genome.fa.s8488.2.7.7.80.10.50.1000.22.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: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

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   

This is table  22  of  54  ( 6450 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)
5487017--5487118	48	2.1	47	89	1	150	47	2	2	47	1.32
5488028--5488323	80	3.7	80	87	2	396	23	21	24	30	1.99
5488028--5488323	161	1.8	161	88	1	450	23	21	24	30	1.99
5488357--5488914	84	6.7	84	76	4	484	25	18	23	31	1.97
5488357--5488914	168	3.3	168	88	1	791	25	18	23	31	1.97
5490097--5490264	90	1.9	90	89	0	264	31	17	19	31	1.95
5496111--5496240	38	3.4	38	85	1	170	32	28	18	20	1.96
5501482--5501763	38	7.2	38	80	8	260	28	30	22	19	1.98
5501576--5501667	47	2.0	47	91	0	148	20	35	29	14	1.92
5501546--5501705	85	1.9	85	85	0	221	25	32	25	17	1.97
5501509--5501742	123	1.9	123	84	0	315	26	31	23	18	1.98
5502356--5502395	21	1.9	21	100	0	80	35	5	10	50	1.58
5504436--5504497	31	2.0	30	81	9	72	32	11	3	53	1.53
5506497--5506652	64	2.4	65	86	5	210	28	20	22	28	1.98
5506990--5507017	13	2.2	13	100	0	56	42	0	7	50	1.30
5510093--5510157	31	2.1	31	82	8	78	20	40	16	23	1.92
5511221--5511272	26	2.0	27	85	11	72	38	23	15	23	1.92
5512416--5512459	23	1.9	23	90	0	70	22	15	15	45	1.85
5514459--5514501	13	3.3	13	90	0	68	20	34	18	25	1.96
5521145--5521200	25	2.2	25	90	0	85	51	10	12	25	1.71
5525998--5526058	25	2.4	25	89	5	88	52	9	13	24	1.70
5535250--5535381	28	4.7	28	78	0	138	43	21	21	12	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5535408--5535473	29	2.3	29	89	2	98	39	16	21	22	1.92
5535417--5535474	29	2.0	29	96	0	107	37	15	24	22	1.93
5543888--5543983	44	2.2	44	83	7	115	11	1	27	60	1.38
5543937--5543993	30	1.9	30	88	0	87	12	0	26	61	1.31
5553187--5553219	14	2.5	14	90	9	52	21	3	12	63	1.41
5554449--5554594	28	5.2	28	74	0	121	43	19	21	15	1.88
5554484--5554593	56	2.0	56	83	0	139	42	18	24	14	1.87
5554620--5554689	29	2.4	29	90	2	106	41	15	22	20	1.90
5557516--5557553	20	1.9	20	89	10	60	47	10	21	21	1.80
5557709--5557779	36	2.0	36	83	10	92	46	2	1	49	1.25
5561097--5561156	18	3.2	19	77	18	72	25	6	15	53	1.65
5561106--5561164	18	3.3	18	77	17	77	25	8	10	55	1.61
5561096--5561164	36	1.9	36	96	0	129	24	8	13	53	1.67
5567324--5567379	20	2.8	20	88	0	85	28	33	19	17	1.95
5573166--5573203	20	1.9	20	100	0	76	23	36	23	15	1.94
5573609--5573651	20	2.1	21	87	8	63	23	0	13	62	1.31
5573606--5573653	19	2.5	19	80	12	62	22	0	16	60	1.36
5596468--5596520	17	3.1	17	94	0	97	37	20	18	22	1.94
5598626--5598706	27	3.3	27	65	22	77	19	22	14	43	1.88
5598571--5598740	47	3.6	47	87	4	243	22	21	11	43	1.85
5599107--5599304	94	2.1	95	89	4	303	26	23	15	34	1.95
5605405--5605552	27	6.0	27	71	20	144	22	24	10	41	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5605357--5605492	47	2.8	46	86	6	175	23	24	9	42	1.84
5605385--5605465	20	3.7	20	70	20	63	20	28	9	40	1.85
5605405--5605552	74	2.0	74	94	0	260	22	24	10	41	1.86
5605986--5606041	22	2.7	21	72	8	60	26	19	16	37	1.92
5605907--5606114	95	2.2	95	88	2	303	25	21	15	37	1.93
5612864--5612919	25	2.2	25	90	6	87	51	10	12	25	1.71
5613630--5613662	14	2.4	14	100	0	66	9	18	15	57	1.63
5627517--5627831	158	2.0	157	99	0	621	38	12	13	35	1.82
5630001--5630061	20	2.9	20	85	7	59	24	32	26	16	1.96
5632672--5632708	19	1.9	19	94	0	65	21	32	24	21	1.98
5635286--5635717	191	2.3	193	80	5	473	39	12	10	37	1.77
5646967--5647089	54	2.3	52	87	5	167	29	10	9	50	1.69
5649371--5649408	18	2.1	18	90	0	58	36	5	2	55	1.37
5657015--5657049	17	2.1	17	88	0	52	14	0	22	62	1.31
5657238--5657264	2	13.5	2	100	0	54	51	48	0	0	1.00
5661937--5662042	45	2.4	45	82	6	126	31	17	18	32	1.95
5668123--5668164	21	2.1	19	83	16	50	40	9	2	47	1.49
5670066--5670100	18	2.0	18	88	5	54	37	2	17	42	1.64
5670080--5670224	65	2.2	65	83	6	170	29	16	21	32	1.95
5671877--5672036	65	2.5	65	84	7	202	29	18	22	30	1.97
5674692--5674773	23	3.6	23	75	11	89	24	24	26	24	2.00
5677523--5677552	16	1.9	15	93	6	51	40	20	0	40	1.52
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5683333--5683366	17	2.0	17	88	0	50	38	8	11	41	1.73
5684037--5684091	13	4.2	13	75	13	58	49	12	3	34	1.59
5684077--5684169	33	2.8	33	95	1	161	45	13	6	34	1.70
5688953--5688995	19	2.3	19	100	0	86	44	0	25	30	1.55
5692346--5692385	12	3.3	12	80	13	55	17	27	32	22	1.96
5695316--5695496	47	3.8	47	85	5	240	25	21	7	44	1.79
5695360--5695556	27	8.1	26	65	26	112	24	22	9	43	1.82
5695409--5695556	74	2.0	74	89	2	226	22	22	9	44	1.82
5695919--5696119	95	2.1	95	85	1	278	25	22	15	36	1.94
5701450--5701480	15	2.0	16	93	6	55	58	16	0	25	1.38
5702262--5702417	27	6.3	27	71	19	142	21	23	11	42	1.85
5702212--5702389	47	3.8	47	89	2	241	23	21	10	44	1.83
5702208--5702389	94	1.9	96	89	4	289	23	22	10	43	1.83
5702283--5702362	20	3.7	20	71	20	70	20	27	11	41	1.86
5702404--5702457	20	2.7	20	97	0	99	18	31	12	37	1.89
5703007--5703056	20	2.5	20	100	0	100	26	28	16	30	1.96
5709147--5709264	47	2.5	47	84	2	157	27	20	9	43	1.82
5711622--5711649	11	2.5	11	100	0	56	17	0	0	82	0.68
5714121--5714174	21	2.6	20	80	8	63	24	22	20	33	1.97
5714158--5714196	20	2.0	20	94	0	69	38	23	20	17	1.93
5714382--5714457	22	3.5	22	83	0	80	25	36	15	22	1.93
5714829--5714883	20	2.8	20	91	0	83	10	16	23	49	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5714848--5714891	20	2.2	20	87	0	61	13	13	20	52	1.74
5716768--5717023	20	13.5	20	80	13	283	42	20	18	18	1.90
5716768--5717061	40	7.9	40	78	13	283	42	20	19	18	1.90
5717067--5717154	20	4.4	20	91	0	131	18	17	25	39	1.91
5717661--5717751	41	2.2	40	82	5	103	24	35	18	21	1.96
5720687--5720740	20	2.7	20	94	0	99	27	18	24	29	1.98
5720686--5720753	20	3.4	20	87	0	91	26	19	23	30	1.98
5720740--5720872	20	6.7	20	92	0	230	20	20	18	40	1.92
5720727--5720853	40	3.2	40	76	16	138	20	19	19	40	1.92
5720862--5720914	21	2.5	21	93	0	88	35	16	24	22	1.95
5725761--5725816	25	2.2	25	93	0	94	51	12	12	23	1.73
5728426--5728656	80	2.9	82	81	11	234	29	18	16	35	1.93
5728454--5728965	81	6.3	82	85	6	587	27	19	17	34	1.95
5728444--5728971	207	2.6	200	84	3	652	28	19	17	34	1.95
5728454--5728981	41	13.0	41	83	5	601	27	19	18	34	1.95
5729121--5729341	110	2.0	110	92	6	369	45	8	9	37	1.67
5730381--5730628	43	5.8	43	85	2	295	25	24	18	31	1.98
5731434--5731479	17	2.8	17	75	15	51	56	0	6	36	1.25
5743958--5744225	134	2.0	134	100	0	536	41	11	14	32	1.82
5744184--5745145	199	4.8	200	90	1	1491	40	12	14	32	1.84
5744184--5745134	400	2.4	398	91	1	1510	40	12	14	32	1.83
5745108--5745151	21	2.0	22	86	4	63	29	11	9	50	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5745437--5745507	36	2.0	36	85	0	97	29	30	5	33	1.81
5745447--5745507	18	3.4	18	72	17	54	24	31	4	39	1.77
5749248--5749433	93	2.0	93	100	0	372	30	16	18	35	1.92
5754676--5754719	22	2.0	22	91	4	72	29	9	9	52	1.64
5758741--5758793	24	2.2	24	82	0	61	37	1	11	49	1.50
5762388--5762419	16	2.0	16	93	0	55	65	0	0	34	0.93
5767671--5767699	3	9.7	3	100	0	58	34	0	0	65	0.93
5769055--5769624	36	15.3	36	65	11	119	31	18	11	39	1.86
5768974--5769708	75	9.8	75	88	1	990	31	17	11	40	1.85
5769246--5769358	37	3.0	37	67	14	88	37	16	7	38	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   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