genome.fa.s1129.2.7.7.80.10.50.1000.1.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: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  21326069

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   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   

This is table  1  of  89  ( 10573 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)
187--532	183	1.9	183	95	0	629	30	21	21	26	1.98
4487--4537	21	2.4	21	84	12	61	68	0	7	23	1.15
4776--4981	74	2.7	74	85	5	263	23	31	24	20	1.98
10655--10732	20	3.7	20	72	11	57	23	38	21	16	1.93
12635--12668	17	2.0	17	94	0	59	11	0	32	55	1.36
13257--13460	72	2.8	74	83	6	234	24	29	24	22	1.99
14298--14324	2	13.5	2	100	0	54	51	0	0	48	1.00
16376--16526	45	3.4	45	84	4	182	27	31	21	19	1.97
17539--17617	41	1.9	41	84	5	106	27	17	17	36	1.93
17627--17694	31	2.2	31	100	0	136	20	20	25	33	1.97
17644--17695	15	3.4	15	70	15	52	17	21	26	34	1.95
19315--19395	27	3.0	26	82	10	85	41	4	0	53	1.22
19314--19395	24	3.2	25	81	8	85	42	4	0	52	1.23
19386--19424	20	1.9	21	85	15	55	53	2	2	41	1.28
19617--19667	17	3.2	16	81	8	59	21	0	1	76	0.88
19617--19667	8	6.4	8	82	6	59	21	0	1	76	0.88
20666--20727	27	2.3	27	80	8	63	67	1	1	29	1.09
20823--20848	6	4.3	6	100	0	52	84	0	0	15	0.62
24782--25139	54	6.6	54	85	0	459	36	20	15	26	1.93
31676--31862	54	3.5	53	91	2	293	35	21	16	26	1.94
40321--40360	21	1.9	21	94	0	71	27	22	25	25	2.00
43747--43843	32	3.1	32	77	8	117	29	16	17	36	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
43749--43841	31	3.0	31	79	7	107	31	17	18	33	1.94
44599--44632	11	3.1	11	82	0	50	26	14	23	35	1.94
47209--47234	13	2.0	13	100	0	52	23	23	38	15	1.92
49048--49104	21	2.6	23	83	8	73	28	17	14	40	1.88
52589--52623	16	2.2	16	89	0	52	51	0	0	48	1.00
55943--56017	30	2.6	29	87	8	107	44	8	13	34	1.73
55945--56017	15	4.9	15	75	8	69	45	8	13	32	1.73
56027--56061	14	2.5	14	90	0	52	34	8	20	37	1.83
56413--56507	26	3.6	25	75	15	77	53	2	0	44	1.12
56391--56614	53	4.3	54	74	15	143	50	0	1	47	1.18
56444--56505	25	2.5	24	80	12	72	56	0	0	43	0.99
63891--63927	6	6.0	6	87	6	56	13	2	2	81	0.92
63891--63928	13	3.0	13	80	7	51	13	2	2	81	0.90
63891--63927	19	2.0	19	89	5	58	13	2	2	81	0.92
73427--73492	31	2.1	33	86	13	95	42	37	7	12	1.71
77023--77070	23	2.1	23	84	7	62	27	2	12	58	1.46
99153--99186	16	2.2	15	89	5	50	61	0	32	5	1.20
104685--104765	32	2.5	32	95	4	144	38	19	7	34	1.80
109063--109887	416	2.0	417	93	0	1418	27	22	18	32	1.97
111586--111624	21	1.9	20	84	5	51	28	15	20	35	1.93
120260--120294	3	11.7	3	93	0	61	65	0	2	31	1.07
121006--121043	20	1.9	20	88	0	58	71	2	2	23	1.12
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
139013--139037	12	2.1	12	100	0	50	48	8	0	44	1.32
159653--159707	21	2.6	22	77	16	62	32	18	18	30	1.95
159675--159726	21	2.5	21	84	12	63	30	17	23	28	1.97
162011--162094	45	1.9	43	80	4	96	40	16	25	17	1.90
163300--163657	133	2.7	133	80	5	386	31	19	17	31	1.95
163846--163896	5	9.6	5	79	12	57	23	1	0	74	0.92
163844--163896	11	4.4	11	76	17	52	24	1	0	73	0.93
163835--163895	27	2.3	26	88	2	86	26	1	0	72	0.94
170308--170350	18	2.4	18	84	7	61	44	2	0	53	1.13
171037--171361	2	175.5	2	75	20	298	43	1	3	52	1.25
172785--172840	13	4.7	13	73	24	52	39	0	5	55	1.23
172790--172861	7	9.9	7	77	16	58	36	0	4	59	1.17
172787--172861	16	4.6	16	75	15	73	36	0	4	60	1.16
177686--177720	19	1.9	19	88	11	56	40	2	0	57	1.14
177732--177771	17	2.4	17	83	8	55	47	2	0	50	1.14
178447--178707	2	140.5	2	73	20	212	43	1	3	51	1.26
178447--178705	27	10.0	26	77	15	229	43	1	3	51	1.26
178447--178709	23	11.1	24	72	21	184	43	1	3	51	1.26
178444--178708	69	3.9	67	75	16	226	43	1	3	51	1.27
178913--178938	13	2.0	13	100	0	52	69	0	0	30	0.89
178931--178966	18	1.9	18	88	5	54	75	5	5	13	1.17
180157--180212	8	7.9	7	80	13	53	37	0	5	57	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
180154--180206	16	3.2	16	83	5	70	37	0	3	58	1.16
180154--180225	26	2.7	27	79	10	78	36	0	4	59	1.17
180159--180241	42	1.9	45	85	11	120	33	2	3	60	1.27
180154--180225	13	5.5	13	75	9	67	36	0	4	59	1.17
184587--184669	29	2.8	29	92	1	139	43	9	14	32	1.78
189278--189360	29	2.8	29	92	1	139	43	9	14	32	1.78
190161--190203	18	2.4	18	84	7	61	44	2	0	53	1.13
190879--191179	2	162.5	2	72	22	232	42	0	3	53	1.24
190880--191179	51	5.8	51	74	18	255	42	1	3	53	1.24
191386--191411	13	2.0	13	100	0	52	69	0	0	30	0.89
191404--191439	18	1.9	18	88	5	54	75	5	5	13	1.17
192625--192680	13	4.7	13	73	24	52	39	0	5	55	1.23
192630--192696	7	9.1	7	77	18	57	37	0	4	58	1.19
193043--193286	129	1.9	130	81	3	294	34	6	15	43	1.73
194462--194493	14	2.3	14	94	0	55	31	0	0	68	0.90
194473--194538	5	12.6	5	81	9	62	18	6	1	74	1.10
198451--198493	21	2.2	20	83	8	52	46	2	2	48	1.27
198850--198881	14	2.3	15	89	10	50	65	0	0	34	0.93
198850--198882	13	2.4	14	90	10	50	66	0	0	33	0.92
200177--200237	5	11.0	5	78	15	50	72	0	0	27	0.85
200170--200226	14	4.1	14	71	13	55	71	0	0	28	0.86
200174--200271	3	34.0	3	68	22	59	67	0	2	30	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
200185--200274	27	3.3	27	76	17	78	65	0	2	32	1.05
200745--200806	19	3.2	20	66	22	51	17	27	8	46	1.76
200868--201318	122	3.8	122	84	8	565	25	18	15	40	1.90
200649--201120	264	1.8	260	90	5	729	24	19	15	39	1.91
201101--201338	113	2.1	113	88	2	345	27	17	17	37	1.92
201898--201943	20	2.3	20	100	0	92	26	23	17	32	1.97
202199--202240	18	2.4	17	92	8	66	54	4	4	35	1.42
210462--210493	14	2.3	15	89	10	50	65	0	0	34	0.93
210462--210494	13	2.4	14	90	10	50	66	0	0	33	0.92
211443--211526	3	28.3	3	68	20	52	61	0	2	35	1.09
211454--211527	14	5.4	14	69	20	50	60	0	2	36	1.11
211444--211523	26	3.0	26	82	12	76	61	0	2	36	1.10
215152--215226	19	3.9	19	98	0	141	33	32	14	20	1.92
215272--215328	21	2.7	21	86	0	87	19	19	17	43	1.88
215271--215345	21	3.6	21	81	0	78	26	18	18	36	1.94
215354--215439	20	4.3	20	77	14	97	30	29	18	22	1.97
216488--216522	13	2.6	13	90	4	52	54	20	20	5	1.64
218519--218543	11	2.3	11	100	0	50	60	16	16	8	1.58
218850--218998	20	7.8	20	79	8	157	34	19	19	26	1.96
218858--219049	74	2.6	74	81	2	217	34	20	19	26	1.96
219039--219116	20	3.9	20	81	6	86	15	16	23	44	1.85
220628--220745	21	5.6	21	74	0	101	24	18	34	22	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
220641--220746	42	2.5	42	80	3	124	26	18	34	19	1.95
222678--222744	31	2.2	31	88	0	98	37	14	16	31	1.89
223432--223473	22	1.9	22	85	9	59	50	4	14	30	1.63
223432--223479	22	2.1	22	81	11	53	43	8	12	35	1.73
233448--233501	28	1.9	28	82	14	67	20	3	22	53	1.61
233679--234000	44	7.4	44	87	1	425	30	24	16	28	1.97
233642--234056	44	9.4	44	83	5	185	32	23	16	27	1.96
233758--234060	132	2.3	130	79	8	317	33	24	16	26	1.96
234021--234133	43	2.6	43	81	0	127	30	21	17	30	1.96
237205--237236	11	2.9	11	90	0	55	28	25	25	21	1.99

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   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89