genome.fa.s1465.2.7.7.80.10.50.1000.41.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: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

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   

This is table  41  of  55  ( 6520 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)
8214984--8215062	22	3.8	20	81	17	90	26	32	17	22	1.96
8218058--8218100	21	2.0	21	90	0	68	48	4	23	23	1.69
8229997--8230041	23	2.0	23	81	0	54	24	15	17	42	1.88
8230021--8230092	23	3.0	22	80	11	65	30	9	13	45	1.76
8230036--8230092	23	2.4	24	85	5	80	31	7	12	49	1.67
8230786--8230811	13	2.0	13	100	0	52	53	7	7	30	1.57
8232461--8232536	36	2.1	36	85	7	100	47	1	3	47	1.29
8232684--8232721	20	1.9	20	88	0	58	26	26	5	42	1.76
8234174--8234244	30	2.3	31	78	4	81	42	9	11	36	1.74
8235736--8235794	29	2.0	29	100	0	118	49	13	13	23	1.78
8240421--8240479	29	2.0	29	100	0	118	49	13	13	23	1.78
8243563--8243605	22	2.0	22	81	9	52	48	6	9	34	1.62
8257472--8257519	20	2.5	19	82	3	51	35	20	8	35	1.83
8258719--8258748	2	15.0	2	92	0	51	53	0	0	46	1.00
8260812--8260853	14	3.1	13	86	10	57	23	0	2	73	0.94
8261191--8261338	78	1.9	78	81	4	181	35	23	10	30	1.89
8261710--8261779	20	3.5	20	81	11	97	30	10	28	31	1.89
8261646--8261878	99	2.4	99	84	5	285	30	11	24	34	1.90
8261850--8261919	20	3.5	20	84	1	79	22	10	30	37	1.87
8262093--8262127	16	2.1	16	89	10	52	54	2	0	42	1.15
8263879--8263922	24	1.9	24	86	9	65	40	0	6	52	1.28
8264052--8264163	29	3.9	28	74	13	86	53	0	2	43	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8264053--8264147	26	3.5	26	73	18	79	52	0	3	44	1.17
8264125--8264173	21	2.3	20	83	13	62	55	0	0	44	0.99
8264129--8264191	23	2.6	26	74	25	66	50	0	0	49	1.00
8264109--8264182	22	3.5	22	77	18	70	54	0	0	45	1.00
8264420--8264457	6	6.3	6	100	0	76	15	0	50	34	1.45
8270712--8270743	14	2.3	14	94	0	55	56	3	0	40	1.15
8275571--8275608	20	2.0	20	90	10	62	47	10	21	21	1.80
8275723--8275770	18	2.7	18	80	9	62	41	0	4	54	1.20
8279924--8279963	20	2.0	20	100	0	80	0	15	5	80	0.88
8289987--8290481	229	2.2	228	95	1	895	44	7	8	39	1.62
8290605--8290944	161	2.1	162	87	1	486	39	14	17	28	1.89
8291112--8291166	24	2.3	24	84	6	67	52	12	7	27	1.65
8293189--8293253	21	3.1	21	93	0	103	41	10	30	16	1.83
8293287--8293352	33	2.0	33	90	0	105	28	0	48	22	1.51
8295143--8295191	19	2.6	19	96	0	89	32	2	10	55	1.45
8295284--8296168	200	4.4	200	98	0	1680	37	14	17	29	1.90
8296736--8296800	25	2.6	25	97	0	121	40	10	12	36	1.78
8297148--8297220	23	3.2	23	88	0	110	34	5	20	39	1.76
8297581--8297653	23	3.2	23	88	0	101	34	4	21	39	1.73
8298012--8298084	23	3.2	23	92	0	119	34	5	21	38	1.77
8296941--8298250	433	3.0	431	97	0	2462	40	7	12	40	1.70
8304702--8304766	30	2.2	30	85	0	85	29	16	15	38	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8304830--8305064	35	6.7	35	83	4	285	26	27	22	23	1.99
8304963--8305053	18	5.2	18	68	15	73	24	25	26	24	2.00
8304835--8305038	104	1.9	105	88	4	304	27	27	22	22	1.99
8304835--8305038	17	11.6	17	69	13	117	27	27	22	22	1.99
8306693--8306736	14	3.2	13	87	6	52	36	4	11	47	1.60
8306699--8306739	14	3.0	14	89	3	57	31	9	9	48	1.69
8306707--8306833	66	1.9	66	92	7	213	27	22	5	44	1.75
8317091--8317164	30	2.5	30	82	10	91	32	14	9	43	1.78
8317825--8317872	6	7.8	6	86	4	60	4	18	0	77	0.93
8317840--8317881	12	3.4	13	90	9	61	7	14	2	76	1.10
8321499--8321541	21	2.0	21	81	0	50	27	27	25	18	1.98
8322196--8322257	23	2.7	23	84	0	70	22	25	24	27	2.00
8322218--8322262	23	2.0	23	86	0	63	20	24	26	28	1.99
8324834--8324883	24	2.2	21	79	10	55	44	8	24	24	1.80
8328296--8328338	21	2.0	21	81	0	50	27	27	25	18	1.98
8328986--8329031	23	2.0	23	82	0	56	23	21	23	30	1.99
8330583--8330647	30	2.2	30	85	0	85	30	16	15	36	1.90
8330711--8330841	35	3.7	35	89	5	183	24	29	21	25	1.99
8330771--8330830	18	3.4	18	66	13	52	23	28	23	25	2.00
8332984--8333058	30	2.5	30	79	12	82	30	21	9	38	1.85
8339065--8339167	35	2.9	37	88	7	167	31	3	19	45	1.68
8339577--8339610	16	2.1	17	88	5	52	38	5	20	35	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8343677--8343737	21	3.2	21	65	29	64	31	4	21	42	1.74
8343669--8343777	35	3.0	36	93	5	184	29	5	20	44	1.73
8349163--8349205	19	2.4	19	84	7	54	23	27	20	27	1.99
8356536--8356579	21	2.1	21	82	0	52	9	43	15	31	1.79
8357620--8357778	65	2.5	64	85	6	198	31	23	18	26	1.97
8361326--8361383	27	2.3	24	88	8	80	29	15	15	39	1.88
8368873--8368939	30	2.2	32	82	12	81	62	1	2	32	1.19
8368907--8368970	20	3.2	19	68	20	58	56	0	1	42	1.09
8368903--8368981	24	3.6	23	73	25	80	58	1	2	37	1.20
8368922--8368994	21	3.5	21	78	12	87	54	1	2	41	1.23
8368909--8368988	41	2.0	41	97	0	151	55	1	2	41	1.21
8369182--8369233	22	2.4	22	81	9	61	53	3	9	32	1.51
8370850--8370897	3	16.0	3	87	8	71	62	0	2	35	1.07
8371063--8371385	73	4.4	73	97	0	610	30	21	20	26	1.98
8371332--8371432	47	2.1	47	98	0	193	26	19	21	31	1.98
8371259--8371505	120	2.1	120	96	0	458	29	20	20	29	1.98
8371379--8371785	73	5.6	73	94	0	706	32	20	19	27	1.97
8371186--8371576	193	2.0	194	96	0	730	30	20	20	27	1.98
8371113--8371652	267	2.0	267	95	0	974	31	20	20	27	1.97
8371379--8371785	147	2.8	146	94	0	706	32	20	19	27	1.97
8371063--8371725	340	2.0	340	96	0	1218	31	21	20	26	1.97
8386467--8386523	23	2.5	24	78	13	59	28	31	19	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8386909--8386956	25	2.0	24	88	8	71	52	4	4	39	1.40
8391839--8391904	21	3.2	21	74	20	75	57	0	1	40	1.08
8391844--8391917	24	3.4	24	71	24	90	54	0	2	43	1.14
8391854--8391917	17	3.4	17	70	25	56	54	0	3	42	1.16
8391838--8391920	41	2.0	41	97	0	157	55	0	2	42	1.13
8391850--8391913	20	3.2	20	75	20	78	56	0	3	40	1.15
8391854--8391926	21	3.5	21	80	12	96	54	0	2	42	1.14
8392117--8392167	22	2.3	22	86	0	66	50	5	9	33	1.59
8393655--8393709	24	2.3	24	83	0	74	20	18	49	12	1.79
8393814--8393866	3	17.0	3	81	11	54	58	0	1	39	1.09
8393814--8393845	13	2.4	14	90	10	50	53	0	3	43	1.16
8393994--8394072	39	2.0	40	87	2	115	26	15	24	34	1.94
8394089--8394123	2	17.5	2	100	0	70	51	0	0	48	1.00
8394745--8394797	21	2.5	21	84	0	70	20	26	18	33	1.96
8394787--8394860	20	3.7	20	76	3	85	35	20	21	22	1.96
8394787--8394878	41	2.3	40	86	1	121	33	21	21	22	1.97
8395055--8395115	18	3.0	22	68	26	60	27	39	14	18	1.90
8395447--8395495	20	2.5	20	86	0	71	34	24	20	20	1.96
8395539--8395588	20	2.5	20	93	0	82	12	14	24	50	1.76
8395553--8395596	20	2.2	20	87	0	61	13	13	20	52	1.74
8397455--8397558	20	5.5	20	78	13	121	40	21	18	20	1.92
8397458--8397579	54	2.3	54	94	0	208	42	20	18	18	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
8397605--8397651	20	2.3	20	88	0	67	21	19	23	36	1.95
8397628--8397721	33	2.8	34	78	3	118	13	19	21	45	1.84
8398204--8398245	21	2.2	19	87	12	59	21	35	19	23	1.96
8398199--8398309	42	2.6	42	77	5	109	20	37	18	23	1.94
8399663--8399698	14	2.6	14	90	0	54	30	2	22	44	1.67
8399856--8399942	19	4.8	19	79	15	103	13	20	18	47	1.83
8399856--8399975	52	2.3	54	89	2	190	12	21	20	45	1.83
8399895--8400036	20	7.5	19	76	15	107	16	21	21	40	1.91
8399949--8400025	40	1.9	41	89	2	120	19	19	22	38	1.93
8402469--8402522	24	2.2	24	90	0	81	40	20	16	22	1.91

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