genome.fa.s1129.2.7.7.80.10.50.1000.65.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  65  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)
15389094--15389129	2	18.0	2	100	0	72	50	0	0	50	1.00
15390875--15390906	2	16.0	2	100	0	64	50	0	0	50	1.00
15391931--15391984	18	2.9	18	76	13	56	74	11	11	3	1.20
15393007--15393057	15	3.3	15	80	5	57	15	7	0	76	1.00
15397219--15397256	18	2.1	19	90	5	60	36	10	15	36	1.82
15397275--15397331	7	8.3	7	84	11	82	15	15	14	54	1.72
15399347--15399396	21	2.4	21	96	0	91	18	12	10	60	1.59
15413383--15413416	3	11.3	3	93	0	50	38	0	0	61	0.96
15413444--15413505	25	2.5	25	89	0	88	30	38	14	16	1.88
15423296--15423343	24	2.0	24	91	0	78	43	10	10	35	1.73
15426941--15426967	11	2.5	11	100	0	54	7	18	0	74	1.05
15438662--15438711	17	2.9	17	87	0	73	38	14	6	42	1.70
15440040--15440073	10	3.3	10	87	4	50	85	0	11	2	0.71
15440032--15440072	17	2.3	18	91	4	66	82	2	12	2	0.86
15440029--15440073	18	2.5	18	85	7	65	84	2	11	2	0.80
15445095--15445144	17	2.9	17	84	0	64	40	10	6	44	1.63
15449724--15449838	57	2.0	57	100	0	230	27	24	8	39	1.85
15452629--15452813	83	2.2	83	80	1	201	28	29	16	25	1.97
15453025--15453058	3	11.7	3	93	6	61	29	0	0	70	0.87
15454143--15454187	19	2.4	19	85	10	65	22	4	2	71	1.15
15454548--15454591	22	2.0	21	86	4	61	25	2	34	38	1.68
15456137--15456180	22	2.0	21	86	4	61	25	2	34	38	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15458120--15458170	19	2.6	20	87	3	68	43	7	15	33	1.76
15459055--15459085	4	7.8	4	100	0	62	51	0	22	25	1.48
15459104--15459157	22	2.5	22	94	5	94	61	3	9	25	1.43
15460211--15460288	24	3.2	25	73	10	65	29	19	15	35	1.92
15461529--15461592	11	5.5	11	81	17	60	3	17	3	76	1.04
15461529--15461591	16	3.6	17	73	21	51	3	15	3	77	1.02
15464822--15465220	81	4.9	81	91	0	638	27	22	12	37	1.90
15465171--15465425	68	3.8	68	91	2	399	27	25	16	30	1.97
15465634--15465805	59	3.0	57	85	6	226	34	20	10	34	1.87
15466165--15466367	95	2.1	96	83	7	263	23	24	16	35	1.95
15470303--15470339	3	12.3	3	88	11	58	29	0	0	70	0.88
15470304--15470347	12	3.6	13	88	8	58	29	0	2	68	1.02
15470310--15470351	19	2.2	19	87	8	59	33	0	2	64	1.07
15473584--15473984	200	2.0	200	97	2	754	30	16	21	31	1.96
15474060--15474121	32	2.0	32	96	3	117	14	14	9	61	1.57
15476506--15476588	20	4.0	20	78	15	78	27	25	10	36	1.89
15476504--15476572	25	3.0	24	78	20	83	26	24	11	37	1.89
15477261--15477301	17	2.4	17	87	0	55	78	4	14	2	1.03
15477292--15477332	12	3.5	11	87	9	55	70	9	14	4	1.30
15478473--15478514	4	10.5	4	94	0	66	50	28	0	21	1.49
15479161--15479228	36	1.9	36	87	3	102	33	22	10	33	1.88
15479506--15479599	27	3.5	28	81	9	106	28	9	17	44	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15479553--15479614	26	2.3	28	86	10	85	32	6	12	48	1.67
15479699--15479837	67	2.1	67	90	5	219	35	12	11	41	1.79
15480073--15480189	61	1.9	60	83	8	148	29	14	12	42	1.83
15480999--15481050	27	1.9	27	84	7	70	19	17	17	46	1.85
15481062--15481525	127	3.7	129	90	6	745	26	30	18	24	1.98
15481062--15481525	255	1.8	252	92	5	792	26	30	18	24	1.98
15481726--15481756	3	10.3	3	92	0	53	29	0	0	70	0.87
15483758--15483852	47	2.0	48	97	2	183	21	12	6	60	1.54
15498321--15498354	17	2.1	17	94	5	61	41	11	11	35	1.78
15509525--15509563	19	2.0	21	85	10	55	43	0	0	56	0.99
15520646--15520739	31	3.0	32	79	6	120	25	17	21	36	1.94
15530440--15530476	19	2.1	18	90	10	58	27	16	5	51	1.66
15539962--15540115	84	1.9	80	83	9	197	31	7	24	37	1.82
15541455--15541488	18	1.9	17	88	5	50	50	0	5	44	1.26
15541678--15541731	25	2.2	25	93	0	90	27	37	1	33	1.68
15544494--15544530	19	1.9	20	88	5	58	18	8	13	59	1.58
15545464--15545504	17	2.4	17	79	0	55	60	7	4	26	1.43
15545529--15545559	9	3.4	9	95	0	53	77	0	0	22	0.77
15545649--15545705	18	3.2	17	79	20	64	35	1	1	61	1.17
15545704--15545736	17	1.9	17	93	0	57	18	6	9	66	1.40
15546411--15546441	2	15.5	2	100	0	62	48	0	0	51	1.00
15546978--15547425	55	8.2	55	83	3	521	34	17	17	30	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15547838--15547888	20	2.6	19	82	14	59	25	27	15	31	1.96
15552257--15552333	2	38.5	2	100	0	154	49	0	0	50	1.00
15552870--15553155	54	5.3	55	81	3	269	33	18	16	30	1.94
15560352--15560704	44	8.0	44	89	0	447	25	19	12	43	1.85
15560352--15560704	132	2.7	132	87	0	492	25	19	12	43	1.85
15561149--15561195	18	2.6	18	100	0	94	34	29	12	23	1.92
15561926--15561954	13	2.2	13	100	0	58	34	37	0	27	1.57
15587358--15587408	21	2.4	21	96	0	93	29	31	19	19	1.97
15598352--15598378	14	1.9	14	100	0	54	14	11	14	59	1.62
15598579--15598618	14	2.9	14	88	0	53	7	12	20	60	1.56
15598592--15598645	24	2.2	24	83	0	63	11	9	18	61	1.55
15604131--15604163	16	2.0	17	88	5	50	6	12	6	75	1.16
15608842--15608926	43	2.0	43	100	0	170	28	2	11	57	1.46
15609322--15609512	103	1.9	102	91	2	312	20	19	30	28	1.97
15619014--15619053	19	2.0	20	85	9	55	70	0	10	20	1.16
15624179--15624207	14	2.0	15	93	6	51	0	17	0	82	0.66
15628178--15628302	31	4.0	31	78	5	108	32	19	17	31	1.95
15632388--15632432	18	2.5	17	82	10	54	6	15	0	77	0.96
15637245--15637297	18	2.9	18	86	5	63	5	16	0	77	0.96
15637253--15637305	10	5.6	10	78	10	58	5	15	0	79	0.91
15642542--15642598	8	6.8	8	79	16	62	3	14	1	80	0.92
15647494--15647578	25	3.3	25	78	9	82	11	2	7	78	1.03
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15647524--15647643	17	6.9	17	69	24	72	21	1	3	73	1.07
15647546--15647643	4	24.5	4	79	13	69	24	1	3	71	1.07
15647518--15647753	9	25.6	9	70	15	81	19	5	2	71	1.20
15647663--15647696	10	3.5	10	88	4	52	8	8	0	82	0.85
15647601--15647753	23	6.8	23	69	11	86	18	8	1	70	1.22
15647703--15647766	33	1.9	33	84	6	85	17	10	3	68	1.31
15651846--15651956	47	2.5	45	88	7	163	39	9	18	32	1.82
15652469--15652501	12	2.8	12	90	0	57	18	24	21	36	1.95
15658310--15658345	18	2.0	18	100	0	72	22	5	22	50	1.70
15660347--15660375	12	2.3	13	94	5	51	82	0	17	0	0.66
15662543--15662592	22	2.3	22	100	0	100	40	18	18	24	1.91
15663397--15663431	14	2.3	15	90	9	54	14	0	0	85	0.59
15664654--15664712	13	4.5	13	93	0	91	32	22	15	30	1.94
15670776--15670864	6	15.0	6	79	11	76	69	2	0	28	1.00
15670782--15670813	15	2.1	15	100	0	64	62	0	0	37	0.95
15670815--15670866	27	1.9	27	88	0	77	76	1	0	21	0.87
15670776--15670864	15	6.2	15	76	8	60	69	2	0	28	1.00
15671114--15671202	36	2.5	36	94	0	151	20	21	10	48	1.78
15671256--15671358	38	2.6	39	89	7	145	23	22	10	43	1.84
15671284--15671345	19	3.3	19	70	17	56	20	24	12	41	1.87
15671097--15671473	154	2.5	147	89	6	573	27	20	11	39	1.88
15671299--15672072	113	6.9	113	91	1	1108	28	18	15	37	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
15672904--15673381	83	5.7	83	91	0	740	37	22	12	26	1.90
15674517--15674591	1	75.0	1	70	0	51	0	14	0	85	0.60
15674516--15674588	10	7.0	11	74	25	70	0	16	0	83	0.64
15674517--15674591	36	2.1	35	87	7	107	0	14	0	85	0.60
15674517--15674594	11	6.7	11	78	10	84	0	15	0	84	0.62
15674517--15674594	23	3.4	22	80	15	86	0	15	0	84	0.62
15674517--15674591	35	2.1	36	87	7	109	0	14	0	85	0.60
15680715--15680806	46	2.0	45	95	2	166	20	19	11	47	1.81
15685079--15685123	24	1.9	23	86	4	63	57	2	2	37	1.23
15685553--15685577	11	2.3	11	100	0	50	60	8	0	32	1.26

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