genome.fa.s8242.2.7.7.80.10.50.1000.24.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: VEPZ01008242.1 Hibiscus syriacus cultivar Beakdansim tig00110890_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  16962412

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   

This is table  24  of  73  ( 8740 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)
5660269--5660369	33	3.0	33	80	8	80	32	1	32	32	1.69
5665936--5666000	33	2.0	32	82	8	78	33	1	32	32	1.67
5668118--5668159	19	2.2	20	86	4	59	38	16	4	40	1.70
5668118--5668168	20	2.6	19	87	3	66	37	15	3	43	1.66
5668894--5668936	5	8.4	5	85	10	52	76	0	20	2	0.89
5668887--5668929	8	5.1	8	91	8	68	74	0	23	2	0.93
5671352--5671411	30	2.0	31	83	3	77	26	8	10	55	1.61
5672321--5672368	20	2.5	19	83	12	62	35	14	8	41	1.76
5674531--5674589	24	2.3	26	82	8	77	61	11	16	10	1.57
5677860--5677912	23	2.2	24	93	3	90	9	15	11	64	1.50
5681188--5681227	19	2.1	19	90	0	62	62	15	12	10	1.54
5684897--5684935	19	2.1	19	90	4	62	58	15	15	10	1.62
5689832--5689902	24	3.0	24	67	8	63	35	19	15	29	1.93
5695648--5695699	19	2.6	21	90	6	81	46	7	13	32	1.72
5699002--5699032	11	2.8	11	100	0	62	6	9	6	77	1.12
5699752--5699800	19	2.5	20	87	12	66	44	8	14	32	1.74
5701789--5701845	24	2.3	26	81	9	73	61	10	15	12	1.57
5701793--5701847	25	2.2	25	87	3	76	58	10	16	14	1.64
5702801--5702911	35	3.2	35	87	2	152	32	3	36	27	1.74
5706032--5706072	13	2.9	14	83	16	50	17	7	2	73	1.17
5708565--5708603	10	3.7	10	90	10	60	25	10	43	20	1.83
5708977--5709027	20	2.6	20	90	3	77	35	15	5	43	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5713174--5713224	20	2.6	20	90	3	77	35	15	5	43	1.71
5720984--5721034	19	2.6	20	87	3	68	45	5	15	33	1.71
5722534--5722582	21	2.3	21	80	16	57	0	18	4	77	0.92
5722962--5723063	35	2.9	35	86	1	141	33	3	35	27	1.75
5725454--5725506	24	2.2	25	82	3	63	60	13	13	13	1.60
5726699--5726767	24	2.9	23	70	6	66	31	20	17	30	1.95
5729368--5729424	24	2.3	26	81	9	73	61	10	15	12	1.57
5729372--5729426	25	2.2	25	87	3	76	58	10	16	14	1.64
5730599--5731098	262	1.9	259	79	8	557	31	16	26	26	1.97
5732188--5732221	10	3.6	10	88	11	54	73	0	26	0	0.83
5733086--5733145	30	2.0	31	83	3	77	26	8	10	55	1.61
5734055--5734096	19	2.2	20	86	4	59	40	14	4	40	1.67
5734055--5734105	20	2.6	19	87	3	66	39	13	3	43	1.63
5734854--5734897	8	5.2	8	82	17	54	75	0	25	0	0.81
5734854--5734897	18	2.6	16	80	19	54	75	0	25	0	0.81
5734854--5734888	13	2.7	13	83	16	54	77	0	22	0	0.78
5738344--5738423	35	2.2	37	88	4	119	32	37	2	27	1.70
5738377--5738423	11	4.1	11	80	20	60	36	36	2	25	1.68
5738377--5738423	24	2.0	24	84	15	64	36	36	2	25	1.68
5738801--5738843	12	3.4	12	80	6	50	79	6	13	0	0.93
5738799--5738842	17	2.6	18	85	7	56	79	6	13	0	0.92
5742282--5742361	35	2.2	37	88	4	119	32	37	2	27	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5742315--5742361	11	4.1	11	80	20	60	36	36	2	25	1.68
5742315--5742361	24	2.0	24	84	15	64	36	36	2	25	1.68
5744076--5744133	24	2.4	24	88	0	89	36	13	24	25	1.92
5748618--5748672	24	2.3	25	81	6	60	32	16	21	29	1.95
5753730--5753781	2	26.0	2	100	0	104	50	0	0	50	1.00
5758283--5758325	12	3.7	12	81	6	52	0	11	11	76	1.02
5763963--5763999	18	2.1	18	94	0	65	32	27	0	40	1.57
5764540--5764571	14	2.3	15	89	10	50	3	12	9	75	1.16
5765977--5766056	25	3.2	25	62	13	65	20	15	13	51	1.76
5766537--5766589	6	8.5	6	77	6	52	79	1	13	5	0.99
5766861--5766894	17	2.0	17	88	0	50	29	32	0	38	1.58
5775838--5775915	40	2.0	41	82	10	99	58	11	20	8	1.59
5787461--5787534	19	4.0	19	78	7	89	2	16	5	75	1.10
5788253--5788304	19	2.6	21	84	6	72	48	5	11	34	1.63
5789594--5789629	2	18.0	2	100	0	72	50	0	0	50	1.00
5791771--5791817	11	4.1	11	80	20	60	36	36	2	25	1.68
5791771--5791817	24	2.0	24	84	15	64	36	36	2	25	1.68
5791738--5791817	35	2.2	37	84	4	101	32	35	2	30	1.71
5792257--5792303	14	3.1	15	75	12	51	72	6	19	2	1.17
5795675--5795754	35	2.2	36	86	8	110	33	36	2	27	1.70
5795708--5795754	11	4.1	11	80	20	60	36	36	2	25	1.68
5795708--5795754	24	2.0	24	84	15	64	36	36	2	25	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5796194--5796240	14	3.1	15	75	12	51	72	6	19	2	1.17
5799612--5799691	35	2.2	37	88	4	119	32	37	2	27	1.70
5799645--5799691	11	4.1	11	80	20	60	36	36	2	25	1.68
5799645--5799691	24	2.0	24	84	15	64	36	36	2	25	1.68
5803551--5803630	35	2.2	37	88	4	119	32	37	2	27	1.70
5803584--5803630	11	4.1	11	80	20	60	36	36	2	25	1.68
5803584--5803630	24	2.0	24	84	15	64	36	36	2	25	1.68
5809340--5809385	24	1.9	24	91	8	76	4	13	21	60	1.49
5811943--5812011	33	2.1	33	83	5	86	31	1	36	30	1.67
5811997--5812093	13	8.0	12	72	22	62	28	3	37	30	1.73
5811982--5812094	36	3.2	36	92	1	174	27	3	36	32	1.74
5817661--5817729	33	2.1	33	83	5	86	31	1	36	30	1.67
5817700--5817812	36	3.2	36	87	1	147	29	3	34	32	1.75
5820567--5820602	2	18.0	2	100	0	72	50	0	0	50	1.00
5826402--5826481	35	2.2	37	88	4	119	30	37	3	28	1.75
5827003--5827055	11	4.6	11	80	17	54	0	22	0	77	0.77
5827013--5827043	8	3.9	8	100	0	62	0	22	0	77	0.77
5831331--5831384	2	27.0	2	100	0	108	50	0	0	50	1.00
5833979--5834006	2	14.0	2	100	0	56	50	0	0	50	1.00
5835920--5835993	24	3.1	24	69	7	69	32	17	18	31	1.95
5837189--5837247	24	2.3	26	88	8	95	6	16	15	61	1.55
5839324--5839358	18	1.9	18	88	0	52	48	5	14	31	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5839308--5839352	22	2.0	22	82	0	54	51	2	13	33	1.53
5846464--5846490	11	2.5	11	100	0	54	37	0	37	25	1.57
5846518--5846627	35	3.1	35	84	6	150	33	3	36	26	1.74
5848192--5848238	21	2.2	21	92	0	76	38	25	14	21	1.92
5855627--5855669	15	2.9	15	78	0	50	6	11	4	76	1.13
5855695--5855737	21	2.0	22	86	4	61	0	16	6	76	0.99
5856128--5856237	35	3.1	35	85	6	150	34	3	36	25	1.74
5856574--5856616	19	2.2	20	87	4	61	48	6	9	34	1.62
5859130--5859186	25	2.1	27	84	12	73	12	12	15	59	1.61
5861914--5861960	25	1.9	25	91	4	78	63	17	12	6	1.48
5865932--5865960	15	2.0	15	93	6	51	75	3	20	0	0.94
5878844--5878890	11	4.1	11	80	20	60	25	2	36	36	1.68
5878844--5878890	24	2.0	24	84	15	64	25	2	36	36	1.68
5878844--5878923	35	2.2	37	88	4	119	27	2	37	32	1.70
5882909--5882955	11	4.1	11	80	20	60	25	2	36	36	1.68
5882909--5882955	24	2.0	24	84	15	64	25	2	36	36	1.68
5882909--5882988	35	2.2	35	84	4	97	27	3	36	32	1.75
5890064--5890120	30	1.9	30	96	0	105	19	17	24	38	1.93
5895800--5895862	24	2.6	25	89	5	101	12	7	7	71	1.31
5897535--5897582	24	2.0	25	87	4	71	52	12	22	12	1.73
5898440--5898481	19	2.2	19	91	8	68	59	0	14	26	1.35
5898894--5898945	19	2.6	20	87	6	70	42	5	15	36	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5899840--5899899	30	2.0	31	86	3	86	53	10	8	28	1.63
5907978--5908010	7	4.7	7	100	0	66	0	24	0	75	0.80
5911253--5911296	6	7.2	6	82	12	54	79	2	18	0	0.83
5920559--5920592	16	2.1	17	89	10	54	11	23	0	64	1.26
5925604--5925658	30	1.9	27	85	10	74	12	16	10	60	1.60
5934474--5934525	24	2.2	25	86	6	72	26	7	0	65	1.20
5934775--5934822	13	3.7	12	81	13	51	72	2	20	4	1.11
5938316--5938367	24	2.2	25	86	6	72	26	7	0	65	1.20
5943918--5943960	21	2.0	22	90	9	70	13	20	0	65	1.27
5946873--5946922	24	2.1	24	81	7	57	32	26	22	20	1.98

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