genome.fa.s9587.2.7.7.80.10.50.1000.25.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: VEPZ01009587.1 Hibiscus syriacus cultivar Beakdansim tig00116965_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6483253

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   

This is table  25  of  29  ( 3457 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)
5487085--5487152	31	2.2	31	89	0	109	17	20	19	42	1.89
5488068--5488092	2	12.5	2	100	0	50	0	52	0	48	1.00
5494126--5494157	13	2.3	15	89	10	50	0	34	0	65	0.93
5496733--5496757	12	2.1	12	100	0	50	28	8	0	64	1.22
5497067--5497132	25	2.7	25	83	2	80	54	0	6	39	1.25
5500173--5500247	27	2.7	27	87	2	87	48	20	12	20	1.80
5500182--5500247	27	2.4	27	92	2	105	46	22	10	19	1.80
5503437--5503560	58	2.1	60	86	3	171	37	19	4	38	1.73
5504321--5504364	22	2.0	21	83	12	54	31	0	2	65	1.05
5505761--5505795	2	18.0	2	94	5	63	51	0	0	48	1.00
5511700--5511820	64	1.9	62	88	8	181	31	14	24	28	1.95
5511720--5511862	64	2.2	65	85	10	188	27	15	25	30	1.96
5511825--5511862	20	1.9	20	94	0	67	18	15	34	31	1.92
5517685--5517724	21	1.9	21	85	10	55	35	10	2	52	1.48
5519481--5519524	21	2.1	21	86	0	61	34	15	40	9	1.79
5525574--5525603	14	2.1	14	93	0	51	0	0	13	86	0.57
5529071--5529226	31	5.0	31	92	1	242	20	18	21	39	1.93
5532884--5532918	18	2.0	17	88	5	52	31	8	11	48	1.69
5533487--5533641	31	5.0	31	90	3	233	19	14	23	43	1.87
5533487--5533641	61	2.5	62	89	4	233	19	14	23	43	1.87
5534245--5534310	29	2.3	30	86	5	91	28	28	24	18	1.98
5552126--5552158	15	2.3	15	89	5	50	33	3	6	57	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5560548--5560582	19	1.9	17	88	11	52	31	25	5	37	1.80
5564020--5564084	2	32.5	2	100	0	130	50	0	0	49	1.00
5564799--5564857	29	2.0	29	83	9	75	55	11	1	30	1.46
5575477--5575925	229	2.0	227	93	0	772	45	7	6	39	1.60
5575991--5576036	20	2.3	19	85	10	65	56	10	17	15	1.67
5576165--5576207	20	2.3	19	88	11	63	51	11	16	20	1.75
5578434--5578498	21	3.1	21	80	6	69	40	15	29	15	1.88
5578532--5578597	33	2.0	33	90	0	105	28	0	48	22	1.51
5580389--5580437	19	2.6	19	93	0	80	30	2	10	57	1.43
5580556--5581924	199	6.9	199	98	0	2627	36	15	16	31	1.90
5580556--5581926	397	3.4	398	98	0	2631	36	15	16	31	1.90
5583385--5583446	18	3.4	18	79	0	79	37	8	35	19	1.81
5583385--5583476	6	15.3	6	80	0	67	36	6	34	21	1.80
5583400--5583480	3	27.0	3	78	0	81	35	4	34	24	1.77
5583388--5583464	36	2.1	36	92	0	127	35	7	35	22	1.83
5583388--5583476	12	7.4	12	81	0	79	35	6	34	22	1.81
5584948--5585656	183	3.9	183	96	0	1283	35	14	16	33	1.89
5588124--5588188	25	2.6	25	77	0	76	36	9	12	41	1.75
5588472--5588517	22	2.1	22	83	0	56	39	8	10	41	1.71
5588540--5588598	23	2.6	23	86	0	82	35	8	20	35	1.83
5588535--5588607	23	3.2	23	78	7	76	34	6	20	38	1.79
5588607--5588648	21	2.1	20	82	8	50	30	11	9	47	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5588876--5588926	25	2.0	25	92	0	84	33	7	19	39	1.81
5589315--5589351	18	2.1	18	89	0	56	32	5	10	51	1.60
5589307--5589353	24	2.0	24	86	0	67	34	4	14	46	1.64
5589610--5589696	39	2.2	39	91	0	147	48	19	13	18	1.81
5590102--5590174	23	3.2	23	84	0	92	34	4	20	41	1.72
5590981--5591023	22	1.9	23	85	4	61	41	11	9	37	1.74
5591926--5592078	75	2.0	75	84	2	200	22	24	17	34	1.96
5601774--5601809	2	18.0	2	100	0	72	50	0	0	50	1.00
5602821--5602877	27	2.1	28	83	3	71	49	1	1	47	1.22
5602840--5602942	53	2.0	50	83	11	127	47	0	1	49	1.19
5603022--5603133	34	3.4	34	71	20	78	52	4	0	41	1.27
5603023--5603095	23	3.1	23	80	5	67	52	2	1	43	1.24
5603137--5603216	28	2.6	31	84	13	96	52	2	0	45	1.14
5603656--5603709	20	2.7	20	80	11	58	53	0	1	44	1.11
5610338--5610367	15	2.1	15	93	6	53	53	0	0	46	1.00
5612445--5612496	21	2.5	21	96	0	95	61	1	0	36	1.07
5613381--5613447	32	2.1	32	82	0	80	41	11	0	46	1.41
5613689--5613817	32	4.0	32	72	9	93	31	10	17	40	1.83
5614816--5614857	2	21.0	2	100	0	84	50	0	0	50	1.00
5615592--5615729	35	3.9	35	89	1	204	18	25	19	36	1.95
5615592--5615735	71	2.0	71	93	0	243	18	25	18	37	1.94
5617517--5617565	20	2.5	20	82	0	71	40	10	12	36	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5618134--5618159	13	2.0	13	100	0	52	38	15	23	23	1.92
5618271--5618328	27	2.1	27	90	0	89	10	1	50	37	1.47
5620953--5621037	31	2.7	32	80	8	95	30	12	0	56	1.37
5620969--5621029	31	1.9	32	90	6	97	34	16	0	49	1.46
5627648--5627704	24	2.4	24	100	0	114	38	10	22	28	1.87
5630793--5630889	3	31.7	3	80	8	106	59	0	2	38	1.09
5632981--5633056	25	3.0	25	83	12	95	52	0	3	43	1.19
5632981--5633069	23	3.5	24	84	10	90	52	0	3	43	1.17
5632982--5633058	23	3.1	24	85	7	93	51	0	3	44	1.19
5635708--5635764	2	28.5	2	100	0	114	50	0	0	49	1.00
5636305--5636347	12	3.5	12	93	3	68	79	0	2	18	0.85
5636311--5636352	17	2.5	17	92	7	68	80	0	0	19	0.70
5639352--5639386	12	3.0	12	87	8	54	20	8	8	62	1.49
5641683--5641954	141	1.9	141	85	1	375	43	19	15	22	1.88
5644434--5644468	12	3.0	12	87	8	54	20	8	8	62	1.49
5650167--5650221	20	2.6	22	80	16	71	16	9	29	45	1.78
5650797--5650885	42	2.2	39	79	16	108	43	13	15	26	1.84
5651910--5651978	31	2.2	31	89	0	111	23	28	20	27	1.99
5670231--5670332	37	2.8	37	87	0	132	42	12	11	33	1.80
5671019--5671053	10	3.6	10	96	3	63	25	0	0	74	0.82
5671018--5671079	18	3.3	18	80	14	65	25	1	0	72	0.94
5672375--5672412	19	2.0	20	89	5	60	7	23	0	68	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5675803--5675852	16	3.3	15	84	15	68	80	6	14	0	0.90
5676471--5676526	22	2.5	22	79	0	67	39	17	8	33	1.81
5677472--5678747	106	12.0	106	93	0	2032	33	25	18	22	1.97
5680022--5680068	23	2.0	23	84	15	62	27	2	0	70	0.99
5680078--5680129	11	4.9	10	80	15	52	40	1	0	57	1.10
5680079--5680126	2	25.5	2	81	12	57	41	2	0	56	1.11
5680336--5680373	17	2.2	18	85	4	51	26	2	0	71	1.00
5680322--5680378	20	2.9	21	76	23	61	28	3	0	68	1.06
5680275--5680378	22	4.6	22	70	24	67	28	3	1	65	1.21
5683498--5683547	25	2.0	25	96	0	91	46	12	6	36	1.66
5684819--5684891	36	2.0	36	84	7	94	49	1	4	45	1.29
5685037--5685074	20	1.9	20	88	0	58	21	26	10	42	1.85
5692338--5692381	23	1.9	23	100	0	88	22	9	25	43	1.82
5693250--5693320	35	2.0	35	100	0	142	43	8	16	30	1.78
5694168--5694199	3	10.7	3	100	0	64	31	0	0	68	0.90
5703587--5703657	21	3.7	21	66	26	57	32	5	19	42	1.75
5703592--5703703	35	3.1	36	83	6	138	34	5	18	41	1.74
5708175--5708292	35	3.3	36	85	5	150	33	4	18	43	1.70
5711036--5711093	25	2.3	25	79	8	64	62	0	1	36	1.06
5712914--5712975	2	31.0	2	100	0	124	50	0	0	50	1.00
5719841--5719910	34	2.1	32	86	5	95	22	30	15	31	1.95
5720125--5720164	21	1.9	22	90	10	66	12	10	40	37	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5720192--5720234	21	2.0	21	95	0	77	27	27	20	23	1.99
5720270--5720309	21	1.9	21	100	0	80	17	25	45	12	1.83
5720347--5720423	21	3.9	21	75	20	85	14	27	33	24	1.94
5720369--5720397	15	1.9	15	100	0	58	13	20	34	31	1.92
5722406--5722475	33	2.2	33	86	2	97	22	30	15	31	1.95
5722687--5722726	21	1.9	22	90	10	66	12	10	40	37	1.77
5722754--5722797	22	2.0	22	95	4	81	29	29	18	22	1.97
5722890--5722919	15	2.0	15	100	0	60	13	26	33	26	1.93
5722905--5722947	22	2.0	22	90	0	68	13	27	37	20	1.91
5723037--5723096	29	2.0	29	87	6	84	41	20	6	31	1.78

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