genome.fa.s9462.2.7.7.80.10.50.1000.42.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

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   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   

This is table  42  of  91  ( 10815 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)
9061226--9061389	23	6.7	23	66	23	84	52	1	0	46	1.08
9061200--9061524	63	5.1	63	96	1	589	54	1	0	44	1.09
9061455--9061518	24	2.5	24	87	10	83	54	1	0	43	1.09
9061201--9061519	26	12.5	27	73	18	156	54	1	0	43	1.09
9062446--9062479	13	2.6	13	90	0	50	35	17	8	38	1.81
9062667--9062698	16	2.0	16	100	0	64	56	25	0	18	1.42
9064989--9065046	23	2.8	21	84	12	75	18	25	34	20	1.96
9076575--9076605	10	3.1	10	100	0	62	22	9	0	67	1.19
9082979--9083027	21	2.3	21	82	0	53	38	28	6	26	1.80
9088096--9088174	34	2.2	34	84	8	95	46	2	3	46	1.34
9088124--9088394	18	15.3	18	67	19	76	49	3	4	43	1.38
9088137--9088236	28	3.4	31	78	9	95	50	1	2	47	1.19
9088090--9088233	47	3.2	47	74	14	124	47	1	2	48	1.25
9088165--9088392	2	114.0	2	72	13	130	49	3	4	43	1.38
9088710--9088789	37	2.2	37	88	0	115	42	7	10	40	1.67
9088882--9088943	2	30.5	2	75	15	56	45	3	3	48	1.34
9088894--9088943	11	4.6	11	78	12	50	46	4	2	48	1.32
9088965--9089031	21	3.1	21	79	10	64	41	4	7	46	1.52
9089042--9089092	15	3.3	15	71	15	50	41	3	3	50	1.39
9089071--9089163	36	2.6	36	85	0	141	40	4	8	46	1.54
9089168--9089207	15	2.6	15	88	4	53	42	0	5	52	1.23
9089333--9089394	6	11.3	6	76	20	57	46	0	1	51	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9089302--9089398	15	6.3	15	72	21	85	47	2	1	49	1.20
9089360--9089397	18	2.1	18	100	0	76	44	0	0	55	0.99
9089332--9089398	33	2.1	30	86	13	91	46	0	1	52	1.09
9089325--9089421	43	2.2	44	77	14	103	48	1	2	48	1.20
9089808--9089846	20	2.0	20	89	0	60	20	20	12	46	1.83
9089723--9089955	123	1.9	126	80	4	276	30	24	7	37	1.83
9090710--9090752	17	2.5	17	96	0	77	6	9	34	48	1.62
9091215--9091258	18	2.4	18	88	0	70	40	13	25	20	1.89
9095065--9095119	18	3.1	18	89	0	83	20	23	29	27	1.99
9096135--9096163	13	2.2	13	100	0	58	41	0	0	58	0.98
9097086--9097139	23	2.3	24	96	3	101	48	9	0	42	1.35
9097159--9097220	12	4.8	13	72	16	58	40	1	1	56	1.19
9097158--9097227	13	5.5	12	70	23	54	42	1	1	54	1.18
9097244--9097314	36	2.0	34	81	10	81	47	5	0	46	1.26
9100690--9100729	21	1.9	21	90	10	64	55	5	7	32	1.50
9106824--9106862	19	2.1	19	100	0	78	35	10	5	48	1.59
9110160--9110233	32	2.4	31	77	6	78	29	32	24	13	1.93
9111087--9111141	24	2.3	24	90	6	85	18	16	43	21	1.88
9111750--9111803	2	28.5	2	83	10	69	50	0	0	50	1.00
9115119--9115161	19	2.2	19	83	4	50	46	16	13	23	1.83
9118273--9118304	13	2.5	13	95	5	57	53	0	0	46	1.00
9118378--9118441	22	3.0	20	78	19	60	50	1	6	42	1.37
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9118560--9118606	20	2.4	20	75	13	53	48	4	2	44	1.34
9118652--9118677	13	2.0	13	100	0	52	46	0	0	53	1.00
9118661--9118713	24	2.2	25	78	18	60	50	1	0	47	1.12
9118735--9118792	29	2.0	29	86	6	82	51	0	0	48	1.00
9126003--9126050	20	2.3	21	89	3	71	45	10	12	31	1.76
9126600--9126664	31	2.1	32	85	8	89	30	4	7	56	1.48
9126615--9126681	31	2.1	31	83	2	80	32	4	5	56	1.43
9127799--9127847	19	2.7	17	84	9	53	26	20	28	24	1.99
9135690--9135722	3	10.7	3	93	6	57	66	0	0	33	0.92
9135686--9135731	22	2.1	22	87	0	65	60	0	0	39	0.97
9135690--9135722	16	2.1	16	94	5	59	66	0	0	33	0.92
9135898--9136335	90	4.9	90	87	3	625	35	20	18	26	1.95
9135898--9136335	179	2.4	179	88	2	648	35	20	18	26	1.95
9136384--9136697	43	7.3	43	84	5	393	30	27	12	29	1.92
9136384--9136681	86	3.5	85	90	2	438	31	27	12	28	1.93
9136384--9136782	129	3.2	125	84	8	462	30	28	11	29	1.92
9136698--9136782	43	2.0	42	84	4	109	31	32	9	25	1.88
9136804--9136922	39	3.1	39	78	6	109	36	15	20	27	1.92
9136866--9136956	21	4.6	21	69	15	77	36	10	24	28	1.89
9136852--9136935	36	2.3	36	91	0	132	34	13	23	28	1.92
9136866--9136977	57	2.0	57	89	0	170	39	12	22	25	1.89
9137383--9137518	33	4.2	32	86	4	175	31	24	13	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9137383--9137518	65	2.1	65	90	2	211	31	24	13	30	1.94
9139801--9139825	13	1.9	13	100	0	50	48	20	16	16	1.82
9144171--9144209	21	1.9	20	89	5	60	64	5	5	25	1.35
9144392--9144422	16	1.9	16	93	0	53	61	12	9	16	1.56
9155093--9155139	24	2.0	24	91	0	76	25	34	19	21	1.96
9155113--9155154	16	2.6	16	85	14	59	23	33	21	21	1.97
9157019--9157048	15	2.0	15	100	0	60	33	26	13	26	1.93
9159238--9159277	19	2.1	19	100	0	80	25	40	25	10	1.86
9166404--9166462	19	3.2	18	72	13	57	77	8	1	11	1.05
9166657--9166704	18	2.8	17	81	12	53	77	0	8	14	0.99
9166716--9166800	38	2.2	38	82	14	104	63	2	3	30	1.24
9166734--9166798	17	3.6	18	72	24	55	63	1	4	30	1.24
9166856--9166911	14	4.0	14	79	11	53	66	0	1	32	1.03
9166841--9166907	25	2.7	24	81	6	80	65	0	1	32	1.02
9166844--9166927	19	4.5	20	79	13	83	65	0	1	33	1.00
9166883--9166925	16	2.6	16	82	14	52	69	0	0	30	0.88
9166841--9166927	38	2.3	41	75	24	100	65	0	1	33	1.00
9167965--9168150	83	2.2	83	80	7	198	26	17	20	35	1.95
9169374--9169552	36	5.1	36	69	15	142	38	11	21	28	1.88
9169240--9169488	65	3.7	67	80	6	254	38	8	20	31	1.84
9169449--9169540	37	2.5	36	87	1	121	41	15	21	21	1.90
9169630--9169744	32	3.5	32	70	11	88	23	24	23	28	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9169630--9169784	67	2.3	67	90	0	247	23	22	23	29	1.99
9169662--9169779	35	3.5	35	72	11	109	21	22	24	31	1.98
9170178--9170252	32	2.3	32	81	0	87	37	22	12	28	1.90
9171305--9171355	13	4.0	12	81	18	59	3	17	1	76	1.03
9173384--9173426	21	2.1	21	82	4	52	67	0	13	18	1.23
9174729--9174812	36	2.3	37	84	8	102	67	4	3	23	1.25
9174801--9174825	13	1.9	13	100	0	50	80	0	8	12	0.92
9174806--9174862	16	3.2	18	73	12	55	73	0	3	22	0.98
9174803--9174876	31	2.4	31	81	4	78	74	0	4	21	0.98
9174824--9174899	30	2.5	31	79	8	77	71	0	3	25	1.03
9174874--9174933	17	3.2	17	70	20	57	63	1	5	30	1.25
9174957--9174999	8	5.4	8	94	0	50	48	6	0	44	1.29
9174964--9175020	2	29.0	2	86	10	82	50	1	1	45	1.22
9174969--9175037	12	5.0	14	81	16	58	56	0	1	42	1.08
9174973--9175044	16	5.1	14	77	16	60	58	0	1	40	1.07
9175005--9175071	25	2.8	22	82	15	64	67	0	4	28	1.10
9185571--9185634	16	4.1	16	79	2	58	54	10	9	25	1.65
9185754--9185796	16	2.8	15	78	3	50	53	11	6	27	1.63
9189738--9189787	18	2.6	19	90	6	75	32	14	24	30	1.94
9189754--9189794	20	2.0	20	90	0	64	34	12	24	29	1.91
9189942--9189992	19	2.7	19	81	0	57	35	25	15	23	1.94
9191644--9191723	32	2.5	32	83	0	88	37	11	18	32	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
9196665--9196983	81	4.0	81	91	0	514	25	21	12	39	1.89
9196936--9197187	68	3.7	68	89	0	353	30	23	15	30	1.95
9197929--9197998	19	3.5	19	70	11	68	24	28	14	32	1.94
9200202--9200235	16	2.1	16	94	0	59	20	20	20	38	1.94
9202476--9202566	19	4.7	19	78	10	103	19	28	16	35	1.94
9204360--9204397	20	1.9	20	100	0	76	52	10	15	21	1.72
9204363--9204407	20	2.2	20	88	0	63	55	11	13	20	1.68
9205983--9206016	18	1.9	18	88	5	52	29	20	0	50	1.49
9208602--9208743	62	2.2	64	90	2	216	37	24	3	34	1.73
9211660--9211693	18	1.9	18	88	5	52	29	20	0	50	1.49

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   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91