genome.fa.s8943.2.7.7.80.10.50.1000.2.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: VEPZ01008943.1 Hibiscus syriacus cultivar Beakdansim tig00112264_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1742779

Tables:   1   2   3   4   5   

This is table  2  of  5  ( 553 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)
375032--375429	43	9.3	42	79	6	372	34	19	21	24	1.97
375032--375429	127	3.1	126	81	7	349	34	19	21	24	1.97
375965--376019	20	2.8	20	86	10	85	54	5	9	30	1.54
379003--379225	41	5.4	41	83	3	277	39	17	17	26	1.91
379003--379225	83	2.7	82	82	3	268	39	17	17	26	1.91
378991--379225	124	1.9	125	89	0	364	39	16	16	27	1.90
415512--415553	17	2.5	17	84	3	50	28	19	19	33	1.96
429376--429498	59	2.1	59	83	3	149	30	16	22	30	1.96
434838--435265	60	7.2	60	89	1	590	35	13	21	28	1.92
439381--439992	60	10.2	60	88	1	827	35	12	22	29	1.91
439381--439992	242	2.6	241	87	3	853	35	12	22	29	1.91
441813--441864	21	2.4	22	81	15	63	36	1	17	44	1.60
442186--442218	16	2.1	16	88	11	50	36	6	27	30	1.81
443190--443270	40	2.0	41	85	7	110	38	16	11	34	1.84
443817--443918	44	2.3	44	93	0	168	52	1	20	24	1.56
446422--446556	58	2.3	59	84	6	168	28	14	25	31	1.95
452646--452715	31	2.2	31	84	2	86	27	27	7	38	1.82
453471--453534	20	3.2	20	77	6	67	79	1	15	3	0.93
453461--453534	27	2.8	26	80	16	80	79	1	16	2	0.91
453461--453548	12	8.0	11	76	12	67	77	1	18	3	0.97
453462--453544	29	3.0	27	78	16	91	77	1	18	3	0.99
454543--454676	44	3.0	44	84	1	178	33	16	20	29	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
456144--456219	43	1.9	36	80	19	82	27	15	15	40	1.88
456103--456426	45	7.3	45	81	5	290	23	15	16	44	1.86
456103--456404	135	2.3	133	82	5	353	25	14	16	43	1.86
456445--456588	45	3.2	45	79	3	112	19	16	18	45	1.85
457404--457593	41	4.4	42	66	17	109	34	16	19	30	1.94
457354--458794	131	10.9	130	80	5	1428	31	18	17	32	1.94
457374--458794	395	3.6	392	80	5	1541	31	18	17	32	1.94
465981--466090	53	2.1	53	96	0	202	25	20	19	34	1.96
468255--468404	81	1.9	78	81	9	178	46	6	8	39	1.59
469398--469429	17	1.9	17	93	6	57	56	3	0	40	1.15
469737--469864	66	1.9	66	84	3	168	39	17	20	23	1.92
469745--469891	31	4.6	30	77	9	123	38	18	19	23	1.93
474104--474129	11	2.4	11	100	0	52	0	7	0	92	0.39
482314--482387	20	3.5	20	78	8	85	25	20	22	31	1.98
490369--490470	51	2.0	51	96	0	186	41	7	4	46	1.54
491313--491548	119	2.0	117	92	2	393	42	6	19	30	1.76
491699--491943	122	2.0	122	96	1	456	34	13	15	37	1.86
493772--493812	19	2.2	19	100	0	82	14	24	26	34	1.94
493778--493821	19	2.4	19	88	3	63	15	31	27	25	1.96
499997--500053	21	2.7	21	91	0	87	22	7	29	40	1.80
502363--502415	17	3.1	17	97	0	97	30	11	41	16	1.84
511505--511619	57	2.0	57	96	0	212	20	17	28	33	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
523141--523199	3	20.0	3	96	3	111	33	0	0	66	0.92
536810--536848	18	2.3	17	86	8	53	46	28	0	25	1.53
539985--540031	7	6.5	8	79	20	59	80	19	0	0	0.70
539985--540032	14	3.4	14	100	0	96	79	20	0	0	0.74
543392--543656	39	6.8	39	93	0	415	37	16	18	27	1.92
543670--543876	36	5.6	36	71	10	125	39	11	18	29	1.86
545034--545099	27	2.5	25	83	11	78	0	12	9	78	0.95
552188--552247	26	2.3	26	80	8	70	46	3	0	50	1.18
556797--556838	17	2.5	17	84	0	57	42	11	14	30	1.81
566520--566694	72	2.4	72	92	0	287	26	28	18	26	1.98
567533--567572	21	1.9	21	90	10	64	20	27	5	47	1.70
570042--570083	17	2.5	17	84	0	57	42	11	14	30	1.81
580324--580382	25	2.4	25	80	5	66	74	8	15	1	1.13
609195--609227	1	33.0	1	93	0	57	96	3	0	0	0.20
609221--609254	17	2.0	17	94	0	59	70	8	0	20	1.13
618493--618524	12	2.6	12	95	5	55	90	9	0	0	0.45
618505--618543	8	4.9	8	90	0	51	79	12	0	7	0.93
625506--625585	24	3.5	24	77	6	76	51	13	7	27	1.68
625491--625585	45	2.1	47	84	4	122	51	13	7	27	1.67
625823--625884	29	2.1	30	82	8	74	37	6	19	37	1.78
626261--626286	12	2.2	12	100	0	52	34	0	34	30	1.58
627111--627144	17	2.0	17	100	0	68	41	0	29	29	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
632648--632679	16	2.0	16	93	0	55	65	0	9	25	1.22
637285--637316	13	2.5	13	94	0	55	21	12	37	28	1.90
639315--639369	24	2.3	24	74	0	56	40	23	18	18	1.91
639368--639455	23	3.9	23	73	2	72	31	25	21	21	1.98
639404--639458	23	2.4	23	84	0	74	32	25	25	16	1.96
649625--649664	14	2.9	14	92	0	62	52	20	15	12	1.74
653610--653671	23	2.7	23	82	5	72	24	20	29	25	1.99
662802--662864	31	2.0	31	81	6	74	44	22	1	31	1.62
663169--663215	24	2.0	24	91	0	76	29	23	25	21	1.99
663174--663223	24	2.1	24	88	0	73	36	22	24	18	1.95
663245--663327	23	3.6	23	86	0	112	30	25	25	19	1.98
663226--663335	46	2.4	46	78	3	116	32	25	22	19	1.97
670669--670728	30	2.0	31	90	9	97	30	10	8	51	1.64
671592--671663	20	3.6	20	94	3	119	34	12	5	47	1.65
675794--675885	20	4.6	20	95	2	159	34	11	5	47	1.63
679750--679819	34	2.0	35	88	2	106	27	11	10	51	1.69
679721--680004	122	2.3	122	92	0	471	35	9	15	40	1.79
679871--679941	35	2.0	35	88	0	106	23	8	16	50	1.73
686495--686655	87	1.9	86	86	1	232	42	8	12	36	1.72
686701--687373	200	3.4	199	86	3	856	31	14	14	39	1.86
690098--690145	19	2.5	19	89	0	78	52	12	6	29	1.63
692364--692398	3	11.7	3	87	0	52	28	31	2	37	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
693208--693233	2	13.0	2	100	0	52	50	0	0	50	1.00
693896--695374	201	7.5	199	82	6	1576	31	15	13	39	1.87
694966--695005	20	2.0	20	90	0	62	32	15	10	42	1.79
693896--695170	601	2.1	595	85	3	1697	31	15	14	38	1.87
694987--695334	178	2.0	178	85	4	479	32	15	12	39	1.85
695704--695880	66	2.7	66	94	0	318	38	19	5	36	1.74
695769--695997	117	2.0	117	94	0	404	37	20	4	36	1.74
695835--695931	51	1.9	51	95	0	176	35	21	3	40	1.69
695571--696195	183	3.3	183	89	4	883	38	21	5	34	1.77
695886--696195	66	4.7	66	94	0	530	40	21	5	33	1.76
697901--698042	66	2.2	64	78	7	158	21	41	3	33	1.70
700132--700162	15	2.1	15	100	0	62	19	22	0	58	1.40
700472--701019	183	3.0	180	84	3	672	28	15	12	43	1.83
711024--711065	14	2.9	14	86	10	50	61	0	2	35	1.09
711039--711065	14	1.9	14	100	0	54	66	0	0	33	0.92
713042--713409	184	2.0	184	100	0	736	29	16	17	36	1.92
714506--714537	8	4.0	8	95	0	55	40	25	9	25	1.85
715237--715276	15	2.7	15	96	0	71	22	42	5	30	1.75
715699--715740	5	7.8	5	94	5	57	54	0	0	45	0.99
715699--715741	9	4.7	10	78	21	58	53	0	0	46	1.00
715730--715770	20	2.0	20	85	9	55	34	0	29	36	1.58
715699--715741	2	23.5	2	82	17	58	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
724242--724272	16	1.9	16	100	0	62	58	22	12	6	1.58
724337--724411	10	7.7	10	69	21	52	58	20	10	10	1.60
724341--724405	16	4.1	16	83	0	94	58	21	10	9	1.59
725479--725532	10	5.0	10	79	16	54	55	20	11	12	1.67
725492--725522	14	2.2	14	94	0	53	54	22	12	9	1.67
725485--725533	24	2.0	24	96	0	89	53	22	14	10	1.71
727980--728011	14	2.1	16	88	11	50	12	15	21	50	1.77
728266--728339	23	3.2	23	84	5	96	5	9	24	60	1.48
728274--728341	10	6.1	10	72	21	55	7	10	22	60	1.54
729910--730060	70	2.2	70	84	2	187	31	23	15	29	1.95

Tables:   1   2   3   4   5