genome.fa.s1111.2.7.7.80.10.50.1000.2.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: VEPZ01001111.1 Hibiscus syriacus cultivar Beakdansim tig00002193_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3891333

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   

This is table  2  of  17  ( 1987 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)
266632--266684	16	3.2	16	82	17	65	79	1	16	1	0.92
266633--266681	25	2.0	25	88	8	73	77	2	18	2	0.96
267919--267960	15	2.6	16	88	7	59	16	9	2	71	1.23
276832--276866	17	2.0	18	88	5	54	57	0	31	11	1.34
279230--279287	25	2.3	26	77	14	68	3	15	3	77	1.04
281637--281688	19	2.6	21	90	6	81	46	5	13	34	1.67
285040--285090	19	2.6	20	90	3	77	43	5	15	35	1.71
286813--286878	13	5.5	11	74	22	62	33	34	3	28	1.73
286804--286895	36	2.6	35	94	1	157	31	35	4	28	1.77
299954--299992	2	20.5	2	84	10	55	51	0	2	46	1.14
299954--299992	13	2.9	14	88	7	55	51	0	2	46	1.14
299954--299992	17	2.3	17	95	0	69	51	0	2	46	1.14
300860--300911	19	2.6	21	90	6	81	46	5	13	34	1.67
303210--303309	35	2.9	34	88	2	139	32	38	3	27	1.72
303244--303345	11	9.0	11	68	21	59	34	36	1	27	1.68
303258--303356	33	3.0	33	78	12	80	34	36	1	28	1.64
303668--303726	30	1.9	31	83	10	77	50	10	10	28	1.68
304076--304123	25	2.0	24	83	4	60	27	27	6	39	1.80
306496--306535	13	3.2	13	82	17	57	0	15	0	85	0.61
306491--306527	19	1.9	19	88	0	56	2	16	0	81	0.81
306496--306554	25	2.3	25	86	13	77	0	13	3	83	0.78
306499--306557	17	3.2	18	85	11	75	0	11	3	84	0.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
306496--306536	14	3.1	14	76	20	52	0	14	0	85	0.60
306496--306557	10	6.1	10	76	16	65	0	12	3	83	0.75
307766--307830	26	2.5	26	97	0	121	16	33	20	29	1.95
309840--309909	34	2.1	33	83	2	86	31	35	1	31	1.67
314252--314355	33	3.1	33	82	9	95	30	36	1	30	1.69
316083--316262	90	2.0	91	85	3	247	28	21	27	23	1.99
318643--318711	33	2.1	33	83	5	86	31	1	36	30	1.67
319085--319134	19	2.5	20	87	3	66	46	6	14	34	1.69
322617--322685	33	2.1	33	83	5	86	31	1	36	30	1.67
323059--323108	19	2.5	20	87	3	66	46	6	14	34	1.69
328654--328696	23	1.9	21	81	13	50	32	18	13	34	1.90
330331--330395	26	2.5	26	92	0	103	18	35	20	26	1.95
332462--332494	2	16.5	2	93	0	57	48	0	3	48	1.17
335183--335228	15	2.9	16	81	12	51	58	0	30	10	1.32
335395--335435	14	3.0	14	89	3	57	36	0	41	21	1.54
338848--338876	13	2.3	13	94	5	51	68	0	17	13	1.20
341200--341235	12	3.1	12	88	4	56	11	16	8	63	1.49
350129--350186	28	2.1	27	83	3	71	62	15	13	8	1.54
351335--351373	20	1.9	21	84	5	53	33	0	38	28	1.57
351710--351762	21	2.6	21	85	5	74	41	9	13	35	1.76
351714--351762	19	2.5	20	84	15	66	42	10	12	34	1.76
355452--355490	20	1.9	21	84	5	53	33	0	38	28	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
355822--355873	19	2.6	21	87	6	72	46	7	15	30	1.74
360353--360415	28	2.2	28	78	10	74	60	14	17	7	1.57
362457--362634	96	1.9	96	100	0	356	20	23	13	42	1.87
362268--362941	362	1.9	359	96	0	1249	23	19	16	41	1.90
366443--366483	14	3.1	13	89	3	55	21	39	0	39	1.54
366445--366484	13	3.0	13	88	3	53	22	42	0	35	1.54
374562--374596	13	2.9	12	91	8	54	25	34	0	40	1.56
379867--379947	30	2.7	30	98	0	153	22	33	17	27	1.96
385725--385907	91	2.0	91	92	0	303	29	21	28	20	1.98
395064--395109	23	2.0	23	83	8	58	4	15	13	67	1.38
395911--395979	33	2.1	33	83	5	86	31	1	36	30	1.67
395965--396029	13	5.4	12	75	21	57	29	3	35	32	1.73
395950--396058	36	3.1	36	91	1	166	26	3	36	33	1.74
396402--396452	19	2.6	20	87	3	68	45	5	15	33	1.71
397977--398015	20	2.1	19	85	9	53	51	15	2	30	1.57
401773--401810	15	2.5	15	95	4	67	0	10	7	81	0.87
401783--401823	14	3.0	14	86	10	50	0	9	12	78	0.98
402576--402683	51	2.3	50	82	16	126	51	13	1	32	1.52
402665--402718	22	2.5	21	76	14	56	50	14	3	31	1.61
405719--405783	13	5.4	12	75	21	57	29	3	35	32	1.73
405704--405821	36	3.3	36	90	2	166	28	3	37	30	1.74
406154--406204	19	2.6	20	87	3	68	45	5	15	33	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
411021--411072	19	2.6	21	90	6	81	46	7	13	32	1.72
416055--416106	23	2.2	24	79	3	61	61	11	15	11	1.57
417324--417366	23	1.9	21	81	13	50	32	18	13	34	1.90
424154--424206	27	2.0	27	85	7	72	62	0	16	20	1.33
428216--428255	21	1.9	21	85	10	55	62	0	17	20	1.33
428278--428318	22	1.9	21	85	5	55	26	4	36	31	1.78
432502--432559	26	2.2	26	96	0	107	20	29	18	31	1.97
433417--433441	5	5.0	5	100	0	50	80	0	20	0	0.72
434723--434777	24	2.3	25	81	6	60	32	16	21	29	1.95
438749--438778	12	2.5	12	100	0	60	23	6	0	70	1.11
443415--443444	12	2.5	12	100	0	60	23	6	0	70	1.11
443725--443769	23	2.0	22	87	12	65	66	0	13	20	1.24
447063--447095	16	2.1	16	100	0	66	33	18	6	42	1.75
451229--451254	5	5.2	5	100	0	52	80	0	19	0	0.71
452533--452587	24	2.3	25	81	6	60	32	16	21	29	1.95
457683--457725	19	2.3	19	88	8	61	81	4	11	2	0.93
457913--457964	15	3.4	15	76	12	52	15	15	0	69	1.20
463999--464042	6	7.2	6	80	14	54	81	2	15	0	0.78
463996--464042	25	1.9	24	87	12	69	80	4	14	0	0.85
463996--464042	12	3.8	12	83	10	60	80	4	14	0	0.85
463999--464039	19	2.3	19	83	8	50	82	2	14	0	0.76
468230--468272	16	2.8	16	86	10	54	74	6	16	2	1.14
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
470058--470162	36	2.9	36	86	0	165	27	34	4	33	1.78
470542--470588	25	2.0	24	84	16	62	74	8	17	0	1.05
474448--474552	36	2.9	36	86	0	165	27	34	4	33	1.78
474932--474978	25	2.0	24	84	16	62	74	8	17	0	1.05
478837--478941	36	2.9	36	89	0	174	27	35	4	32	1.78
495904--495944	17	2.4	17	91	0	64	4	4	9	80	1.00
500671--500701	15	2.0	16	93	6	55	12	25	0	61	1.32
501006--501043	16	2.4	17	86	8	53	73	7	15	2	1.17
505687--505711	11	2.3	11	100	0	50	40	8	36	16	1.77
515989--516016	11	2.5	11	100	0	56	14	17	0	67	1.22
524244--524289	19	2.3	20	85	3	58	34	15	6	43	1.72
528103--528149	20	2.4	19	80	13	51	40	10	6	42	1.65
529607--529661	23	2.3	25	81	6	69	63	10	16	9	1.51
535898--535974	36	2.2	36	90	4	122	28	33	6	31	1.83
535898--535986	35	2.5	36	87	3	110	28	34	5	31	1.80
536627--536686	17	3.6	17	77	8	52	15	18	0	66	1.25
542307--542357	19	2.6	20	90	3	77	43	5	15	35	1.71
543881--543937	10	5.8	10	73	22	50	78	1	19	0	0.83
543884--543937	23	2.4	24	79	17	62	77	1	20	0	0.86
543881--543937	20	3.1	18	82	12	71	78	1	19	0	0.83
546302--546361	30	2.0	31	83	3	77	26	8	10	55	1.61
547265--547316	21	2.6	21	90	6	81	34	13	5	46	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
548041--548090	14	3.9	13	73	21	52	78	2	20	0	0.86
548035--548090	19	3.1	18	82	17	71	78	1	19	0	0.84
548035--548090	11	4.7	11	74	21	51	78	1	19	0	0.84
551594--551644	19	2.6	20	90	3	77	43	5	15	35	1.71
553035--553073	20	1.9	21	84	5	53	33	0	38	28	1.57
557235--557275	13	3.2	13	83	16	59	0	19	0	80	0.71
557227--557273	18	2.7	18	93	6	80	0	21	0	78	0.75
561822--561873	13	3.5	16	69	26	51	0	19	1	78	0.84
561833--561872	8	4.9	8	85	14	55	0	20	2	77	0.88
566357--566432	36	2.2	35	90	4	118	28	34	5	31	1.80

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17