genome.fa.s8027.2.7.7.80.10.50.1000.1.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: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7662336

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   

This is table  1  of  38  ( 4505 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)
80--167	37	2.4	36	86	7	106	34	22	17	26	1.96
2054--2125	31	2.3	31	95	0	135	34	11	6	47	1.66
4800--4863	29	2.2	30	94	2	112	39	15	4	40	1.68
6449--6502	19	3.0	18	83	8	74	68	0	1	29	1.00
7812--8335	257	2.0	257	95	0	940	41	12	20	24	1.87
8817--8859	19	2.3	19	91	0	68	76	0	9	13	1.01
11041--11337	134	2.2	135	79	8	313	31	14	14	39	1.86
11041--11409	135	2.8	132	77	8	329	31	14	15	37	1.88
11867--11984	35	3.4	35	71	17	102	38	10	16	33	1.83
11950--12031	38	2.2	37	84	6	103	31	7	19	41	1.79
11963--12041	38	2.1	38	83	2	97	37	10	18	32	1.85
14973--15013	21	1.9	22	90	5	66	56	17	17	9	1.67
16772--16821	25	2.0	25	85	14	68	60	10	6	24	1.51
18420--18458	17	2.4	17	82	4	53	10	12	17	58	1.61
25329--25369	3	13.7	3	100	0	82	31	0	0	68	0.90
25914--25970	29	1.9	30	85	3	80	54	10	17	17	1.70
27789--28621	4	209.8	4	98	1	1624	25	24	0	50	1.50
33288--33341	23	2.3	23	90	0	90	18	35	11	35	1.86
41930--41977	21	2.2	21	82	10	53	56	12	14	16	1.68
44691--44936	132	1.9	132	85	1	341	29	19	19	32	1.96
47193--47238	17	2.8	16	87	9	58	80	4	6	8	1.01
47241--47265	13	1.9	13	100	0	50	72	0	4	24	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
47378--47481	51	2.1	50	82	8	122	59	8	11	20	1.58
49729--49771	20	2.0	21	86	13	70	41	18	11	27	1.85
49734--49771	20	1.9	20	100	0	76	39	21	10	28	1.86
49736--49779	20	2.2	20	91	0	70	38	20	9	31	1.84
50138--50201	33	1.9	33	81	12	78	32	14	28	25	1.94
52258--52310	20	2.7	20	78	0	61	37	11	18	32	1.87
53649--53835	36	5.1	36	74	12	157	41	10	14	34	1.79
53670--53835	37	4.5	37	71	11	119	40	10	14	34	1.81
53645--53836	73	2.6	74	81	7	221	41	10	14	33	1.81
54214--54307	37	2.5	38	84	1	118	38	10	18	32	1.85
59501--59902	163	2.5	163	87	2	556	29	20	13	35	1.92
61975--62179	71	2.9	71	86	1	259	24	17	16	41	1.89
66818--66851	15	2.3	15	89	0	50	38	11	5	44	1.65
76381--76433	23	2.3	23	87	9	74	52	1	1	43	1.23
77387--77457	10	6.0	12	82	14	69	45	0	1	53	1.09
77398--77451	2	28.5	2	89	10	87	48	0	0	51	1.00
77398--77469	12	6.3	11	90	9	53	44	0	4	51	1.20
77685--77923	118	2.0	118	98	0	460	43	9	12	34	1.74
82876--82938	26	2.6	22	80	20	81	52	12	3	31	1.55
82881--82932	26	2.0	26	100	0	104	53	11	3	30	1.54
85330--85360	16	1.9	16	93	0	53	38	0	32	29	1.57
86072--86152	42	2.0	42	85	2	110	37	19	16	27	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
86148--86173	13	2.0	13	100	0	52	30	15	23	30	1.95
86175--86272	36	2.7	36	91	0	151	22	19	19	38	1.93
86281--86377	42	2.3	41	80	3	113	31	22	19	25	1.98
86433--86899	225	2.0	226	84	5	593	31	18	16	33	1.93
100370--100424	27	2.1	26	80	16	60	25	9	7	58	1.55
103597--103650	20	2.7	20	77	11	74	27	31	14	25	1.95
103781--103831	22	2.3	22	96	0	93	25	43	9	21	1.83
104115--104153	20	2.0	20	84	0	51	15	17	20	46	1.84
106117--106152	4	8.5	4	88	11	54	27	0	0	72	0.85
107762--107902	66	2.2	64	80	9	164	31	2	17	49	1.58
108182--108265	39	2.2	39	95	0	150	17	15	19	47	1.83
108539--108574	18	2.0	18	88	0	54	50	11	5	33	1.61
109094--109118	12	2.1	12	100	0	50	0	28	0	72	0.86
109293--109346	24	2.2	24	86	0	72	40	16	18	24	1.90
109305--109351	24	2.0	24	91	0	76	34	14	21	29	1.93
109313--109360	24	2.0	24	83	0	60	37	18	18	25	1.94
110239--110307	19	3.6	19	80	9	77	26	14	23	36	1.93
110355--110426	19	3.8	18	72	17	56	26	13	29	30	1.94
120680--120767	31	2.8	31	100	0	176	36	10	5	47	1.61
120987--121070	42	2.0	42	97	0	159	40	22	20	16	1.91
123284--123348	29	2.2	30	91	2	105	35	13	9	41	1.77
124930--124983	19	3.0	18	83	8	74	68	0	1	29	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
126266--126784	257	2.0	253	93	1	878	41	13	20	24	1.88
127422--127461	18	2.2	19	90	4	64	80	0	7	12	0.91
129581--130003	132	3.2	131	77	9	301	32	14	15	37	1.88
130415--130503	35	2.7	32	74	14	90	35	11	19	33	1.87
130472--130553	38	2.2	37	84	6	103	31	7	19	41	1.79
130485--130563	38	2.1	38	83	2	97	37	10	18	32	1.85
133489--133529	21	1.9	22	90	5	66	56	17	17	9	1.67
135288--135337	25	2.0	25	85	14	68	60	10	6	24	1.51
136939--136977	17	2.4	17	82	4	53	10	12	17	58	1.61
144416--144472	29	1.9	30	85	3	80	54	10	17	17	1.70
146288--147759	4	373.5	4	96	2	2772	25	24	0	49	1.50
152697--152773	35	2.2	34	80	11	84	64	6	7	20	1.42
153713--154021	159	1.9	159	83	1	395	27	19	17	35	1.94
161235--161286	26	2.0	26	96	0	95	48	17	19	15	1.82
163219--163272	24	2.3	24	96	3	101	59	20	0	20	1.38
164413--164474	2	31.0	2	100	0	124	50	0	0	50	1.00
165183--165231	19	2.5	20	83	3	55	16	4	0	79	0.88
167962--168006	23	2.0	23	82	8	56	31	4	0	64	1.13
169541--169582	13	3.2	13	80	16	50	30	0	9	59	1.29
171559--171638	3	26.7	3	82	5	99	38	0	0	61	0.96
174418--174594	88	2.0	88	100	0	354	38	14	23	23	1.92
176430--176476	25	1.9	25	86	4	69	29	31	14	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
179646--179684	10	3.8	10	82	3	51	82	2	0	15	0.79
180706--180792	43	2.0	43	95	0	156	26	17	21	34	1.95
180985--181035	10	4.9	10	81	13	50	78	1	3	15	0.99
180984--181035	16	3.3	15	76	10	50	78	1	3	15	0.98
181147--181232	28	3.3	26	76	18	90	48	6	0	44	1.29
181163--181218	22	2.5	22	83	11	78	48	7	0	44	1.30
182693--182748	22	2.6	20	81	13	58	76	5	1	16	1.05
182693--182760	22	3.1	21	75	21	52	73	7	2	16	1.18
186125--186153	12	2.4	12	100	0	58	41	58	0	0	0.98
186091--186196	55	1.9	55	96	0	194	36	39	8	15	1.77
186313--186431	24	5.0	24	87	4	168	38	20	15	26	1.91
186313--186449	72	1.9	72	83	5	179	40	19	14	25	1.90
188941--189001	31	2.0	31	90	0	95	21	16	44	18	1.87
191118--191212	43	2.2	43	94	3	165	36	35	9	17	1.83
191314--191413	24	4.2	24	88	0	92	43	19	11	27	1.84
191331--191430	24	4.2	24	93	0	155	40	20	13	27	1.89
193902--193996	43	2.2	43	96	0	172	36	36	9	16	1.82
194112--194230	24	5.0	24	88	4	177	38	20	14	26	1.91
196752--196792	18	2.3	18	87	8	57	17	14	48	19	1.81
196748--196808	31	2.0	31	93	0	104	19	16	45	18	1.85
210317--210965	58	11.3	58	90	2	979	32	19	11	35	1.88
212869--212900	2	16.0	2	100	0	64	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
217956--218636	58	11.8	58	91	0	1024	33	18	12	35	1.89
227416--227868	154	2.9	154	92	0	719	19	11	31	36	1.88
229104--229140	18	2.1	18	94	0	65	70	5	10	13	1.32
231002--231038	20	1.9	19	89	10	58	45	5	24	24	1.74
231976--232007	16	2.0	16	93	0	55	75	6	9	9	1.20
234404--234448	6	8.0	6	87	9	60	82	0	2	15	0.77
234580--234653	22	3.3	22	88	3	112	44	6	1	47	1.38
234573--234653	23	3.5	23	88	5	119	44	6	1	48	1.35
240477--240529	20	2.7	20	82	5	63	43	24	18	13	1.86
240495--240740	60	4.0	62	78	9	179	38	23	17	21	1.93

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