genome.fa.s7988.2.7.7.80.10.50.1000.2.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: VEPZ01007988.1 Hibiscus syriacus cultivar Beakdansim tig00110435_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  847207

Tables:   1   2   3   4   

This is table  2  of  4  ( 420 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)
300526--300572	18	2.8	17	87	9	69	63	14	2	19	1.40
303016--303096	42	2.0	40	90	4	126	22	23	19	34	1.96
303020--303097	19	3.9	19	74	12	75	24	23	19	33	1.97
303186--303212	6	4.5	6	100	0	54	33	51	14	0	1.43
303819--304250	42	10.3	42	90	1	643	36	23	19	21	1.95
303912--304189	21	13.2	20	71	17	92	37	21	19	21	1.94
309711--309747	6	6.0	6	90	6	56	64	2	0	32	1.07
310140--310906	84	9.2	81	75	9	523	24	19	24	31	1.98
310121--310906	165	4.7	165	78	5	692	24	19	24	31	1.98
310156--310874	249	2.9	249	88	1	1019	24	19	24	31	1.98
311015--311560	110	5.0	110	88	2	789	23	17	23	34	1.96
314221--314253	16	2.0	17	88	5	50	24	30	12	33	1.91
314554--314712	65	2.4	65	98	0	309	37	19	21	21	1.94
314974--315044	21	3.4	21	67	18	67	15	21	25	38	1.92
314971--315208	41	5.8	41	91	3	390	15	21	25	37	1.92
314995--315187	20	9.4	20	66	16	101	14	21	24	38	1.91
315138--315218	21	3.9	21	75	15	96	17	20	25	35	1.95
315940--316008	20	3.4	20	70	18	70	40	24	23	11	1.88
315926--316005	41	2.0	41	97	0	151	40	23	21	15	1.91
315974--316037	21	3.1	21	72	4	67	37	25	18	18	1.94
316724--316756	2	16.5	2	93	0	57	48	0	3	48	1.17
316794--316838	16	2.8	17	75	18	51	73	0	6	20	1.05
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
317211--317281	3	24.0	3	78	16	69	70	0	0	29	0.88
317216--317281	33	2.0	31	88	8	96	69	0	0	30	0.88
318474--318507	18	1.9	17	88	5	50	17	23	29	29	1.97
320068--320187	33	3.7	33	78	7	122	47	4	5	43	1.44
321186--321359	90	1.9	90	88	0	258	32	17	17	32	1.93
323078--323131	23	2.4	22	81	9	63	27	12	9	50	1.71
326225--326281	25	2.3	24	79	5	69	43	1	3	50	1.29
331638--331676	15	2.4	16	83	12	53	74	7	5	12	1.20
331735--331807	19	3.7	19	77	12	67	71	2	4	21	1.16
332155--332193	19	2.0	19	90	5	60	79	5	0	15	0.90
332211--332274	10	5.8	12	70	26	52	57	0	3	39	1.14
333405--333451	2	25.0	2	79	12	55	51	0	2	46	1.13
334090--334125	18	2.0	18	100	0	72	11	38	16	33	1.84
334225--334705	106	4.5	106	88	4	721	21	19	25	33	1.97
334225--334705	219	2.2	212	90	3	730	21	19	25	33	1.97
335818--335865	12	3.8	13	81	13	55	0	16	2	81	0.79
335823--335861	7	5.6	7	82	11	53	0	15	2	82	0.79
335820--335859	21	2.0	20	95	5	71	0	17	2	80	0.83
335835--335963	65	1.9	68	87	4	192	12	21	10	55	1.67
335847--335977	65	2.0	66	81	1	156	14	21	12	51	1.74
342959--343001	21	2.0	23	90	9	72	69	4	6	18	1.29
346286--346325	15	2.5	16	84	12	55	75	7	5	12	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
346302--346362	4	15.0	4	74	6	52	72	4	3	19	1.18
346295--346353	15	4.2	15	77	16	63	74	6	3	15	1.16
346421--346456	14	2.7	13	87	8	54	69	0	5	25	1.10
346548--346589	21	2.0	21	85	0	57	54	2	23	19	1.55
346803--346829	12	2.2	12	100	0	54	85	0	0	14	0.61
346840--346903	17	3.7	17	72	17	60	57	1	3	37	1.24
346864--346899	19	1.9	18	88	5	54	58	2	2	36	1.27
357191--357242	19	2.7	19	81	3	68	51	19	15	13	1.75
357610--357667	22	2.6	22	83	0	80	20	17	41	20	1.90
357815--357865	20	2.5	20	93	0	84	17	11	25	45	1.83
364329--364369	2	21.0	2	95	5	75	51	0	0	48	1.00
365508--365540	5	6.6	5	100	0	66	81	0	18	0	0.68
366989--367088	35	2.7	35	81	9	103	39	11	16	34	1.83
367440--367516	31	2.5	31	84	2	91	32	3	5	58	1.38
367587--367624	20	1.9	20	88	0	58	26	7	2	63	1.35
367635--367669	16	2.1	18	89	10	56	25	5	0	68	1.11
374081--374120	18	2.3	18	86	4	55	22	10	47	20	1.79
374117--374142	13	2.0	13	100	0	52	46	15	30	7	1.74
379861--380124	43	6.2	42	79	3	242	32	18	20	27	1.97
379863--380140	86	3.2	84	81	5	290	33	19	20	27	1.96
384012--384305	41	7.2	41	78	9	207	33	19	20	26	1.96
384010--384294	81	3.5	81	75	12	244	33	18	20	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
384990--385033	11	4.0	11	87	0	70	54	22	9	13	1.67
385052--385096	24	1.9	23	82	13	56	51	20	8	20	1.73
385949--386029	35	2.3	36	89	2	119	43	22	2	32	1.66
385949--386046	36	2.8	35	83	6	117	41	24	3	30	1.70
386510--386802	148	2.0	148	90	1	462	47	8	6	37	1.59
386987--387066	35	2.3	35	88	0	115	32	0	25	42	1.55
388327--388407	35	2.3	36	86	2	110	43	20	2	33	1.66
388887--389179	148	2.0	148	91	2	473	48	8	6	36	1.61
389358--389437	35	2.3	35	84	0	106	33	0	23	42	1.55
390703--390781	35	2.2	36	90	2	124	44	18	1	35	1.59
390703--390797	36	2.7	36	86	4	113	42	21	2	34	1.65
397439--397958	146	3.6	146	94	0	862	32	20	26	21	1.97
402663--402720	30	1.9	30	100	0	116	17	8	10	63	1.49
404692--405069	125	3.0	124	81	3	438	32	17	26	23	1.97
406173--406366	36	5.4	36	75	4	140	36	21	18	24	1.95
406736--407631	54	16.5	54	88	4	1153	31	19	25	22	1.98
407382--407731	55	6.3	55	76	10	231	30	17	23	28	1.97
408300--408818	146	3.6	146	93	0	851	32	19	26	21	1.97
414374--414700	111	3.0	111	90	5	531	45	11	7	36	1.67
414374--414684	105	2.9	106	92	3	498	45	11	6	37	1.65
414764--414797	18	1.9	18	94	5	61	67	2	0	29	1.05
414987--415112	50	2.5	50	84	5	173	23	28	31	15	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
415331--415507	60	2.9	59	80	7	187	33	19	5	41	1.75
415351--415507	61	2.6	59	81	6	163	34	20	4	40	1.73
417584--417638	22	2.4	23	76	8	60	21	18	9	50	1.74
441771--441795	9	2.8	9	100	0	50	72	12	8	8	1.29
454842--455031	60	3.2	60	79	3	177	31	23	4	40	1.74
455160--455215	29	1.9	29	82	7	69	42	3	19	33	1.69
455850--456167	60	5.2	60	68	18	183	33	21	5	40	1.75
456092--456184	29	3.2	30	69	19	79	29	25	3	41	1.71
456508--456671	60	2.7	59	75	12	145	40	6	20	32	1.77
471728--471762	17	1.9	17	88	11	52	17	22	11	48	1.79
474749--474796	25	2.0	25	84	12	64	52	2	0	45	1.12
479830--479899	32	2.2	32	97	0	131	28	41	2	27	1.70
482318--482375	2	30.0	2	89	6	84	53	0	0	46	1.00
482387--482439	19	2.8	19	83	11	72	67	3	3	24	1.23
483816--483867	12	4.1	13	87	9	72	59	0	0	40	0.97
483823--483867	3	14.3	3	86	9	63	62	0	0	37	0.96
484000--484281	45	6.3	45	97	0	519	34	17	23	25	1.96
484346--484795	73	6.2	73	96	0	828	37	13	19	30	1.90
484794--485113	165	1.9	164	91	3	527	38	13	13	35	1.84
489287--489345	29	2.0	29	96	0	109	47	16	11	23	1.80
490039--490079	17	2.3	18	83	8	57	0	19	0	80	0.71
490054--490105	12	4.0	13	81	18	56	3	13	0	82	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
493279--493328	7	7.0	7	86	8	66	58	10	18	14	1.63
496299--496333	17	2.0	18	88	5	54	45	8	5	40	1.58
496416--496476	31	2.0	31	86	0	86	55	1	0	42	1.09
498052--498100	12	3.8	13	86	10	66	59	0	0	40	0.98
498059--498100	3	13.3	3	85	9	57	61	0	0	38	0.96
498188--498227	18	2.4	18	84	12	50	45	7	7	40	1.61
501340--501397	28	2.1	28	81	12	66	43	3	6	46	1.47
501685--501736	3	17.3	3	95	0	95	67	1	0	30	1.02
502854--502961	54	2.0	54	94	0	189	39	8	27	24	1.84
506120--506176	2	31.0	2	78	16	52	56	0	0	43	0.99

Tables:   1   2   3   4