genome.fa.s7790.2.7.7.80.10.50.1000.1.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: VEPZ01007790.1 Hibiscus syriacus cultivar Beakdansim tig00110076_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  2956777

Tables:   1   2   3   4   5   6   7   8   9   10   11   

This is table  1  of  11  ( 1250 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)
13952--14027	33	2.2	34	95	4	136	32	0	17	50	1.46
23002--23076	29	2.5	30	82	8	91	8	18	2	70	1.24
23324--23368	5	8.8	5	88	9	56	62	0	17	20	1.33
23795--23846	19	2.6	21	90	6	81	46	5	13	34	1.67
34870--34924	24	2.3	25	81	6	60	32	16	21	29	1.95
43125--43190	1	66.0	1	81	0	51	1	1	10	86	0.71
43125--43190	11	6.4	11	81	13	68	1	1	10	86	0.71
50198--50283	36	2.6	31	73	18	84	25	22	8	44	1.80
54313--54360	23	2.2	21	85	7	60	81	6	12	0	0.87
54322--54360	20	2.0	20	85	10	53	82	5	12	0	0.83
58118--58167	19	2.6	19	83	0	64	32	14	6	48	1.67
64431--64826	199	2.0	202	91	2	656	29	14	22	33	1.93
68628--69657	84	12.5	83	77	5	888	25	20	24	30	1.99
68677--69657	164	5.9	164	79	6	915	25	20	24	29	1.99
68661--69657	249	4.0	246	86	3	1256	25	20	24	29	1.99
74704--74735	5	6.6	5	92	7	57	81	0	0	18	0.70
74704--74734	14	2.2	14	100	0	62	80	0	0	19	0.71
77123--77234	35	3.2	36	84	3	147	33	3	35	27	1.74
80498--80531	17	2.0	17	94	0	59	35	0	32	32	1.58
81191--81302	35	3.2	35	90	1	170	32	2	36	28	1.71
113816--113849	17	2.0	17	94	0	59	35	0	32	32	1.58
114458--114495	11	3.5	11	88	0	58	36	0	31	31	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
114521--114632	35	3.2	35	84	1	143	31	4	35	28	1.77
125646--125692	24	2.0	23	84	15	62	34	29	2	34	1.70
127836--127896	24	2.5	24	97	0	95	27	18	31	22	1.97
129710--129774	11	5.6	12	71	23	50	32	35	1	30	1.67
140217--140258	15	2.9	15	82	10	52	61	0	23	14	1.32
140214--140266	20	2.7	20	82	14	65	62	0	24	13	1.31
144280--144324	23	2.0	23	100	0	90	55	4	13	26	1.57
146509--146535	14	1.9	14	100	0	54	0	14	7	77	0.97
157459--157488	14	2.1	14	100	0	60	0	6	23	70	1.11
169346--169398	21	2.5	21	90	0	79	35	7	30	26	1.84
172612--172658	20	2.4	20	89	3	69	38	0	25	36	1.56
178205--178243	20	2.0	20	85	10	53	35	0	15	48	1.45
181235--181309	38	2.0	38	97	0	141	30	18	26	24	1.98
181873--181898	13	2.0	13	100	0	52	46	0	23	30	1.53
182081--182336	134	1.9	134	96	0	476	43	6	17	32	1.74
184568--184594	14	1.9	14	100	0	54	40	0	14	44	1.46
188818--188886	34	2.0	34	100	0	138	50	11	11	26	1.72
193906--194030	47	2.8	45	84	7	155	43	8	18	29	1.80
198904--198969	28	2.4	28	80	7	71	18	13	3	65	1.39
198925--198984	28	2.1	29	90	9	97	18	10	5	66	1.39
200480--200522	22	2.0	21	82	8	52	46	6	0	46	1.30
200643--200669	13	2.1	13	100	0	54	37	0	7	55	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
203884--203923	17	2.4	17	86	0	53	32	15	12	40	1.84
203979--204023	18	2.5	18	92	0	72	33	6	13	46	1.69
217613--217665	24	2.2	24	96	0	97	39	7	13	39	1.73
218077--218173	42	2.3	42	98	0	185	28	19	15	36	1.93
221084--221112	9	3.3	9	95	4	51	93	0	6	0	0.36
225941--225995	27	2.1	27	82	3	67	9	14	7	69	1.36
232932--232985	26	2.1	26	92	0	90	46	12	18	22	1.83
234821--235149	154	2.1	154	81	7	407	44	6	20	28	1.77
241587--243969	598	4.0	598	94	0	4086	36	15	17	30	1.91
241587--243969	597	4.0	599	94	0	4099	36	15	17	30	1.91
246736--246760	7	3.6	7	100	0	50	12	0	0	88	0.53
253378--253427	6	8.3	6	75	16	50	80	2	16	2	0.91
260017--260051	12	3.0	12	87	4	54	11	17	8	62	1.52
264924--264953	13	2.4	13	94	5	53	26	30	0	43	1.55
267699--267759	23	2.6	24	79	5	72	9	18	6	65	1.43
281502--281543	20	2.1	20	100	0	84	26	16	28	28	1.97
286845--286883	13	2.9	14	80	7	53	20	12	0	66	1.24
291428--291467	19	2.0	20	90	4	64	20	15	0	65	1.28
291414--291470	19	3.0	18	80	14	62	19	15	0	64	1.28
304120--304160	20	2.0	20	86	9	57	58	4	9	26	1.50
305911--305953	22	2.0	22	85	0	59	39	18	11	30	1.86
309257--309309	17	3.1	16	78	10	61	45	5	13	35	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
311173--311271	45	2.2	44	84	5	128	18	15	23	43	1.87
314880--315223	172	2.0	172	98	0	661	35	15	14	34	1.88
319797--319829	2	16.5	2	87	12	50	48	0	3	48	1.17
320051--320084	11	2.8	12	86	13	52	38	8	20	32	1.84
320044--320093	13	4.0	13	82	10	59	34	16	22	28	1.95
320557--320591	18	1.9	18	94	0	61	11	14	40	34	1.82
346270--346424	81	1.9	82	82	10	196	41	10	4	43	1.59
358562--358718	65	2.4	65	81	6	158	31	17	21	29	1.96
359404--359443	16	2.5	17	84	12	57	55	30	0	15	1.41
365197--365236	21	1.9	21	89	0	62	35	7	2	55	1.42
376120--376159	20	2.0	20	100	0	80	40	20	15	25	1.90
376228--376274	24	2.1	24	84	11	64	17	17	6	59	1.57
380182--380233	21	2.4	22	75	15	54	38	19	3	38	1.70
382927--382981	24	2.3	24	78	6	58	34	20	16	29	1.94
391907--392304	59	6.8	59	88	0	548	35	18	10	35	1.86
392635--392687	22	2.5	20	81	6	61	32	18	15	33	1.92
392649--392857	94	2.2	94	86	5	280	27	24	16	31	1.96
397778--398110	177	1.9	178	91	0	551	34	19	11	34	1.88
397779--398114	59	5.7	59	87	2	478	34	19	11	34	1.88
398448--398651	94	2.2	94	84	6	252	26	22	16	34	1.95
404760--404813	28	1.9	28	100	0	108	29	14	25	29	1.95
409086--409171	24	3.6	24	74	3	66	31	24	13	30	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
410113--410390	136	2.0	136	96	0	511	20	20	15	42	1.89
412905--412970	33	2.0	33	93	0	114	36	21	10	31	1.87
417471--417506	2	18.0	2	88	0	54	47	2	2	47	1.31
421275--421304	2	15.0	2	100	0	60	50	0	0	50	1.00
431260--431452	85	2.3	86	87	1	264	29	18	20	31	1.96
433992--434060	30	2.2	30	85	15	95	34	5	17	42	1.73
434001--434060	30	2.0	30	93	6	104	33	6	16	43	1.74
434159--434188	13	2.3	13	100	0	60	23	30	23	23	1.99
434174--434231	22	2.8	20	76	7	62	25	32	18	22	1.97
434252--434325	20	3.7	20	78	10	87	20	27	24	28	1.99
434252--434307	21	2.8	20	86	2	67	19	25	26	28	1.99
434252--434334	41	2.0	41	88	4	123	20	26	26	26	1.99
434430--434469	20	1.9	22	90	10	66	37	40	10	12	1.77
437551--437610	30	2.0	31	87	6	88	35	8	15	41	1.77
437788--437862	20	3.7	20	74	10	71	20	25	24	30	1.98
444239--444318	33	2.4	33	95	0	142	41	20	6	32	1.77
452927--453263	46	7.3	46	85	0	431	23	20	13	42	1.88
458827--459120	46	6.4	46	85	2	340	23	18	12	45	1.83
458827--459120	138	2.1	138	85	2	385	23	18	12	45	1.83
469866--469932	21	3.2	21	91	0	116	64	13	14	7	1.49
470444--470499	29	1.9	29	88	0	85	5	3	16	75	1.13
478543--478601	24	2.5	24	88	0	82	23	25	35	15	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
485040--485069	12	2.6	12	94	5	53	66	0	0	33	0.92
485271--485750	55	8.7	55	87	0	629	28	24	16	31	1.96
487166--487273	15	6.2	19	67	25	62	8	12	0	78	0.95
487179--487270	8	11.2	8	78	8	80	7	11	0	80	0.90
487169--487268	17	5.9	17	77	18	86	9	12	0	79	0.95
490288--490328	3	13.7	3	90	10	66	36	0	0	63	0.95
491252--491295	23	1.9	23	86	9	63	38	9	4	47	1.56
497716--497834	37	3.2	36	84	2	166	35	26	17	21	1.95
497873--497897	13	1.9	13	100	0	50	32	24	20	24	1.98
497885--497969	42	2.0	42	90	0	134	23	20	24	31	1.98

Tables:   1   2   3   4   5   6   7   8   9   10   11