genome.fa.s1465.2.7.7.80.10.50.1000.32.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  32  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)
6322331--6322574	43	5.8	43	81	6	266	25	22	18	33	1.96
6322338--6322578	83	2.9	83	85	4	281	24	22	18	34	1.96
6322873--6322997	61	2.0	62	84	4	164	47	8	17	26	1.77
6325957--6326066	36	3.1	36	95	0	202	7	18	29	45	1.76
6330902--6330928	5	5.4	5	100	0	54	40	0	0	59	0.98
6330932--6330981	18	2.8	18	78	0	55	30	0	0	70	0.88
6332336--6332374	8	4.8	8	84	6	51	10	2	2	84	0.81
6332328--6332374	17	2.7	17	80	3	58	12	4	2	80	0.94
6335282--6335334	23	2.3	23	90	6	81	81	3	13	1	0.92
6335260--6335333	11	6.8	11	78	15	66	81	6	10	1	0.94
6335298--6335336	20	2.0	19	85	5	51	76	2	17	2	1.01
6336268--6336312	21	2.1	21	87	0	63	31	28	24	15	1.96
6337137--6337589	149	3.0	149	99	0	879	26	17	20	35	1.95
6337568--6337612	23	2.0	23	86	0	63	20	24	28	26	1.99
6340729--6340773	21	2.1	21	87	0	63	31	28	24	15	1.96
6340802--6340846	22	2.0	22	86	4	63	31	31	26	11	1.91
6341598--6342050	149	3.0	149	99	0	888	26	17	20	34	1.95
6342029--6342073	23	2.0	23	86	0	63	20	24	28	26	1.99
6343557--6343643	32	2.7	31	82	10	97	29	17	20	32	1.95
6344471--6344927	85	5.4	85	86	2	573	35	21	18	24	1.95
6346391--6346429	18	2.2	17	86	4	51	35	0	0	64	0.94
6348412--6348445	17	2.0	17	100	0	68	52	0	0	47	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6349324--6349380	26	2.2	26	90	0	87	24	24	28	22	2.00
6350234--6350271	2	19.0	2	100	0	76	50	0	0	50	1.00
6353023--6353079	21	2.8	20	86	5	78	43	1	0	54	1.10
6353011--6353079	20	3.5	19	84	7	84	43	1	0	55	1.08
6353056--6353097	17	2.4	17	81	14	50	38	4	0	57	1.20
6353032--6353112	21	3.4	23	72	17	67	38	2	0	59	1.11
6356578--6356641	2	32.0	2	100	0	128	50	0	0	50	1.00
6365093--6365142	2	25.0	2	100	0	100	50	0	0	50	1.00
6375631--6375676	2	23.0	2	100	0	92	50	0	0	50	1.00
6377654--6377706	12	4.4	12	80	0	61	37	7	3	50	1.49
6377759--6377801	20	2.0	22	86	8	63	37	0	4	58	1.19
6382646--6382689	21	2.1	21	82	0	52	9	38	15	36	1.80
6383873--6383924	19	2.7	19	96	0	95	28	34	19	17	1.94
6383807--6383969	84	2.0	83	85	8	224	29	25	18	26	1.98
6383827--6383988	83	1.9	82	80	13	188	29	25	18	26	1.98
6383957--6384008	19	2.7	19	87	0	77	23	28	19	28	1.98
6390516--6390705	65	3.0	62	79	11	188	30	22	18	28	1.97
6390546--6390725	65	2.8	64	77	15	174	29	22	18	29	1.97
6401020--6401078	30	2.0	30	89	0	91	27	16	13	42	1.86
6402374--6402414	2	20.5	2	100	0	82	48	0	0	51	1.00
6402412--6402470	4	14.8	4	100	0	118	25	0	23	50	1.49
6402940--6402984	23	2.0	23	90	0	72	35	13	4	46	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6403045--6403086	21	2.0	21	95	0	75	19	19	2	59	1.49
6403046--6403094	21	2.3	21	89	3	71	18	20	4	57	1.57
6404736--6404788	19	2.8	19	85	0	79	45	9	9	35	1.69
6408639--6408700	21	3.0	21	79	11	74	37	27	3	32	1.73
6409119--6409303	90	2.1	90	85	1	246	42	15	10	31	1.81
6410738--6410781	22	2.0	21	82	4	52	2	56	6	34	1.38
6417148--6417224	31	2.5	31	89	0	118	49	15	11	23	1.77
6418819--6418857	17	2.3	17	86	8	53	56	0	2	41	1.13
6419322--6419364	20	2.2	20	91	8	70	39	0	0	60	0.97
6423587--6423646	29	2.1	29	87	0	84	36	1	5	56	1.31
6428210--6428383	60	2.9	59	85	10	239	33	16	5	44	1.71
6428210--6428383	29	5.9	31	81	5	175	33	16	5	44	1.71
6428210--6428383	58	2.9	59	86	6	237	33	16	5	44	1.71
6428411--6428456	19	2.4	19	96	0	83	23	34	26	15	1.94
6428410--6428456	9	5.0	9	78	17	51	23	34	27	14	1.94
6435015--6435072	19	3.1	19	94	0	98	31	29	20	18	1.97
6437379--6437445	33	2.0	33	94	0	116	26	19	28	25	1.99
6444093--6444862	264	2.9	261	82	5	897	22	21	18	36	1.95
6448989--6449022	7	5.0	7	85	7	52	67	0	0	32	0.91
6448991--6449015	13	1.9	13	100	0	50	64	0	0	36	0.94
6451126--6451765	165	3.9	162	82	6	597	24	21	25	29	1.99
6451225--6451765	249	2.2	249	95	1	976	24	21	25	29	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6454827--6454871	19	2.4	19	92	3	74	66	8	13	11	1.44
6456462--6456495	7	5.0	7	85	7	52	67	0	0	32	0.91
6456464--6456488	13	1.9	13	100	0	50	64	0	0	36	0.94
6461342--6461412	25	3.0	24	79	16	62	52	1	0	46	1.09
6461379--6461423	20	2.3	20	85	11	58	48	0	0	51	1.00
6462932--6463000	23	3.0	23	84	0	93	28	26	27	17	1.97
6463287--6463334	24	2.0	25	83	4	62	41	10	8	39	1.69
6463777--6463834	21	2.8	21	94	0	98	27	24	22	25	2.00
6465104--6465148	23	2.0	23	100	0	90	35	13	22	28	1.92
6466227--6466390	70	2.3	69	85	4	204	32	23	18	25	1.97
6467766--6467811	20	2.3	20	85	3	58	39	23	0	36	1.55
6469348--6469504	69	2.3	69	82	0	188	28	23	22	25	2.00
6469552--6469659	38	2.8	38	85	2	128	24	20	22	33	1.97
6473032--6473060	11	2.6	11	100	0	58	10	0	27	62	1.28
6474755--6474824	34	2.0	36	88	5	108	44	24	14	17	1.85
6474836--6474876	2	20.5	2	100	0	82	51	0	0	48	1.00
6480858--6480888	16	1.9	16	93	0	53	70	0	9	19	1.14
6480833--6480917	39	2.2	39	95	0	152	57	2	10	29	1.45
6485529--6485560	14	2.2	15	94	5	57	53	0	0	46	1.00
6485587--6485612	12	2.2	12	100	0	52	34	0	0	65	0.93
6485615--6485654	21	1.9	21	85	10	55	55	0	2	42	1.13
6488270--6488327	30	1.9	30	82	10	73	43	3	8	44	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6491444--6491543	27	3.7	27	90	1	137	59	2	1	38	1.16
6491453--6491574	27	4.6	27	81	7	81	55	1	2	40	1.23
6493216--6493248	13	2.4	14	80	10	50	63	6	0	30	1.18
6498070--6498099	2	15.0	2	100	0	60	0	0	50	50	1.00
6500068--6500106	18	2.2	17	86	4	51	30	48	15	5	1.66
6506348--6506390	22	2.0	22	86	8	63	34	0	0	65	0.93
6511307--6511345	21	1.9	20	85	15	53	23	28	7	41	1.82
6516187--6516260	34	2.2	34	92	0	121	21	18	21	37	1.94
6518477--6518508	15	2.1	15	100	0	64	37	12	12	37	1.81
6519133--6519176	17	2.7	17	80	19	58	54	0	4	40	1.21
6522003--6522044	19	2.2	19	100	0	84	45	0	0	54	0.99
6524123--6524177	27	2.0	27	82	0	65	23	23	27	25	2.00
6524892--6524940	23	2.1	23	88	0	71	38	8	18	34	1.80
6524856--6525017	87	1.9	87	89	0	252	44	11	11	32	1.77
6525181--6525232	21	2.5	21	96	0	95	38	13	17	30	1.88
6528939--6529297	178	2.0	180	95	1	650	31	12	15	40	1.84
6529117--6529546	200	2.2	200	97	0	806	30	12	15	42	1.83
6529556--6530039	182	2.7	181	89	3	720	26	17	13	42	1.86
6530844--6530920	29	2.7	29	85	0	100	15	37	25	20	1.92
6531361--6531409	21	2.3	22	82	13	66	26	0	16	57	1.40
6531467--6531519	28	1.9	27	88	3	79	32	1	16	49	1.57
6531466--6531530	27	2.3	29	82	10	82	36	1	15	46	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6531660--6531714	18	3.4	18	65	31	52	38	0	9	52	1.33
6531742--6531781	21	1.9	21	94	0	71	30	0	12	57	1.36
6531288--6532023	370	2.0	357	82	10	880	39	1	11	47	1.49
6531984--6532064	30	2.7	30	94	1	137	41	2	12	43	1.55
6532013--6532061	15	3.3	15	72	11	55	44	0	12	42	1.41
6534255--6534677	5	86.4	5	90	9	687	59	0	0	40	0.97
6534912--6534982	21	3.7	20	77	15	78	52	5	2	39	1.40
6535041--6535091	17	2.7	19	77	14	52	43	9	0	47	1.36
6535541--6535604	28	2.2	30	86	5	96	59	9	1	29	1.38
6535546--6535611	28	2.4	28	82	10	89	57	9	1	31	1.39

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