genome.fa.s8185.2.7.7.80.10.50.1000.3.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: VEPZ01008185.1 Hibiscus syriacus cultivar Beakdansim tig00110788_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3563405

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

This is table  3  of  16  ( 1911 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)
363718--363829	59	1.9	59	92	0	188	18	16	20	43	1.88
363812--363851	20	2.0	20	90	0	62	12	12	22	52	1.72
365880--365920	20	2.0	20	85	9	55	41	12	4	41	1.64
366131--366165	15	2.3	15	100	0	70	28	34	22	14	1.93
366441--366469	14	2.0	15	93	6	51	13	13	13	58	1.63
368358--368402	23	1.9	24	82	13	58	33	22	0	44	1.53
371963--372003	20	2.0	20	85	9	55	39	12	7	41	1.70
372511--372540	15	2.1	15	93	6	53	13	16	13	56	1.67
374198--374275	22	3.5	22	98	0	147	10	20	48	20	1.78
374201--374263	5	11.8	5	74	12	54	6	19	52	22	1.68
374272--374359	9	9.3	9	81	7	86	27	27	28	17	1.97
374303--374359	29	2.0	28	86	3	78	29	26	26	17	1.97
374278--374359	19	4.3	18	80	9	92	28	28	26	17	1.97
389134--389166	17	1.9	17	100	0	66	12	24	45	18	1.83
389165--389251	19	4.5	19	85	8	106	27	31	26	14	1.95
389163--389221	9	6.3	9	78	7	64	27	32	27	13	1.94
390222--390259	20	1.9	20	100	0	76	23	34	31	10	1.89
391346--391412	20	3.4	19	85	8	80	40	22	17	19	1.92
391548--391616	20	3.5	20	86	7	95	18	21	24	34	1.96
391530--391617	40	2.4	37	78	14	92	18	22	22	36	1.95
392150--392241	42	2.2	42	84	3	114	25	34	17	22	1.96
392187--392241	21	2.6	21	73	0	56	27	30	20	21	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
393622--393683	14	4.3	14	77	6	61	37	1	16	45	1.57
393636--393793	63	2.4	65	90	6	248	30	2	16	50	1.58
393845--393913	20	3.5	19	84	4	75	42	26	14	17	1.87
393963--394103	20	7.3	20	81	9	150	25	19	21	34	1.96
393912--394103	94	2.1	93	86	3	260	25	18	21	34	1.96
394037--394063	14	1.9	14	100	0	54	7	14	29	48	1.71
394000--394145	54	2.7	54	91	0	229	23	16	23	36	1.94
394120--394398	140	2.0	140	97	0	522	43	15	12	29	1.83
394456--394490	18	1.9	18	94	0	61	17	2	25	54	1.57
396737--396796	24	2.5	24	86	0	84	38	20	18	23	1.93
398025--398059	18	1.9	18	94	0	61	20	48	17	14	1.81
400563--400623	12	5.1	12	72	7	52	18	13	18	50	1.77
400553--400625	24	3.0	24	85	0	101	20	12	16	50	1.77
400785--400823	2	19.5	2	100	0	78	48	0	0	51	1.00
401738--401804	20	3.3	20	100	0	134	23	19	29	26	1.98
401881--401917	19	1.9	19	88	0	56	24	16	27	32	1.96
407030--407136	30	3.5	30	87	3	135	43	10	4	41	1.59
407782--407938	20	7.8	20	73	6	93	38	25	17	19	1.93
407782--407938	41	3.9	41	70	11	126	38	25	17	19	1.93
407925--408098	20	8.6	20	79	5	118	34	25	20	20	1.96
407905--408099	40	4.9	39	80	3	183	35	24	20	19	1.95
407905--408098	60	3.2	60	83	0	244	35	24	20	19	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
408481--408551	33	2.2	33	92	0	115	11	22	16	49	1.78
408631--408705	20	3.8	20	80	5	89	42	20	24	13	1.87
408689--408759	14	4.7	14	80	16	88	43	22	25	8	1.81
408703--408775	33	2.2	33	95	0	128	45	24	21	8	1.79
408793--408882	14	5.7	14	72	23	72	8	24	23	43	1.82
408776--408890	33	3.5	33	96	0	212	9	22	20	46	1.79
408771--408868	19	5.7	19	69	22	81	10	22	22	44	1.82
410241--410265	12	2.1	12	100	0	50	0	28	0	72	0.86
410440--410486	24	2.0	24	87	8	69	38	21	14	25	1.92
411169--411378	20	10.5	20	84	2	206	20	17	24	37	1.93
411345--411480	20	6.8	19	69	12	85	16	17	26	38	1.91
415234--415282	23	2.1	23	88	7	73	61	14	12	12	1.58
420283--420307	6	4.2	6	100	0	50	20	16	0	64	1.30
422505--422538	16	2.1	16	88	0	50	50	0	2	47	1.16
422579--422612	16	2.0	18	88	11	54	26	2	5	64	1.30
423081--423328	130	1.9	130	92	0	415	35	13	14	35	1.86
423725--423800	35	2.2	35	92	0	125	35	1	23	39	1.63
427687--427730	23	1.9	23	86	9	63	59	4	0	36	1.18
428001--428049	25	2.0	25	84	8	64	22	0	6	71	1.08
428016--428062	19	2.4	19	83	16	60	21	0	4	74	0.99
428012--428059	23	2.2	21	85	7	60	20	0	4	75	0.97
428012--428062	21	2.3	23	83	6	70	19	0	3	76	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
429294--429345	11	4.9	11	76	6	54	46	5	3	44	1.45
441330--441382	18	2.9	18	75	25	58	26	5	0	67	1.12
442296--442422	60	2.1	60	85	2	166	33	18	11	35	1.88
443638--443692	23	2.4	24	81	6	69	49	5	7	38	1.54
444973--445006	14	2.4	14	90	5	50	64	0	5	29	1.17
445070--445114	23	2.0	23	91	8	74	66	0	17	15	1.25
448211--448254	21	2.0	22	91	4	72	27	22	15	34	1.95
456158--456511	20	17.2	20	77	8	300	39	25	18	16	1.91
456158--456511	62	5.8	61	83	6	405	39	25	18	16	1.91
456158--456503	82	4.2	81	84	8	373	38	26	19	16	1.92
456160--456511	124	2.9	122	88	5	503	38	25	19	16	1.92
456215--456511	42	7.2	42	84	8	403	38	25	18	16	1.92
456606--456663	6	9.7	6	94	5	100	32	50	17	0	1.46
457160--457250	6	15.5	6	98	1	168	0	16	51	31	1.45
457896--457933	20	1.9	20	84	10	51	50	0	2	47	1.15
461168--461198	16	1.9	16	93	0	53	54	0	0	45	0.99
465828--465921	31	3.0	31	93	3	154	20	19	22	38	1.94
470124--470217	31	3.0	31	93	3	154	20	19	22	38	1.94
471708--471869	87	1.9	87	82	2	209	27	14	19	38	1.91
473124--473151	3	9.3	3	100	0	56	32	0	0	67	0.91
492509--492645	48	2.9	48	81	6	170	25	15	18	40	1.90
492527--492645	24	5.0	24	87	4	168	26	15	19	39	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
495414--495466	22	2.5	22	77	20	58	47	3	7	41	1.50
505486--505579	46	2.0	46	91	0	152	24	11	20	43	1.85
532870--532922	27	2.0	27	100	0	106	28	22	15	33	1.94
533842--533892	27	1.9	26	88	4	75	60	15	9	13	1.58
534150--534193	14	3.1	14	90	0	70	61	18	9	11	1.55
534236--534338	40	2.6	40	93	0	170	25	15	15	43	1.86
539542--539642	41	2.5	42	82	4	109	29	20	11	37	1.89
541202--541274	36	2.0	36	97	0	137	27	9	16	46	1.78
541768--541799	15	2.1	15	94	0	55	15	65	12	6	1.44
554793--554993	60	3.3	60	88	0	303	36	14	12	36	1.85
555870--555916	19	2.6	17	83	12	58	74	0	8	17	1.05
555873--555916	18	2.4	17	82	14	52	75	0	9	15	1.05
556018--556061	8	5.2	8	89	8	52	77	0	0	22	0.77
556002--556060	18	3.3	17	79	15	57	76	0	1	22	0.88
556322--556356	13	2.7	13	86	13	54	71	0	0	28	0.86
557626--558901	106	12.0	106	92	1	1995	22	18	25	33	1.96
559848--559902	22	2.5	22	96	0	101	23	10	27	38	1.88
560511--560561	23	2.3	23	80	12	70	0	9	9	80	0.91
565116--565162	19	2.6	17	83	12	58	76	0	6	17	0.98
565252--565313	27	2.2	28	82	2	72	75	0	1	22	0.88
565252--565313	28	2.1	31	85	8	85	75	0	1	22	0.88
566027--566087	32	1.9	32	86	0	86	31	14	13	40	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
574735--574808	20	3.7	20	96	0	130	27	27	8	37	1.84
575228--575266	20	2.0	19	90	5	60	35	7	30	25	1.84
575421--575495	38	2.0	37	84	5	98	49	4	0	46	1.20
576815--576862	18	2.5	19	86	10	71	25	0	6	68	1.12
577700--577754	26	2.1	26	83	10	67	47	1	1	49	1.23
577746--578681	333	2.8	333	94	2	1579	42	6	5	45	1.52
584200--584237	20	1.9	20	88	0	58	23	34	31	10	1.89
584879--584923	23	2.0	23	86	0	63	20	26	26	26	1.99
590880--590922	21	2.0	21	86	0	59	30	27	25	16	1.97
590949--590986	20	1.9	20	88	0	58	23	34	31	10	1.89

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