genome.fa.s9605.2.7.7.80.10.50.1000.29.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: VEPZ01009605.1 Hibiscus syriacus cultivar Beakdansim tig00116989_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9158330

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  29  of  35  ( 4090 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)
7136992--7137057	13	5.5	11	74	22	62	33	34	3	28	1.73
7142686--7142710	13	1.9	13	100	0	50	8	0	8	84	0.79
7142782--7142862	40	2.0	40	97	0	153	25	32	17	24	1.97
7147485--7147597	36	3.2	36	92	1	174	32	36	3	27	1.74
7147485--7147583	13	8.3	11	71	23	67	31	36	3	29	1.73
7150358--7150403	15	2.9	15	81	18	58	8	30	0	60	1.26
7160497--7160538	5	9.0	5	80	15	54	0	19	0	80	0.70
7160497--7160538	9	4.6	9	85	11	50	0	19	0	80	0.70
7160497--7160538	14	3.0	14	86	6	59	0	19	0	80	0.70
7160526--7160581	24	2.3	24	90	0	85	8	14	14	62	1.54
7164992--7165432	219	2.0	219	100	0	882	30	21	14	32	1.94
7179443--7179498	12	4.6	12	73	18	53	0	19	3	76	0.93
7185831--7185910	35	2.2	37	88	4	119	32	37	2	27	1.70
7185864--7185910	11	4.1	11	80	20	60	36	36	2	25	1.68
7185864--7185910	24	2.0	24	84	15	64	36	36	2	25	1.68
7190321--7190400	35	2.2	37	88	4	119	32	37	2	27	1.70
7190354--7190400	11	4.1	11	80	20	60	36	36	2	25	1.68
7190354--7190400	24	2.0	24	84	15	64	36	36	2	25	1.68
7201782--7201867	45	1.9	45	88	4	129	30	36	2	31	1.70
7201995--7202066	32	2.3	31	79	15	76	18	26	0	55	1.42
7202024--7202080	25	2.3	25	96	0	105	21	22	0	56	1.43
7202257--7202300	6	7.2	6	82	12	54	79	2	18	0	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7202554--7203209	331	2.0	331	93	0	1116	35	16	21	26	1.95
7206755--7206797	15	2.6	17	89	7	63	53	0	27	18	1.45
7216495--7216537	15	2.8	16	80	16	54	32	6	4	55	1.47
7221001--7221043	15	2.8	16	80	16	54	32	6	4	55	1.47
7231549--7231601	24	2.3	23	83	3	70	71	7	20	0	1.10
7232667--7232776	35	3.1	35	85	2	123	31	4	36	27	1.77
7236375--7236415	21	2.0	21	85	9	57	0	19	2	78	0.87
7236808--7236917	35	3.1	35	84	2	141	33	3	35	27	1.74
7237251--7237289	20	2.1	18	86	13	53	38	5	10	46	1.60
7245093--7245134	22	1.9	22	85	9	59	26	0	4	69	1.08
7250369--7250418	24	2.1	23	82	10	57	74	6	6	14	1.21
7251939--7251997	2	31.5	2	77	13	63	54	1	0	44	1.10
7261326--7261370	22	2.2	20	84	15	56	68	6	8	15	1.36
7261421--7261453	13	2.5	13	90	9	50	75	3	0	21	0.93
7261660--7261705	2	23.5	2	91	4	76	52	2	0	45	1.13
7262884--7262923	22	1.9	22	90	10	66	52	5	5	37	1.45
7262897--7262958	2	33.5	2	73	15	53	53	1	1	43	1.20
7262897--7262958	11	5.6	12	72	16	53	53	1	1	43	1.20
7265617--7265766	7	21.4	7	69	0	84	42	33	3	20	1.69
7267176--7267251	11	6.6	11	76	8	80	26	19	26	27	1.99
7267185--7267261	23	3.3	23	83	3	109	31	19	24	24	1.98
7268128--7268178	26	2.0	26	85	7	70	37	3	1	56	1.29
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7268632--7268679	25	2.0	23	84	8	60	37	33	4	25	1.75
7274253--7274300	20	2.5	20	89	3	71	29	18	27	25	1.98
7275071--7275102	14	2.3	14	100	0	64	6	15	28	50	1.68
7275072--7275122	24	2.1	24	85	0	66	11	11	21	54	1.68
7275622--7275675	23	2.3	23	83	0	72	27	24	25	22	2.00
7275685--7275715	16	1.9	16	93	0	53	9	6	22	61	1.50
7275786--7275828	16	2.7	16	92	0	77	6	9	18	65	1.44
7279424--7279472	5	9.8	5	95	0	71	26	40	12	20	1.87
7281811--7281842	17	1.9	16	93	6	55	25	21	21	31	1.98
7282288--7282349	28	2.2	29	80	8	74	35	11	32	20	1.88
7283921--7283954	16	2.1	16	89	10	52	38	0	0	61	0.96
7283962--7284004	19	2.2	19	84	12	52	65	16	0	18	1.28
7304560--7304607	19	2.5	20	86	3	62	47	6	14	31	1.69
7306136--7306190	20	2.8	20	97	0	101	30	25	14	29	1.95
7310005--7310055	22	2.2	23	86	6	68	43	0	1	54	1.11
7314178--7314222	23	2.0	22	86	4	63	20	2	42	35	1.64
7314694--7314790	50	1.9	50	85	4	133	15	22	25	36	1.94
7320840--7320878	19	2.0	19	85	5	51	30	0	23	46	1.53
7321880--7321926	22	2.1	22	96	0	85	51	8	12	27	1.69
7336241--7336322	20	3.9	21	75	10	69	23	32	28	15	1.95
7338546--7338578	16	2.1	16	100	0	66	36	0	18	45	1.49
7342734--7342766	17	1.9	17	93	0	57	45	6	9	39	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7347631--7347667	19	1.9	19	100	0	74	10	5	0	83	0.79
7348966--7348998	17	1.9	17	93	0	57	45	6	9	39	1.61
7351536--7352079	54	10.1	54	87	0	730	31	16	19	33	1.94
7362408--7362456	19	2.5	20	93	3	82	32	10	8	48	1.66
7363111--7363164	24	2.3	24	84	9	67	62	14	11	11	1.53
7363154--7363204	19	2.9	17	76	23	52	76	3	17	1	1.03
7366284--7366334	20	2.6	20	87	3	77	33	9	7	49	1.65
7368763--7368856	47	2.0	47	87	0	134	29	27	22	20	1.98
7376763--7376788	13	2.0	13	100	0	52	38	7	15	38	1.76
7378335--7378367	13	2.5	13	90	9	50	0	24	3	72	0.98
7379505--7379552	19	2.5	19	96	0	87	14	29	20	35	1.93
7383780--7383860	21	3.8	21	76	9	74	17	24	33	24	1.96
7383802--7383862	20	2.9	20	82	7	68	18	26	31	24	1.97
7391751--7391780	13	2.2	14	94	5	53	6	13	0	80	0.91
7408115--7408162	25	1.9	25	86	0	69	47	14	4	33	1.63
7411537--7411666	61	2.1	61	95	2	235	45	20	7	26	1.78
7411572--7411677	31	3.5	31	65	7	90	49	16	5	28	1.69
7413852--7413926	33	2.2	32	79	11	78	22	12	13	52	1.73
7413971--7414152	101	1.8	101	82	11	239	28	9	9	51	1.67
7413970--7414179	101	2.1	100	80	13	236	28	9	9	52	1.64
7414920--7415047	63	2.0	64	93	6	224	37	13	16	32	1.87
7418614--7418711	29	3.4	29	77	9	85	22	19	16	41	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7418617--7418728	58	1.9	58	81	3	136	22	18	17	41	1.91
7418928--7419005	2	39.0	2	100	0	156	50	0	0	50	1.00
7425643--7425721	28	2.8	29	77	11	90	18	18	21	40	1.92
7425609--7425721	29	3.9	29	77	6	113	17	22	21	38	1.93
7426496--7426660	44	3.8	44	88	0	224	24	20	25	30	1.98
7426739--7426895	44	3.6	43	82	4	172	30	15	21	31	1.95
7426749--7426875	42	3.0	41	84	4	164	31	14	22	31	1.94
7427212--7427271	21	2.9	21	82	0	75	3	30	21	45	1.68
7436008--7436145	41	3.4	41	84	0	159	34	23	18	24	1.96
7436008--7436167	41	3.9	41	79	6	119	31	20	19	28	1.97
7437426--7437492	22	3.0	22	91	0	107	29	13	7	49	1.69
7437935--7438155	120	1.8	123	82	2	286	35	22	11	31	1.89
7438047--7438228	83	2.2	82	81	4	213	29	20	14	35	1.93
7438832--7438866	17	2.1	17	100	0	70	37	17	0	45	1.48
7442108--7442147	20	2.0	21	85	5	55	35	5	7	52	1.51
7449127--7449161	16	2.2	16	100	0	70	42	17	11	28	1.83
7452515--7452568	21	2.7	20	73	2	54	20	3	25	50	1.65
7454557--7454606	17	2.9	17	84	0	64	42	8	14	36	1.74
7463820--7464428	303	2.0	303	93	0	1031	41	5	18	35	1.73
7466276--7466395	45	2.7	44	83	8	118	38	5	24	31	1.79
7466310--7466398	45	2.0	45	93	0	151	37	5	24	32	1.79
7470424--7470478	21	2.6	21	76	0	65	14	7	25	52	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7472229--7472565	167	2.0	170	98	1	653	42	3	16	36	1.66
7484353--7484486	67	2.0	67	100	0	268	44	14	11	28	1.81
7487338--7487382	22	2.0	23	91	4	74	44	6	6	42	1.57
7496140--7496173	16	2.1	16	100	0	68	44	17	5	32	1.73
7501726--7501795	32	2.2	32	86	0	104	30	31	1	37	1.66
7504462--7504610	78	1.9	78	95	2	273	39	5	6	48	1.50
7505577--7505708	68	2.0	68	90	1	212	38	4	6	50	1.47
7509566--7509601	18	2.0	18	94	0	63	22	19	5	52	1.66
7511453--7511483	14	2.2	14	94	0	53	25	9	6	58	1.54
7511613--7511665	20	2.7	20	82	8	63	41	13	13	32	1.82

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