genome.fa.s8195.2.7.7.80.10.50.1000.3.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: VEPZ01008195.1 Hibiscus syriacus cultivar Beakdansim tig00110814_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1119982

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 689 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)
445398--445511	21	5.3	21	68	24	60	72	3	3	20	1.14
445986--446026	11	3.6	11	87	6	55	65	4	4	24	1.32
446042--446092	25	2.0	26	88	11	79	68	1	0	29	1.00
446283--446316	18	1.9	18	88	5	52	58	11	8	20	1.59
446323--446347	13	1.9	13	100	0	50	40	16	12	32	1.84
446560--446661	37	2.8	37	89	0	141	30	14	13	41	1.85
447395--448951	106	14.9	106	87	3	2108	24	18	23	33	1.96
447395--448951	210	7.5	212	87	3	2101	24	18	23	33	1.96
450405--450474	14	4.7	15	77	19	74	0	14	7	78	0.95
450411--450460	17	3.1	17	70	24	54	0	12	6	82	0.85
450405--450474	31	2.3	30	83	11	90	0	14	7	78	0.95
453872--453909	19	2.0	20	89	5	60	68	0	23	7	1.16
455449--455491	21	2.0	23	86	9	63	23	23	20	32	1.98
456056--456233	63	2.8	64	80	0	205	26	20	16	35	1.94
461425--461495	35	2.0	35	97	0	133	43	2	32	21	1.67
463210--463241	14	2.3	14	100	0	64	25	31	6	37	1.81
468437--468496	12	5.0	12	78	8	68	16	16	18	48	1.82
468400--468503	48	2.2	48	84	6	131	19	15	15	50	1.79
468400--468508	24	4.5	24	80	4	114	19	14	15	50	1.78
496977--497160	64	2.9	64	77	8	196	30	22	18	28	1.97
496977--497159	65	2.8	65	75	14	191	30	22	18	28	1.97
502968--502992	13	1.9	13	100	0	50	32	8	8	52	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
504322--504348	2	13.5	2	100	0	54	48	0	0	51	1.00
504443--504512	20	3.5	20	88	3	97	44	0	35	20	1.52
508982--509024	17	2.5	17	81	11	52	67	4	23	4	1.28
510716--510771	29	1.9	29	88	0	85	19	8	19	51	1.73
516698--516748	13	4.0	13	74	5	50	25	21	15	37	1.93
516833--516865	2	16.5	2	100	0	66	48	0	0	51	1.00
523172--523204	14	2.4	14	94	0	57	45	9	24	21	1.80
524183--524248	33	2.0	34	84	3	89	30	12	18	39	1.87
526607--526631	11	2.3	11	100	0	50	36	16	20	28	1.93
528378--528448	20	3.8	20	66	19	64	56	15	0	28	1.40
528380--528455	35	2.3	33	84	13	95	59	14	0	26	1.36
529916--530364	182	2.5	182	92	0	729	28	15	12	43	1.83
530235--530512	111	2.5	112	94	2	479	25	16	13	44	1.84
530409--530603	91	2.1	91	92	2	320	25	13	12	48	1.78
530298--530674	202	1.9	202	88	2	578	26	13	12	47	1.79
530943--531100	20	7.8	20	72	2	136	17	21	20	39	1.92
530987--531052	21	3.2	21	67	4	62	21	21	24	33	1.97
530970--531080	41	2.7	41	87	0	159	19	19	22	37	1.94
531630--531654	6	4.2	6	100	0	50	0	16	48	36	1.46
531796--531856	20	3.0	20	92	0	95	49	19	19	11	1.78
531779--531891	40	2.8	40	73	6	120	41	23	18	16	1.90
532977--533011	16	2.2	16	90	10	54	37	2	8	51	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
535350--535398	10	4.5	10	81	18	62	16	12	12	59	1.62
535325--535397	24	2.9	25	84	10	96	16	9	15	58	1.61
535337--535378	14	3.0	14	92	0	66	11	11	16	59	1.61
535627--535704	22	3.5	22	74	6	86	7	3	25	62	1.39
535609--535706	44	2.2	45	98	1	189	10	5	25	59	1.51
535680--535741	13	4.7	13	84	9	65	6	8	24	61	1.48
535834--535866	16	2.1	16	100	0	66	6	12	24	57	1.57
536143--536517	185	2.0	183	91	3	619	42	3	9	45	1.52
540364--540424	23	2.7	21	75	18	59	57	1	3	37	1.25
540560--540611	25	2.1	25	86	13	72	38	0	0	61	0.96
540570--540616	8	5.6	8	76	18	51	29	0	0	70	0.88
543794--544152	128	2.8	128	89	4	541	22	24	20	33	1.97
544552--544652	34	3.0	34	86	0	148	38	3	3	53	1.38
545171--545240	21	3.3	20	86	5	86	20	25	35	18	1.95
545246--545285	21	1.9	21	89	0	62	30	12	32	25	1.92
545245--545291	21	2.2	21	80	0	58	27	12	36	23	1.91
546943--547017	30	2.5	30	80	8	80	62	1	0	36	1.04
546958--547043	34	2.5	34	83	3	93	61	4	0	33	1.17
547076--547126	25	2.1	25	96	3	95	41	0	21	37	1.54
547707--547754	16	3.0	16	81	9	62	39	0	4	56	1.19
548907--548965	31	1.9	31	96	0	109	42	6	8	42	1.61
548990--549032	22	2.0	22	100	0	86	51	13	0	34	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
549043--549087	22	2.0	22	100	0	90	48	13	0	37	1.42
549041--549093	22	2.4	22	90	6	81	52	11	0	35	1.37
548980--549833	54	15.8	54	84	6	1097	51	12	0	35	1.43
549099--549147	22	2.2	22	85	3	62	55	12	0	32	1.37
549151--549193	22	2.0	22	100	0	86	51	13	0	34	1.42
549153--549201	22	2.2	22	88	3	71	55	14	0	30	1.40
549207--549255	22	2.2	22	85	3	62	55	12	0	32	1.37
549259--549301	22	2.0	22	100	0	86	51	13	0	34	1.42
549261--549309	22	2.2	22	88	3	71	55	14	0	30	1.40
549335--549496	32	5.7	32	70	26	139	51	9	1	37	1.46
549421--549463	22	2.0	22	100	0	86	51	13	0	34	1.42
549423--549471	22	2.2	22	88	3	71	55	14	0	30	1.40
549102--549822	80	8.9	80	79	13	728	52	12	0	34	1.44
549559--549632	22	3.2	22	73	19	62	52	17	1	28	1.53
549603--549822	32	7.7	32	74	24	215	52	13	0	33	1.41
549637--549711	22	3.2	23	75	17	82	54	17	0	28	1.43
549706--549758	14	3.5	14	72	18	52	56	5	0	37	1.23
549747--549789	22	2.0	22	100	0	86	51	13	0	34	1.42
549749--549797	22	2.2	22	88	3	71	55	14	0	30	1.40
549821--549940	15	8.0	15	96	0	204	48	0	0	51	1.00
549766--549940	30	5.5	33	84	8	125	49	4	0	46	1.20
551599--551628	8	3.6	8	91	8	51	26	0	0	73	0.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
555660--555972	156	2.0	156	100	0	626	34	15	19	30	1.93
560790--560835	23	2.0	23	91	0	74	17	28	19	34	1.94
567783--567873	44	2.0	44	85	4	119	15	24	23	37	1.93
567783--567851	23	3.0	23	84	0	93	15	24	23	36	1.94
567783--567882	23	4.5	22	80	8	87	15	23	24	38	1.92
567851--567895	22	2.0	22	86	0	63	13	17	24	44	1.85
569733--569788	23	2.4	23	73	5	60	62	5	0	32	1.18
570738--570781	21	2.0	23	86	8	65	9	6	9	75	1.20
571108--571636	55	9.6	55	84	5	589	29	20	18	31	1.96
571108--571636	110	4.8	109	86	3	663	29	20	18	31	1.96
571108--571636	165	3.2	165	87	3	717	29	20	18	31	1.96
571618--571657	21	1.9	21	100	0	80	42	10	30	17	1.82
571563--571712	76	2.0	76	94	0	264	33	18	20	28	1.96
571639--571813	55	3.2	54	84	3	217	30	21	18	30	1.97
571508--571763	131	2.0	131	89	4	401	31	19	19	29	1.97
571453--571813	186	1.9	186	86	4	514	30	19	19	30	1.97
574466--574933	252	1.9	250	87	1	695	30	17	16	35	1.92
583121--583149	15	2.0	15	93	6	51	31	0	6	62	1.22
585072--585124	21	2.5	21	81	6	72	20	26	18	33	1.96
585114--585165	21	2.5	21	87	3	70	38	17	23	21	1.93
585194--585267	20	3.7	20	85	3	103	20	20	18	40	1.92
585196--585282	41	2.1	41	82	4	104	22	19	20	36	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
585264--585331	20	3.3	20	85	6	73	39	17	25	17	1.91
585296--585371	20	3.8	20	86	6	118	38	21	18	22	1.94
585298--585389	40	2.3	40	98	0	175	34	21	18	25	1.96
585298--585389	20	4.6	20	82	8	107	34	21	18	25	1.96
585599--585658	27	2.2	27	84	3	75	45	30	5	20	1.72
585908--585974	19	3.5	19	85	2	89	47	25	16	10	1.78
585970--586148	19	10.1	19	70	19	127	12	24	19	43	1.86
585970--586082	52	2.2	52	93	0	190	11	23	21	43	1.85
586036--586123	33	2.6	33	96	1	158	12	26	21	39	1.89
586044--586099	14	3.6	14	74	21	58	10	25	25	39	1.87

Tables:   1   2   3   4   5   6