genome.fa.s9589.2.7.7.80.10.50.1000.2.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: VEPZ01009589.1 Hibiscus syriacus cultivar Beakdansim tig00116968_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  660543

Tables:   1   2   3   

This is table  2  of  3  ( 312 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)
362702--362735	18	1.9	17	88	5	50	47	0	2	50	1.16
362749--362822	29	2.6	28	78	16	80	54	1	1	43	1.17
362753--362845	26	3.4	27	76	18	79	51	2	1	45	1.20
362824--362906	22	3.4	24	72	13	71	48	1	0	50	1.08
362857--362900	17	2.5	17	81	3	52	56	0	0	43	0.99
362872--362912	20	2.0	20	90	0	64	48	0	0	51	1.00
363103--363215	42	2.7	42	93	1	192	47	18	18	15	1.82
363597--363715	41	2.9	42	93	2	213	15	19	19	45	1.86
363903--363994	22	3.8	23	75	19	73	51	0	0	48	1.00
363903--364023	52	2.3	52	79	19	144	47	0	0	51	1.06
363958--364003	18	2.6	19	83	10	53	54	0	2	43	1.12
363907--364038	54	2.5	52	78	16	148	46	0	0	52	1.05
363931--364076	59	2.5	59	76	13	149	47	0	1	50	1.14
364093--364125	16	1.9	18	88	11	52	48	3	0	48	1.17
364401--364450	20	2.5	20	93	0	91	32	16	10	42	1.81
364433--364494	29	2.1	29	85	5	81	37	17	8	37	1.80
364433--364494	14	4.3	15	85	6	83	37	17	8	37	1.80
364545--364665	43	2.9	42	96	2	224	15	20	19	44	1.86
364840--364907	28	2.4	28	85	7	84	48	0	0	51	1.00
364863--364918	28	2.0	28	89	6	87	50	0	0	50	1.00
364922--365024	28	3.6	27	78	15	84	43	0	1	53	1.18
365185--365254	20	3.5	20	96	0	131	35	14	10	40	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
365185--365263	40	2.0	40	89	0	122	35	15	8	40	1.78
365237--365318	15	5.5	15	85	2	112	35	18	7	39	1.78
365237--365318	30	2.8	30	92	1	130	35	18	7	39	1.78
365237--365323	45	2.0	44	90	6	140	33	18	6	41	1.77
365297--365419	60	2.0	60	87	3	176	43	23	4	27	1.74
366282--366355	15	4.7	15	70	18	51	39	0	0	60	0.97
366279--366358	35	2.4	34	85	8	110	38	0	0	61	0.96
366246--366353	35	3.1	33	82	11	103	35	0	2	62	1.10
368077--368124	21	2.3	21	85	0	60	25	39	12	22	1.89
368128--368221	21	4.5	21	92	5	129	18	35	26	20	1.95
368739--368832	28	3.2	28	83	11	100	52	4	3	40	1.37
369223--370234	128	7.9	128	98	0	1976	32	19	25	22	1.98
369223--370234	255	4.0	256	99	0	1976	32	19	25	22	1.98
374863--374912	10	5.1	10	82	2	57	64	22	6	8	1.43
374864--374902	20	2.0	20	100	0	78	61	20	7	10	1.52
378635--378702	32	2.1	32	97	0	127	23	19	14	42	1.88
380844--380915	36	2.0	36	89	5	110	16	27	31	23	1.96
381527--381561	15	2.3	15	95	0	61	17	22	31	28	1.96
383621--383665	2	22.5	2	100	0	90	51	0	0	48	1.00
384119--384164	2	23.0	2	100	0	92	50	0	0	50	1.00
386904--386973	36	1.9	36	91	5	115	20	30	28	21	1.98
387587--387621	15	2.3	15	100	0	70	14	22	34	28	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
389279--389371	39	2.4	39	84	10	111	23	21	23	31	1.99
390960--391008	25	2.0	25	83	0	62	32	6	10	51	1.61
401002--401063	26	2.4	26	100	0	124	30	24	16	29	1.96
402889--402958	20	3.5	20	82	7	72	30	15	24	30	1.96
403196--403234	19	2.1	18	90	4	60	33	23	10	33	1.88
403992--404428	219	2.0	218	97	2	833	29	14	17	38	1.89
409482--409538	25	2.3	25	84	0	69	26	7	35	31	1.83
413343--413409	21	3.2	21	93	0	116	28	25	16	29	1.97
419843--419894	19	2.7	18	80	13	52	65	1	1	30	1.14
434019--434053	18	1.9	18	88	0	52	74	0	17	8	1.06
434807--435605	98	8.0	98	90	7	1157	34	24	19	22	1.97
435488--435520	12	2.8	12	100	0	66	33	27	12	27	1.92
449040--449075	17	2.0	19	89	10	58	41	0	0	58	0.98
449032--449084	19	2.7	19	77	16	56	45	0	1	52	1.11
450555--450628	29	2.6	29	88	0	121	14	27	36	21	1.93
450960--451014	20	2.8	20	85	0	83	29	34	25	10	1.90
451007--451059	23	2.3	23	90	0	79	28	26	26	18	1.98
451033--451107	33	2.3	33	90	0	114	26	26	36	10	1.89
451108--451165	29	2.0	29	86	0	80	13	25	41	18	1.88
451323--451384	1	62.0	1	73	0	52	87	0	0	12	0.55
451324--451384	7	8.7	7	92	7	106	86	0	0	13	0.56
451322--451384	22	3.0	22	95	4	112	85	0	0	14	0.59
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
461036--461067	3	10.7	3	93	0	55	65	3	31	0	1.08
478770--478817	23	2.1	23	96	0	87	35	18	12	33	1.89
479555--479601	19	2.6	18	83	12	60	82	4	10	2	0.88
479589--479636	24	2.0	24	91	0	78	75	8	0	16	1.04
480070--480102	17	1.9	17	100	0	66	30	6	18	45	1.73
484074--484108	18	1.9	18	100	0	70	17	22	34	25	1.96
486913--486986	26	3.0	25	72	20	66	45	1	2	50	1.24
498260--498290	2	15.5	2	100	0	62	51	0	0	48	1.00
498449--498609	87	1.9	87	94	0	286	41	15	11	31	1.83
499267--499312	2	23.0	2	100	0	92	50	0	0	50	1.00
499637--499686	2	25.0	2	100	0	100	50	0	0	50	1.00
518334--518378	24	1.9	24	86	4	65	40	6	0	53	1.27
518609--518720	35	3.2	35	84	0	134	42	20	0	35	1.58
519772--519883	35	3.2	35	78	12	122	36	0	18	43	1.57
522302--522470	84	2.0	85	91	2	277	26	9	11	52	1.67
524637--524671	15	2.3	15	90	0	52	25	11	22	40	1.88
527762--527823	29	2.1	30	84	3	81	35	17	3	43	1.66
531338--531415	33	2.4	32	87	4	95	30	19	37	12	1.89
531351--531415	33	2.0	33	93	0	112	32	18	33	15	1.92
531504--531546	21	2.0	21	86	8	61	51	0	2	46	1.13
531759--531800	20	2.1	20	90	0	66	35	14	21	28	1.92
531879--532491	105	5.8	105	96	0	1118	22	18	25	33	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
545187--545264	33	2.4	32	89	4	104	29	20	37	12	1.90
545197--545264	33	2.1	33	94	0	118	32	20	32	14	1.93
547289--547379	20	4.6	20	83	5	103	29	23	19	27	1.98
550510--550544	18	1.9	18	94	0	61	54	25	2	17	1.57
550604--550869	140	1.9	140	95	0	478	29	12	15	42	1.83
550844--551083	20	12.6	20	77	12	238	32	22	19	25	1.97
550852--551034	74	2.4	74	84	10	235	31	23	19	25	1.98
550864--551083	114	1.9	113	87	2	325	32	22	19	25	1.98
551073--551130	20	2.9	20	78	0	71	12	15	25	46	1.80
552713--552782	21	3.3	21	76	7	79	18	14	42	24	1.87
552701--552806	42	2.5	42	95	0	185	19	15	42	22	1.88
552728--552803	21	3.6	21	77	7	91	19	14	43	22	1.87
552698--552831	42	3.2	42	87	2	162	22	15	40	21	1.91
553332--553407	20	3.8	20	96	0	134	36	25	19	18	1.94
553450--553497	20	2.4	20	92	0	78	18	20	27	33	1.96
555388--555494	20	5.4	20	85	3	119	47	23	14	14	1.81
555880--555922	22	2.0	22	86	9	61	18	18	37	25	1.94
556096--556189	20	4.7	20	82	0	107	24	23	24	27	2.00
561900--561997	20	4.8	20	77	3	88	36	23	18	21	1.95
561841--561997	41	3.9	41	70	11	126	38	25	17	18	1.93
561984--562114	20	6.6	20	85	3	104	33	27	18	20	1.96
561964--562173	60	3.5	60	79	6	219	37	24	17	20	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
562018--562173	20	7.8	20	84	4	156	35	24	17	22	1.95
561984--562173	40	4.8	40	85	2	188	36	24	17	21	1.94
562850--562896	24	2.0	24	87	8	69	25	14	21	38	1.92
565365--565742	19	21.4	19	80	15	465	46	18	20	14	1.83
565432--565742	71	4.4	69	87	7	342	46	17	20	14	1.83
565702--565756	14	3.6	14	76	21	56	47	20	21	10	1.80
565393--565764	52	7.0	52	84	8	493	46	17	21	14	1.83
565771--565871	19	5.6	19	85	12	142	14	23	17	43	1.87
565978--566014	14	2.6	14	91	0	65	45	21	0	32	1.52
567977--568064	33	2.7	33	92	0	149	48	21	19	10	1.78

Tables:   1   2   3