genome.fa.s1129.2.7.7.80.10.50.1000.76.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: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  21326069

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   

This is table  76  of  89  ( 10573 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)
18153503--18153574	20	3.3	20	72	20	72	22	23	11	43	1.85
18154010--18154188	96	1.9	96	82	5	231	25	22	14	37	1.92
18194525--18194636	59	1.9	59	90	0	179	23	15	34	26	1.94
18195356--18195405	25	2.0	25	81	11	59	44	6	4	46	1.47
18200629--18200669	21	2.0	21	85	4	57	24	12	9	53	1.68
18227747--18227802	13	4.3	13	88	0	76	30	21	16	32	1.95
18227760--18227939	85	2.1	84	82	6	213	31	21	17	29	1.96
18233284--18233345	27	2.3	27	80	2	63	32	16	19	32	1.94
18254953--18254991	20	2.0	20	89	0	60	33	10	23	33	1.88
18255270--18255328	30	2.0	30	82	0	73	23	30	20	25	1.98
18257141--18257382	121	2.0	121	100	0	484	32	10	19	37	1.87
18278400--18278424	3	8.3	3	100	0	50	0	0	32	68	0.90
18303098--18303241	59	2.4	62	82	3	168	34	9	11	43	1.74
18308200--18308769	81	7.0	81	86	1	766	34	10	23	31	1.89
18311418--18312848	81	17.7	81	87	1	1902	35	10	22	31	1.89
18331283--18331381	49	2.0	49	94	0	171	34	14	17	34	1.89
18332048--18332153	30	3.5	30	79	2	122	32	14	20	33	1.92
18332035--18332190	61	2.5	59	75	8	150	29	10	23	35	1.89
18343243--18343267	13	1.9	13	100	0	50	16	24	0	60	1.36
18360860--18360901	15	2.8	16	85	7	61	47	7	0	45	1.30
18360869--18360907	20	2.0	20	85	10	53	53	5	0	41	1.23
18360995--18361063	2	34.5	2	100	0	138	49	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18364811--18365004	39	5.0	39	86	3	239	31	27	16	24	1.96
18367002--18367080	3	27.0	3	89	5	108	62	1	0	36	1.04
18367201--18367889	123	5.6	123	82	2	796	27	20	14	38	1.91
18367893--18368428	177	3.0	177	91	0	858	28	21	17	31	1.96
18369496--18369658	54	3.0	54	90	0	245	26	24	11	37	1.89
18371686--18371786	7	13.7	7	80	13	96	0	20	0	77	0.89
18371688--18371784	37	2.7	35	87	9	133	1	20	1	77	0.89
18371692--18371786	44	2.2	41	83	10	118	1	21	1	76	0.90
18374565--18374629	33	2.0	33	87	0	94	20	13	16	49	1.80
18377312--18377340	12	2.5	12	94	5	51	82	0	0	17	0.66
18379421--18379490	3	24.0	3	88	5	90	61	0	0	38	0.96
18379421--18379489	20	3.4	20	80	7	86	60	0	0	39	0.97
18379421--18379490	32	2.2	32	84	0	95	61	0	0	38	0.96
18379424--18379490	35	1.9	35	87	0	98	61	0	0	38	0.96
18379670--18379716	22	2.1	23	88	4	69	42	12	4	40	1.63
18395739--18395788	22	2.3	22	92	0	82	28	16	24	32	1.96
18397927--18397976	24	2.1	24	85	7	66	14	20	18	48	1.82
18397983--18398058	24	3.2	24	70	7	73	27	21	13	38	1.90
18401244--18401268	13	1.9	13	100	0	50	40	8	16	36	1.77
18405996--18406026	16	1.9	16	93	0	53	22	3	38	35	1.71
18406063--18406099	15	2.5	15	95	4	67	83	0	0	16	0.64
18406709--18407078	191	1.9	191	83	3	476	27	16	22	33	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18407914--18407956	22	2.0	22	90	0	68	39	0	16	44	1.48
18407882--18408048	25	6.8	25	74	11	130	41	2	19	35	1.65
18408807--18408889	30	2.6	31	78	16	82	9	9	3	77	1.11
18408816--18408910	47	2.0	47	81	4	111	5	13	4	76	1.10
18408852--18408903	18	2.9	18	75	16	54	3	15	1	78	0.98
18412501--18412670	64	2.6	64	80	8	193	27	19	24	28	1.98
18412527--18412669	65	2.2	64	88	6	209	27	18	23	30	1.98
18420252--18420390	65	2.2	65	85	6	185	27	18	23	30	1.98
18421608--18421656	19	2.6	19	96	0	89	22	20	24	32	1.98
18421560--18421716	83	1.9	85	86	7	232	27	17	24	31	1.97
18429624--18429659	19	1.9	19	88	5	56	55	13	0	30	1.39
18433963--18434019	25	2.3	25	96	0	105	35	14	10	40	1.80
18434421--18434476	21	2.8	19	80	17	60	67	1	1	28	1.10
18435565--18435607	12	3.5	12	80	3	50	69	0	2	27	1.00
18445707--18445781	2	37.5	2	100	0	150	49	0	0	50	1.00
18445809--18445861	23	2.3	23	96	3	99	49	13	7	30	1.69
18446971--18447037	16	4.1	16	73	9	55	17	5	10	65	1.43
18446991--18447039	20	2.4	20	83	12	64	22	6	6	65	1.38
18447011--18447056	17	2.8	16	83	6	65	23	6	6	63	1.43
18447007--18447063	17	3.5	17	71	23	59	19	8	5	66	1.38
18447172--18447449	49	5.7	49	73	10	201	32	16	16	34	1.92
18447152--18447460	151	2.1	148	90	1	492	31	17	16	34	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18447477--18447515	20	2.0	20	89	0	60	20	17	25	35	1.95
18452783--18452819	13	2.8	13	91	4	56	45	8	13	32	1.73
18457646--18457686	21	2.0	20	90	9	66	24	21	26	26	2.00
18459140--18459179	7	5.6	7	88	5	53	15	10	0	75	1.05
18459140--18459179	14	2.8	14	88	3	62	15	10	0	75	1.05
18459199--18459911	257	2.8	257	85	2	966	35	17	15	31	1.91
18459789--18459867	41	1.9	42	86	2	115	32	18	22	25	1.97
18459789--18459892	42	2.5	41	80	6	120	30	20	23	25	1.98
18473441--18473514	21	3.5	21	83	3	87	22	25	16	35	1.95
18473504--18473555	21	2.5	21	87	3	70	38	17	23	21	1.93
18473544--18473647	20	5.2	20	81	6	120	29	28	18	23	1.97
18473541--18473678	41	3.4	41	79	2	152	34	25	18	21	1.96
18474404--18474453	24	2.1	24	92	0	82	22	20	20	38	1.94
18476939--18477008	20	3.5	20	82	3	88	37	25	21	15	1.93
18477032--18477081	20	2.5	20	87	3	75	48	16	18	18	1.82
18477115--18477169	14	3.6	14	76	21	56	10	21	21	45	1.82
18477108--18477189	33	2.4	34	81	4	112	10	19	24	45	1.82
18477090--18477156	19	3.8	18	75	18	61	10	17	22	49	1.77
18477296--18477332	14	2.6	14	86	0	56	48	21	0	29	1.50
18478738--18478830	42	2.2	42	88	0	141	21	13	41	22	1.88
18478764--18478826	21	3.0	21	70	9	65	22	11	42	23	1.85
18479181--18479229	20	2.5	20	89	0	71	34	24	24	16	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18479234--18479303	19	3.7	19	80	12	65	40	22	18	18	1.92
18479292--18479450	20	8.6	20	72	15	92	13	20	22	43	1.87
18479298--18479371	33	2.2	34	92	2	123	10	18	21	48	1.78
18479309--18479371	14	4.1	14	75	18	63	11	19	22	47	1.80
18479311--18479391	33	2.4	33	85	2	108	11	22	23	43	1.85
18479358--18479450	40	2.3	40	83	0	105	15	20	23	40	1.90
18479995--18480043	18	2.7	18	96	0	89	12	12	44	30	1.78
18481375--18481446	20	3.6	20	81	7	101	41	22	20	15	1.89
18481419--18481509	32	2.7	34	79	6	114	42	18	23	15	1.88
18481514--18481554	19	2.2	19	100	0	82	4	14	29	51	1.63
18481575--18481662	20	4.5	19	81	7	95	14	19	23	42	1.88
18481576--18481662	40	2.2	39	85	6	113	14	18	24	42	1.88
18482003--18482059	22	2.6	22	85	0	78	21	19	40	19	1.92
18482253--18482319	20	3.3	20	89	0	98	25	19	28	26	1.99
18482308--18482355	20	2.3	21	85	3	62	20	22	14	41	1.89
18482349--18482401	21	2.5	22	78	6	65	33	18	24	22	1.97
18494107--18494146	20	2.0	21	95	5	73	25	15	22	37	1.93
18494883--18495237	177	2.0	178	99	0	703	43	9	11	35	1.74
18498546--18498592	23	2.1	22	84	4	58	21	6	6	65	1.38
18506846--18506895	21	2.4	21	93	0	91	42	30	12	16	1.84
18508447--18508492	14	3.3	14	90	0	74	8	13	26	52	1.69
18509457--18509496	16	2.5	16	95	0	71	10	10	20	60	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
18509567--18509597	16	1.9	16	100	0	62	6	12	22	58	1.58
18526982--18527194	12	19.4	11	71	17	117	42	0	55	1	1.14
18527008--18527236	18	12.8	18	77	11	168	39	0	58	2	1.14
18526976--18527236	24	11.1	24	72	15	188	40	0	57	2	1.15
18527011--18527225	6	35.8	6	77	12	131	39	0	57	2	1.15
18527942--18528052	2	57.5	2	74	16	92	45	0	50	2	1.22
18527942--18528073	12	11.8	10	73	17	50	44	0	52	2	1.19
18528056--18528104	14	3.5	14	88	0	71	28	2	69	0	1.00
18528045--18528105	10	6.3	10	81	7	63	34	1	63	0	1.04
18528135--18528167	12	2.8	12	100	0	66	51	0	48	0	1.00

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