genome.fa.s9585.2.7.7.80.10.50.1000.31.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: VEPZ01009585.1 Hibiscus syriacus cultivar Beakdansim tig00116962_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8285662

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   

This is table  31  of  35  ( 4106 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)
7211636--7211709	22	3.4	22	75	15	73	56	0	1	41	1.07
7211636--7211709	23	3.3	23	78	12	84	56	0	1	41	1.07
7211638--7211705	29	2.4	29	76	21	74	57	0	1	41	1.08
7212754--7212791	20	1.9	20	100	0	76	36	10	28	23	1.88
7212986--7213029	2	22.0	2	95	0	79	47	0	0	52	1.00
7217693--7217729	16	2.3	16	90	0	56	13	21	13	51	1.75
7218979--7219077	33	3.0	33	94	1	164	45	15	7	32	1.73
7219072--7219113	21	2.0	21	95	0	75	47	7	14	30	1.71
7220425--7220595	85	2.0	86	94	5	303	39	13	10	36	1.79
7221334--7221370	18	2.1	18	100	0	74	35	32	0	32	1.58
7226741--7227183	223	2.0	224	92	4	741	45	8	7	39	1.62
7227248--7227293	20	2.3	19	89	10	74	54	10	17	17	1.70
7227416--7227462	20	2.4	19	89	10	76	55	10	17	17	1.69
7227420--7227467	20	2.6	18	84	15	62	56	10	14	18	1.66
7229672--7229736	21	3.1	21	80	6	69	40	15	29	15	1.88
7231590--7231638	19	2.6	19	93	0	80	30	2	10	57	1.43
7231754--7233706	199	9.9	199	95	3	3520	37	15	15	32	1.89
7231754--7233706	395	4.9	397	95	3	3491	37	15	15	32	1.89
7235166--7235252	3	29.0	3	75	0	75	36	5	33	24	1.79
7236715--7237426	184	3.9	184	97	0	1307	35	14	16	33	1.89
7239087--7239150	23	2.8	23	87	0	92	35	6	20	37	1.78
7239087--7239159	23	3.2	23	82	7	85	34	5	20	39	1.76
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7239423--7239473	25	2.0	25	92	0	84	33	7	19	39	1.81
7239767--7239803	18	2.1	18	89	0	56	32	5	10	51	1.60
7239758--7239808	24	2.1	23	82	13	66	33	3	13	49	1.61
7240487--7240550	23	2.8	23	87	0	92	35	6	20	37	1.78
7240487--7240559	23	3.2	23	82	7	85	34	5	20	39	1.76
7252736--7252889	62	2.5	60	85	5	202	34	7	13	44	1.73
7253120--7253233	59	1.9	59	82	7	142	38	15	12	33	1.85
7253387--7253437	27	1.9	26	88	4	75	31	5	11	50	1.62
7253855--7253920	31	2.1	31	85	0	87	37	13	25	22	1.91
7278803--7278840	5	7.6	5	100	0	76	21	36	21	21	1.95
7280107--7280140	3	11.3	3	100	0	68	67	0	32	0	0.91
7281238--7281456	109	2.0	109	100	0	438	27	11	26	34	1.91
7281624--7281661	18	2.1	19	85	5	51	44	0	7	47	1.32
7284174--7284579	201	2.0	204	96	3	748	38	13	19	28	1.90
7285449--7285591	31	4.6	31	95	0	250	40	23	17	18	1.91
7286083--7286267	92	2.0	94	97	2	356	28	17	14	39	1.89
7286396--7286539	64	2.2	64	81	7	168	27	18	20	32	1.96
7286591--7286646	21	2.7	21	100	0	112	26	21	23	28	1.99
7290462--7290602	64	2.2	64	83	7	180	26	20	19	32	1.97
7291710--7291764	27	2.0	27	100	0	110	30	7	29	32	1.84
7292954--7292996	8	5.5	8	88	5	70	37	0	27	34	1.57
7292954--7292996	15	2.8	16	85	7	70	37	0	27	34	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7293075--7293809	128	5.7	128	93	0	1274	21	24	20	33	1.97
7294174--7294280	34	3.2	33	81	6	133	37	2	4	55	1.36
7294808--7294873	21	3.2	20	91	4	87	19	25	36	18	1.94
7297682--7298701	366	2.8	365	88	1	1452	28	17	15	38	1.90
7300423--7300448	13	2.0	13	100	0	52	46	0	0	53	1.00
7301992--7302022	2	15.5	2	100	0	62	48	0	0	51	1.00
7322749--7322800	23	2.3	23	93	3	88	34	7	15	42	1.75
7327136--7327176	21	2.0	21	100	0	82	53	2	0	43	1.13
7327240--7327282	23	2.0	21	86	9	59	48	4	0	46	1.22
7327927--7327971	19	2.2	20	84	7	56	64	4	0	31	1.13
7329779--7329971	101	1.9	101	86	0	278	38	11	20	29	1.87
7336602--7336702	39	2.6	38	81	9	98	24	20	18	35	1.95
7339262--7339303	6	6.8	6	94	2	66	28	33	0	38	1.58
7346075--7346119	21	2.1	21	87	0	63	31	28	24	15	1.96
7346760--7346794	18	1.9	18	88	11	54	54	5	17	22	1.64
7346921--7346962	2	21.0	2	100	0	84	50	0	0	50	1.00
7347707--7348010	149	2.0	149	99	0	599	27	17	20	34	1.95
7347989--7348033	23	2.0	23	86	0	63	20	24	28	26	1.99
7358602--7358675	6	12.0	6	72	13	53	63	5	1	29	1.25
7358594--7358681	20	4.6	20	72	15	78	63	4	1	30	1.21
7359730--7359787	3	18.3	3	86	10	64	68	0	1	29	0.99
7359730--7359787	16	3.6	16	86	9	75	68	0	1	29	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7362033--7362084	21	2.5	21	76	17	54	50	9	5	34	1.59
7364800--7364845	21	2.2	21	84	0	56	8	50	10	30	1.68
7372284--7372314	2	15.5	2	100	0	62	48	0	0	51	1.00
7372396--7372429	16	2.2	16	89	5	52	50	5	5	38	1.51
7372555--7372610	24	2.3	24	84	0	85	33	7	12	46	1.69
7372965--7373016	12	4.4	12	77	18	56	32	0	1	65	1.04
7373030--7373112	19	4.2	19	67	11	60	39	1	1	57	1.14
7372978--7373130	61	2.5	61	85	10	201	39	0	1	58	1.14
7373088--7373144	24	2.4	24	79	5	62	40	3	1	54	1.28
7373135--7373201	18	3.6	18	80	12	55	35	0	2	61	1.12
7373640--7373699	31	1.9	31	90	6	95	43	8	6	41	1.61
7376612--7376684	37	2.0	37	94	0	128	21	20	36	20	1.95
7376674--7376700	13	2.1	13	100	0	54	22	18	37	22	1.95
7377216--7377276	21	2.9	21	78	9	63	37	0	9	52	1.35
7377767--7377811	24	1.9	23	81	4	54	40	0	8	51	1.33
7381001--7381027	10	2.7	10	100	0	54	40	0	18	40	1.51
7380956--7381098	28	5.0	30	65	22	101	41	0	13	44	1.44
7380952--7381753	60	14.2	60	84	11	1010	40	0	13	45	1.47
7380952--7381753	110	7.1	112	79	12	823	40	0	13	45	1.47
7381432--7381753	119	2.7	119	90	3	484	39	0	13	45	1.50
7383859--7383892	15	2.2	16	94	5	61	55	5	0	38	1.24
7383944--7384014	30	2.4	30	86	6	92	46	14	0	39	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7384156--7384183	14	2.0	14	100	0	56	42	42	0	14	1.45
7384352--7384403	27	1.9	27	100	0	104	44	21	15	19	1.87
7384582--7384664	29	2.9	29	92	0	130	16	26	39	16	1.90
7384720--7384746	12	2.2	12	100	0	54	22	33	33	11	1.89
7392848--7393061	107	2.0	107	100	0	428	29	14	18	36	1.91
7399841--7399919	31	2.5	31	85	4	106	25	16	12	45	1.82
7400381--7400420	15	2.7	15	88	3	55	32	0	2	65	1.06
7400851--7400892	21	2.0	22	90	4	68	16	4	9	69	1.33
7402041--7402212	63	2.8	62	86	4	231	37	18	25	19	1.94
7402041--7402214	20	8.4	20	82	5	177	36	18	25	18	1.94
7402302--7402344	6	7.5	6	97	2	72	30	53	16	0	1.43
7403026--7403062	12	3.5	11	85	14	51	0	18	54	27	1.44
7403040--7403066	6	4.5	6	100	0	54	0	14	51	33	1.43
7403154--7403447	20	14.4	20	88	3	300	19	25	18	36	1.95
7403156--7403447	60	4.8	60	85	3	350	19	25	18	36	1.94
7403437--7403489	21	2.5	21	100	0	106	16	24	33	24	1.96
7403482--7403535	20	2.7	20	94	0	90	11	18	18	51	1.74
7403522--7403572	19	2.6	20	90	3	77	15	17	23	43	1.88
7408479--7408564	42	2.0	42	97	0	163	20	10	39	29	1.86
7410815--7411356	271	2.0	271	100	0	1084	28	16	23	31	1.96
7432719--7432771	21	2.5	21	84	0	70	20	26	18	33	1.96
7432761--7432894	20	6.7	20	87	1	205	38	20	20	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7433095--7433159	22	3.0	22	83	0	85	26	40	13	20	1.89
7433529--7433576	20	2.4	20	89	0	69	18	16	25	39	1.91
7433548--7433598	20	2.5	20	87	0	66	13	15	19	50	1.77
7435440--7435491	20	2.6	20	90	0	86	38	23	19	19	1.93
7435530--7435572	20	2.2	20	91	0	68	34	20	18	25	1.96
7435443--7435608	87	1.9	87	89	0	260	44	20	18	16	1.87
7435623--7435689	20	3.3	20	87	0	89	23	19	19	37	1.94
7437722--7437757	14	2.6	14	90	0	54	30	0	22	47	1.52
7437901--7437949	20	2.5	18	81	18	62	18	20	24	36	1.94
7437937--7437963	14	1.9	14	100	0	54	7	22	29	40	1.81

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