genome.fa.s8122.2.7.7.80.10.50.1000.1.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: VEPZ01008122.1 Hibiscus syriacus cultivar Beakdansim tig00110676_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2511854

Tables:   1   2   3   4   5   6   7   8   

This is table  1  of  8  ( 956 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)
317--363	6	8.2	6	90	9	80	34	48	17	0	1.47
317--363	22	2.0	22	92	8	76	34	48	17	0	1.47
6185--6248	5	12.8	5	94	0	92	20	35	40	3	1.68
11076--11190	57	2.0	57	100	0	230	22	22	3	51	1.63
21434--21466	2	16.0	2	93	6	57	48	0	3	48	1.17
21539--21569	16	1.9	16	93	0	53	54	0	3	41	1.16
24872--24927	24	2.3	24	93	0	94	32	17	16	33	1.92
27718--27763	24	1.9	24	82	8	58	30	0	50	19	1.48
27900--27927	4	7.0	4	100	0	56	25	0	0	75	0.81
32663--32721	24	2.5	23	81	10	66	33	0	1	64	1.04
32770--32858	33	2.7	33	84	5	126	41	16	12	29	1.85
38802--38836	16	2.1	17	94	5	63	34	25	8	31	1.86
51977--52049	29	2.5	30	76	10	78	45	8	15	31	1.75
52646--52680	18	2.0	18	88	5	54	22	14	0	62	1.31
64627--64688	31	2.0	31	100	0	124	45	29	3	22	1.68
69814--69966	62	2.5	62	84	6	186	25	20	18	34	1.96
72586--72679	30	3.1	30	75	6	91	35	21	17	26	1.95
72813--72848	17	2.0	19	89	10	58	38	11	5	44	1.63
73356--73468	59	1.9	58	82	10	140	26	16	17	38	1.91
75884--75957	13	5.3	13	81	15	94	16	47	21	14	1.82
75880--75951	31	2.3	31	97	0	135	16	50	20	12	1.78
75897--75938	18	2.3	18	95	0	75	16	50	21	11	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
75946--75979	15	2.3	15	94	0	59	17	35	23	23	1.95
77262--77297	18	2.0	18	88	0	54	52	0	16	30	1.44
78443--78516	23	3.2	23	83	9	96	24	17	21	36	1.95
78449--78523	24	3.2	24	88	1	116	25	17	21	36	1.95
80713--80767	18	3.3	18	78	19	66	16	49	21	12	1.79
80696--80767	31	2.4	28	78	19	81	16	50	20	12	1.78
80696--80754	26	2.5	24	84	15	86	16	50	22	10	1.75
80713--80773	31	2.0	31	96	0	113	16	47	21	14	1.82
80700--80749	13	3.8	13	100	0	100	16	48	24	12	1.79
80762--80795	15	2.3	15	94	0	59	17	35	23	23	1.95
82081--82116	18	2.0	18	88	0	54	52	0	16	30	1.44
83262--83335	23	3.2	23	83	9	96	24	17	21	36	1.95
83268--83342	24	3.2	24	88	1	116	25	17	21	36	1.95
90467--90502	13	2.8	13	100	0	72	16	50	16	16	1.79
90462--90509	13	2.9	17	71	28	50	14	50	18	16	1.79
92998--93104	24	4.5	24	73	0	88	22	12	16	48	1.79
93271--93305	2	17.5	2	100	0	70	48	0	0	51	1.00
96362--96400	19	2.1	19	85	4	53	56	0	12	30	1.37
96486--96521	17	2.1	17	89	0	54	30	0	0	69	0.89
108186--108211	8	3.2	8	100	0	52	11	0	15	73	1.11
114387--114473	30	3.0	30	83	3	79	33	14	14	36	1.88
114404--114473	30	2.3	30	90	0	113	30	12	18	38	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
121728--121778	23	2.2	23	100	0	102	29	11	19	39	1.87
130436--130702	133	2.0	132	98	0	516	35	13	18	32	1.90
132650--132683	16	2.1	17	88	5	52	35	0	0	64	0.94
159732--159822	27	3.5	24	81	16	103	32	16	15	35	1.90
174445--174838	83	4.8	82	81	5	364	34	13	18	33	1.90
176652--176706	24	2.3	24	80	0	65	16	34	5	43	1.71
178618--178647	15	2.0	15	93	0	51	46	10	0	43	1.37
178661--178690	14	2.1	14	93	0	51	60	6	0	33	1.23
179345--179830	245	2.0	247	90	0	769	24	17	30	27	1.97
184939--184970	16	2.0	16	93	0	55	40	12	28	18	1.87
185370--185395	12	2.2	12	100	0	52	46	11	0	42	1.40
192341--192385	23	2.0	23	81	0	54	26	13	8	51	1.70
192632--192672	18	2.4	18	88	8	59	24	2	12	60	1.43
200912--201174	42	6.2	43	79	6	216	49	4	21	25	1.67
200927--201170	86	2.9	84	78	10	228	50	4	20	24	1.67
210458--210502	20	2.2	20	96	0	81	26	24	13	35	1.92
212944--212985	2	21.0	2	100	0	84	50	0	0	50	1.00
213427--213478	23	2.3	23	79	0	68	34	15	9	40	1.80
213744--213788	23	2.0	23	90	0	72	37	22	6	33	1.80
213284--213813	158	3.4	158	89	1	774	33	13	11	41	1.81
217573--217608	3	12.0	3	100	0	72	33	33	0	33	1.58
217699--217738	21	1.9	21	94	0	71	10	42	10	37	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
219125--219164	14	2.9	14	100	0	80	57	0	7	35	1.27
232017--232044	9	3.1	9	100	0	56	78	0	0	21	0.75
232751--232806	25	2.2	25	93	0	103	25	23	14	37	1.92
235361--235406	2	23.0	2	90	0	74	50	4	0	45	1.21
248099--248190	31	3.0	31	88	3	123	33	3	14	48	1.59
255982--256032	26	2.0	25	88	3	75	41	5	0	52	1.25
255963--256033	25	3.0	23	80	13	81	42	5	1	50	1.34
255967--256032	24	2.6	25	81	11	73	39	6	1	53	1.35
268299--268371	24	3.0	24	88	4	67	10	15	24	49	1.76
268309--268364	14	4.3	14	82	17	75	8	14	25	51	1.70
268310--268384	24	3.1	23	90	3	96	12	12	21	54	1.69
269114--269180	16	4.3	16	90	3	93	10	8	19	61	1.54
269112--269172	32	1.9	32	93	0	104	8	11	22	57	1.60
269211--269243	16	2.1	16	100	0	66	6	12	24	57	1.57
269140--269271	71	1.9	71	98	0	255	28	11	16	43	1.82
271761--271804	2	22.0	2	100	0	88	50	0	0	50	1.00
276135--276304	90	1.9	88	93	2	295	38	10	6	44	1.65
277348--277375	14	2.0	14	100	0	56	50	7	14	28	1.69
281953--282010	2	29.0	2	100	0	116	50	0	0	50	1.00
282854--283095	83	2.9	83	79	0	259	31	15	19	32	1.94
291653--291706	12	4.4	12	83	4	72	64	0	1	33	1.04
291653--291706	25	2.2	24	93	3	90	64	0	1	33	1.04
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
299049--299104	28	2.0	28	100	0	112	39	21	10	28	1.87
303845--304045	103	2.0	103	88	2	305	40	17	11	30	1.85
305308--305359	18	2.9	18	77	11	61	23	11	28	36	1.90
305906--305936	16	1.9	16	93	0	53	54	16	9	19	1.68
306398--306438	22	1.9	21	90	5	64	26	0	2	70	0.99
311889--311938	25	2.0	25	88	7	75	34	0	0	66	0.92
316356--316395	18	2.2	19	86	4	55	20	0	7	72	1.08
322398--322429	2	16.0	2	100	0	64	50	0	0	50	1.00
324718--324757	21	2.0	21	85	14	57	45	0	0	55	0.99
324727--324814	19	4.4	20	70	20	67	56	1	0	42	1.06
328360--328403	23	2.0	22	82	13	54	29	4	13	52	1.60
328390--328496	53	2.0	53	83	7	137	32	2	20	43	1.66
328559--328723	49	3.4	49	94	0	285	20	16	27	35	1.94
328588--328746	49	3.2	48	87	7	214	20	15	30	34	1.93
332186--332354	43	3.9	43	80	8	175	53	2	17	25	1.58
332186--332354	86	2.0	87	84	5	227	53	2	17	25	1.58
334589--334627	19	2.1	19	95	0	69	56	5	2	35	1.35
337336--337451	61	1.9	62	84	8	157	43	2	6	47	1.41
340131--340223	40	2.3	41	85	7	118	29	13	21	35	1.92
340249--340285	15	2.7	14	84	15	51	8	24	32	35	1.85
340522--340573	27	1.9	27	92	0	86	42	19	13	25	1.87
340540--340691	74	2.1	73	90	6	238	42	18	7	32	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
351982--352036	14	4.2	14	77	17	73	9	12	27	50	1.70
351980--352043	24	2.7	24	95	0	110	10	12	25	51	1.72
356581--356659	2	39.0	2	75	16	65	49	2	5	43	1.38
356585--356686	29	3.5	29	78	11	95	50	2	6	40	1.44
356911--356991	2	39.0	2	76	7	72	51	1	6	40	1.35
357013--357307	147	2.0	148	97	0	556	42	10	14	32	1.80
357718--357781	24	2.5	25	85	10	94	37	3	0	59	1.13
357868--357907	16	2.5	17	80	15	50	52	5	2	40	1.37
366181--366214	17	1.9	18	94	5	61	64	0	0	35	0.94
368282--368359	26	3.0	26	98	0	147	43	25	15	15	1.86

Tables:   1   2   3   4   5   6   7   8