60	29	14	4	52	1.60
7549144--7549546	201	2.0	201	99	0	788	42	17	10	30	1.83
7552380--7552410	2	15.5	2	100	0	62	48	0	0	51	1.00
7552679--7552715	20	2.0	20	84	10	51	43	0	2	54	1.14
7554968--7555006	3	13.7	3	84	10	55	33	0	2	64	1.08
7554968--7555006	11	3.5	11	89	3	60	33	0	2	64	1.08
7562807--7562951	39	3.7	39	77	1	112	31	24	23	20	1.98
7562807--7562978	78	2.2	78	81	2	193	30	23	24	21	1.99
7563797--7563858	30	2.1	30	90	0	97	40	12	4	41	1.65
7574017--7574593	4	144.2	4	100	0	1154	24	0	24	50	1.50
7580291--7580360	30	2.3	31	85	2	88	20	37	14	28	1.91
7581029--7581090	31	2.0	31	84	9	81	29	19	8	43	1.79
7581075--7581258	73	2.5	71	93	4	314	21	15	17	45	1.85
7581225--7581287	28	2.2	28	85	2	90	19	17	19	44	1.87
7581773--7581832	24	2.7	24	82	14	67	40	0	0	60	0.97
7581773--7581833	23	2.8	22	81	16	65	40	0	0	59	0.98
7581801--7581861	28	2.2	26	81	16	70	36	1	1	60	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7582906--7582948	20	2.3	18	84	8	50	37	0	2	60	1.10
7583886--7583934	22	2.2	22	100	0	98	42	16	16	24	1.87
7586688--7588039	216	6.3	215	78	8	1165	30	19	20	28	1.97
7586688--7588039	432	3.2	423	79	6	1356	30	19	20	28	1.97
7588406--7588436	16	1.9	16	100	0	62	41	0	0	58	0.98
7597113--7597153	17	2.4	17	100	0	82	65	0	29	4	1.13
7614673--7614730	27	2.1	28	83	3	73	15	6	0	77	0.97
7618746--7618948	101	2.0	101	92	0	334	29	26	18	25	1.98
7627452--7627476	13	1.9	13	100	0	50	40	16	20	24	1.91
7630479--7630531	2	26.5	2	100	0	106	50	0	0	49	1.00

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