genome.fa.s9175.2.7.7.80.10.50.1000.34.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: VEPZ01009175.1 Hibiscus syriacus cultivar Beakdansim tig00112738_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10629029

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  34  of  51  ( 6037 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)
6850927--6850988	26	2.4	25	71	10	61	46	3	11	38	1.56
6853280--6853311	12	2.5	13	90	10	57	40	6	9	43	1.62
6855119--6855160	20	2.2	19	83	12	50	69	11	0	19	1.19
6859880--6859919	18	2.2	18	86	0	53	0	32	5	62	1.17
6860649--6860791	71	2.0	72	90	4	227	32	9	28	29	1.89
6862021--6862061	20	2.0	20	86	9	57	41	24	14	19	1.89
6870329--6870377	24	2.0	24	84	7	64	67	4	4	24	1.26
6873892--6873929	18	2.1	18	95	0	67	36	5	15	42	1.70
6874875--6874946	17	4.2	17	82	3	81	40	8	13	37	1.75
6879766--6879862	31	3.1	30	75	8	97	45	2	17	35	1.60
6880789--6880853	24	2.7	24	83	4	78	66	10	3	20	1.36
6881596--6881642	22	2.1	22	96	0	85	36	2	12	48	1.53
6881601--6881648	22	2.2	22	88	0	69	35	2	12	50	1.52
6884997--6885086	31	2.8	31	89	6	126	66	13	2	17	1.34
6886214--6886359	64	2.2	66	87	4	208	26	20	23	29	1.99
6887017--6887046	14	2.1	15	93	6	53	63	26	3	6	1.35
6888971--6889029	23	2.7	23	78	5	68	20	23	25	30	1.98
6892498--6892535	13	2.9	14	88	7	53	47	28	23	0	1.52
6898647--6898673	2	13.5	2	100	0	54	48	0	0	51	1.00
6898953--6899004	24	2.0	27	89	10	83	67	7	17	7	1.39
6898984--6899078	19	5.2	19	73	24	87	78	1	18	1	0.86
6899011--6899077	6	10.8	6	78	12	73	80	1	16	1	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6898995--6899076	12	7.3	12	74	19	63	79	1	18	1	0.87
6903505--6903710	54	3.9	54	83	6	253	37	15	22	24	1.92
6904077--6904131	22	2.5	22	93	0	101	34	10	14	40	1.81
6904775--6904875	40	2.5	40	98	0	193	45	9	25	18	1.80
6904662--6904988	153	2.1	153	95	0	582	39	13	21	25	1.89
6904815--6905619	123	6.7	119	84	8	757	38	16	19	25	1.92
6904929--6905644	123	5.9	123	88	3	1017	39	17	19	24	1.92
6906121--6906161	13	3.1	14	86	10	59	46	29	24	0	1.53
6907374--6907428	22	2.6	22	72	16	55	47	1	3	47	1.30
6908615--6908835	117	1.9	117	82	5	277	27	14	9	48	1.74
6910037--6910196	65	2.5	65	83	5	191	27	18	23	31	1.97
6912257--6912320	30	2.2	29	83	8	76	26	4	29	39	1.76
6913080--6913124	18	2.4	19	82	14	58	75	0	0	24	0.80
6913793--6913850	28	2.0	28	80	9	64	8	27	6	56	1.55
6914639--6915164	146	3.7	143	81	4	535	20	24	21	33	1.97
6924089--6924153	24	2.7	24	85	4	87	67	10	3	18	1.33
6925233--6925278	21	2.1	22	88	4	67	52	4	2	41	1.33
6925233--6925292	22	2.7	22	84	5	68	50	8	1	40	1.43
6925299--6925360	30	2.1	29	90	3	97	46	8	0	45	1.32
6925377--6925458	28	2.8	29	79	13	89	43	7	2	46	1.44
6926197--6926261	17	3.8	16	79	16	67	49	1	7	41	1.41
6926281--6926316	16	2.2	16	90	0	54	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6926256--6926391	66	2.0	68	82	7	168	44	2	9	43	1.52
6928452--6928490	13	2.7	15	76	15	55	79	0	0	20	0.73
6928452--6928490	18	2.1	19	86	13	55	79	0	0	20	0.73
6929933--6929962	5	6.0	5	92	0	51	23	0	76	0	0.78
6930111--6930147	19	1.9	19	100	0	74	37	0	18	43	1.51
6939520--6939597	23	3.6	21	76	19	79	23	25	25	25	2.00
6950843--6950992	34	4.6	32	71	20	107	46	6	4	43	1.48
6953852--6953956	33	3.2	33	77	13	108	46	8	5	39	1.58
6954242--6954289	17	2.8	17	83	0	60	64	4	10	20	1.41
6958749--6958817	36	1.9	35	91	2	111	40	5	21	31	1.77
6958782--6958827	15	3.1	15	81	6	67	41	8	19	30	1.82
6958985--6959083	49	2.0	50	80	9	114	47	2	0	50	1.12
6959062--6959130	32	2.3	30	82	12	79	44	0	4	50	1.21
6959172--6959234	23	2.7	23	80	5	63	46	1	1	50	1.20
6959210--6959262	20	2.7	20	75	16	56	49	1	0	49	1.12
6959219--6959283	28	2.3	27	82	15	78	50	1	0	47	1.10
6959219--6959316	31	3.2	32	76	15	84	51	2	0	46	1.12
6959336--6959379	22	2.0	23	86	4	63	54	0	0	45	0.99
6959376--6959400	4	6.2	4	100	0	50	76	0	0	24	0.80
6959513--6959629	43	2.8	42	93	2	207	46	18	19	15	1.84
6963607--6963641	17	2.1	17	100	0	70	31	5	22	40	1.78
6968161--6968186	10	2.6	10	100	0	52	69	0	23	7	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6969490--6969537	17	2.8	17	83	0	60	64	4	12	18	1.43
6976034--6976238	68	3.0	68	96	0	383	42	9	20	27	1.82
6978833--6978858	12	2.2	12	100	0	52	46	15	7	30	1.74
6981617--6981695	35	2.2	36	88	4	124	30	26	21	21	1.98
6981980--6982024	17	2.6	17	82	6	56	64	2	15	17	1.39
6990209--6990312	33	3.1	33	82	9	95	30	36	1	30	1.69
6990721--6990767	14	3.1	15	75	12	51	72	6	19	2	1.17
6994241--6994344	33	3.1	33	82	9	95	30	36	1	30	1.69
6999686--6999742	29	1.9	30	82	3	71	78	0	14	7	0.94
7000962--7001273	114	2.7	114	83	3	353	43	14	15	26	1.85
7000943--7001323	114	3.4	113	78	8	267	43	15	15	26	1.86
7001987--7002015	14	2.1	14	100	0	58	44	27	0	27	1.54
7004320--7004379	25	2.4	25	94	2	104	18	13	6	61	1.53
7013707--7013753	19	2.5	19	92	0	76	27	23	23	25	2.00
7018459--7018514	24	2.4	24	85	8	71	48	21	21	8	1.77
7020624--7020652	11	2.6	11	100	0	58	27	0	10	62	1.28
7023029--7023076	21	2.3	21	96	0	87	27	31	22	18	1.97
7026637--7026880	46	5.4	45	82	4	310	24	19	7	48	1.75
7026637--7026880	91	2.7	90	86	4	337	24	19	7	48	1.75
7026908--7027061	81	1.9	81	87	0	227	31	21	12	35	1.90
7026994--7027468	68	7.0	68	90	0	700	29	25	14	30	1.95
7027676--7027893	57	3.8	57	90	0	339	39	19	8	32	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7036468--7036556	33	2.7	32	91	3	142	44	21	5	28	1.74
7036468--7036556	32	2.7	33	91	3	144	44	21	5	28	1.74
7047561--7047595	12	2.8	12	91	4	52	37	11	5	45	1.64
7047629--7047662	13	2.6	13	100	0	68	32	11	23	32	1.91
7049305--7049338	12	2.7	13	86	9	52	44	8	5	41	1.60
7051468--7051528	17	3.6	17	100	0	122	47	11	0	40	1.40
7054690--7054775	24	3.4	25	86	10	122	30	17	16	36	1.92
7054760--7054794	17	2.1	17	100	0	70	42	11	11	34	1.77
7054736--7054833	40	2.4	40	86	5	126	36	14	12	36	1.83
7055635--7055661	6	4.5	6	100	0	54	14	0	0	85	0.61
7059288--7059320	10	3.7	9	88	11	50	48	0	0	51	1.00
7059948--7059999	14	3.6	14	81	5	59	28	1	1	67	1.12
7060783--7060830	23	2.1	23	92	0	78	43	0	0	56	0.99
7066802--7066930	67	1.9	69	84	7	174	38	13	6	40	1.72
7071110--7071154	23	2.0	23	82	8	56	51	0	0	48	1.00
7071337--7071631	116	2.5	116	88	2	414	25	18	20	36	1.95
7071335--7071891	36	15.0	36	73	11	351	22	19	22	35	1.95
7071590--7071893	108	2.8	107	86	5	416	21	19	24	35	1.96
7072717--7072751	17	2.1	18	89	10	56	22	28	0	48	1.51
7073864--7073919	2	28.0	2	100	0	112	50	0	0	50	1.00
7078199--7078336	55	2.5	55	85	2	188	22	23	11	42	1.86
7079609--7079648	19	2.2	19	86	8	57	57	2	0	40	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7093570--7093603	14	2.4	14	85	5	50	82	2	11	2	0.89
7097116--7097154	17	2.3	17	100	0	78	43	10	20	25	1.83
7103477--7103514	19	2.0	19	85	10	51	39	28	0	31	1.57
7108422--7108661	59	4.1	59	89	4	376	31	22	16	29	1.96
7109911--7110440	293	1.8	291	85	5	746	37	22	4	36	1.73
7110934--7111684	391	1.9	391	91	1	1245	40	15	10	33	1.81
7115839--7116135	116	2.6	116	91	1	472	41	17	17	23	1.90
7116069--7116164	39	2.5	39	91	0	156	54	10	15	19	1.70
7116086--7116147	21	3.1	21	68	20	60	56	12	12	17	1.67
7117913--7118005	47	2.0	47	89	2	143	29	23	2	45	1.65

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