genome.fa.s6235.2.7.7.80.10.50.1000.3.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: VEPZ01006235.1 Hibiscus syriacus cultivar Beakdansim tig00014862_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  996025

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 569 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)
380362--380426	23	2.8	23	90	0	103	35	4	20	40	1.73
380354--380431	23	3.5	22	85	3	95	35	3	20	39	1.71
380731--380775	22	2.0	22	83	8	56	40	13	8	37	1.76
380793--380865	23	3.2	23	90	0	110	35	5	20	38	1.76
380093--380971	439	2.0	437	95	0	1578	42	7	11	39	1.68
382679--382729	22	2.4	22	81	12	61	56	0	1	41	1.10
385246--386065	411	2.0	409	98	1	1590	35	12	7	44	1.71
386211--386235	12	2.1	12	100	0	50	68	0	16	16	1.22
386597--386661	31	2.1	31	85	5	87	44	21	12	21	1.85
389827--389871	20	2.2	20	96	0	81	35	13	24	26	1.92
389900--389931	17	1.9	16	93	6	55	40	3	12	43	1.58
390035--390075	22	1.9	21	85	5	55	21	24	21	31	1.98
390207--391302	219	5.0	219	92	1	1754	41	8	13	36	1.75
391538--391599	24	2.6	23	85	7	79	64	3	1	30	1.19
392217--392350	65	2.1	65	88	2	198	28	22	18	30	1.97
392229--392370	65	2.2	66	82	6	173	29	22	19	28	1.98
396063--396137	36	2.1	36	94	0	132	32	29	18	20	1.96
397654--397710	24	2.4	24	96	0	105	36	1	42	19	1.62
402915--402963	20	2.5	20	83	9	57	30	14	4	51	1.61
404808--404851	19	2.2	20	84	11	56	56	2	2	38	1.24
405440--405485	21	2.2	21	88	0	65	30	30	15	23	1.95
405766--405811	24	1.9	24	86	0	65	56	21	13	8	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
405765--405823	24	2.5	24	77	0	64	57	18	11	11	1.64
414423--414462	21	1.9	21	89	0	62	10	25	40	25	1.86
418315--418354	21	1.9	21	85	10	55	35	10	2	52	1.48
425331--425387	18	3.2	18	70	9	53	45	5	7	42	1.53
427547--427648	19	5.1	20	83	11	129	18	38	27	15	1.91
428923--428970	19	2.5	20	82	3	62	52	6	12	29	1.63
430407--430508	20	5.1	20	87	2	150	18	36	29	15	1.92
430409--430508	41	2.5	41	95	1	175	19	35	30	16	1.93
433215--433289	2	37.5	2	100	0	150	49	0	0	50	1.00
437947--438551	54	11.2	54	81	3	612	31	20	24	22	1.98
438703--438752	26	2.0	24	88	7	73	46	0	0	54	1.00
441642--441690	17	2.9	17	96	0	89	42	0	6	51	1.27
443900--443951	26	2.0	26	100	0	104	23	26	23	26	2.00
447668--447740	31	2.4	31	90	4	112	19	12	26	42	1.86
447683--447749	31	2.2	31	86	2	91	20	17	25	35	1.95
450413--450470	18	3.4	18	76	13	68	22	0	50	27	1.50
450413--450466	21	2.8	19	86	8	65	24	0	50	25	1.50
450423--450519	27	3.4	27	78	15	113	26	0	45	27	1.54
450419--450606	33	5.9	33	86	7	253	28	0	42	28	1.60
450423--450606	60	3.0	60	88	6	253	28	0	42	28	1.60
451555--451631	35	2.2	36	97	2	147	46	19	9	24	1.79
451573--451629	18	3.2	18	67	2	53	47	19	8	24	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
451911--452047	15	9.1	15	85	0	175	45	13	15	25	1.83
460221--460278	29	2.0	29	100	0	116	34	24	10	31	1.89
469580--469636	29	2.0	29	82	6	71	71	7	10	10	1.29
470435--470481	11	4.2	11	82	15	60	38	0	0	61	0.96
470432--470482	18	2.8	17	82	14	50	37	0	0	62	0.95
470436--470482	23	2.0	24	88	8	71	36	0	0	63	0.94
473482--473555	28	2.6	29	81	12	82	40	8	14	36	1.76
476011--476045	18	2.0	18	88	5	54	42	22	17	17	1.88
477287--477319	3	11.3	3	87	6	50	30	30	3	36	1.73
477637--478178	4	136.0	4	99	0	1070	50	24	0	25	1.50
484064--485739	105	16.0	105	95	0	2898	32	25	18	23	1.97
486059--486160	31	3.2	32	80	6	118	38	20	8	32	1.84
490883--490948	28	2.4	28	92	0	105	27	19	7	45	1.77
490969--491011	22	2.0	22	90	0	68	25	11	16	46	1.80
491815--491847	17	2.0	17	88	5	50	45	6	9	39	1.61
493964--494024	3	20.7	3	83	9	81	34	0	0	65	0.93
495587--495622	17	2.3	15	90	9	54	61	0	2	36	1.11
502720--502944	113	2.0	113	90	0	351	33	15	20	31	1.93
505590--505644	22	2.5	22	93	0	101	34	10	14	40	1.81
506318--506499	76	2.4	76	88	1	276	25	20	20	33	1.97
506511--507501	113	8.8	113	91	2	1388	36	14	20	28	1.92
506564--507618	339	3.1	330	82	7	1079	36	14	20	28	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
507840--507892	3	18.7	3	83	14	51	26	0	0	73	0.83
517571--517617	24	1.9	25	86	4	69	38	2	8	51	1.45
529566--529677	56	2.0	56	100	0	224	16	30	17	35	1.92
529827--530103	137	2.0	139	97	2	531	39	14	14	31	1.86
533664--534115	182	2.5	183	91	1	721	28	14	12	44	1.82
533986--534334	112	3.1	110	89	4	511	26	14	13	45	1.82
540922--540950	13	2.2	13	100	0	58	24	0	0	75	0.80
548546--548642	35	2.7	36	81	7	117	21	23	18	36	1.95
548546--548654	36	3.1	36	82	6	132	19	22	17	40	1.91
550826--550883	24	2.6	23	78	15	68	68	8	3	18	1.30
551112--551151	4	10.0	4	83	0	53	67	0	5	27	1.11
552293--552342	24	2.0	25	88	11	75	54	6	0	40	1.25
552305--552593	74	3.9	74	81	6	282	44	6	4	43	1.51
552442--552466	11	2.3	11	100	0	50	44	8	8	40	1.63
552478--552502	12	2.1	12	100	0	50	44	8	8	40	1.63
552305--552629	39	8.7	38	75	16	240	45	6	4	43	1.50
553272--554535	165	7.6	165	88	2	1798	25	20	25	29	1.99
559366--559426	24	2.8	20	77	18	68	70	8	3	18	1.26
559659--559698	4	10.0	4	88	0	62	70	0	2	27	1.01
560774--560818	23	2.0	23	82	8	56	55	8	0	35	1.31
560782--561056	37	7.7	35	74	17	189	45	7	4	42	1.53
560782--561056	71	3.8	73	79	12	261	45	7	4	42	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
560949--560973	12	2.1	12	100	0	50	44	8	8	40	1.63
570123--570160	2	19.0	2	100	0	76	50	0	0	50	1.00
571382--571445	33	1.9	33	93	0	110	50	20	6	23	1.71
573035--573069	10	3.6	10	84	7	54	22	5	0	71	1.07
574040--574085	19	2.4	19	100	0	92	19	17	32	30	1.95
576598--576701	44	2.4	44	91	1	174	27	20	22	29	1.98
582498--582543	19	2.4	19	100	0	92	19	17	32	30	1.95
586249--586424	61	2.9	60	79	9	162	42	4	20	32	1.72
589005--589052	23	2.1	23	92	0	78	39	8	14	37	1.76
589476--589922	182	2.5	182	93	0	734	26	16	14	42	1.86
589841--589886	20	2.3	20	80	0	56	15	10	17	56	1.67
592748--594192	199	7.2	199	93	2	2148	28	14	15	41	1.86
596780--596821	15	2.8	15	88	0	66	26	2	52	19	1.58
597174--598267	199	5.5	199	92	1	1762	28	14	14	42	1.85
598611--598659	19	2.6	19	90	3	73	57	10	2	30	1.43
601737--601778	15	2.8	15	88	0	66	26	2	52	19	1.58
602126--603027	199	4.5	199	93	0	1545	28	15	15	41	1.86
603371--603419	19	2.6	19	90	3	73	57	10	2	30	1.43
604883--604921	18	2.2	18	90	9	62	5	38	0	56	1.22
605592--605647	24	2.5	21	76	20	60	48	8	1	41	1.45
606896--606944	19	2.6	20	81	12	68	40	16	0	42	1.48
607328--608533	182	6.6	182	87	1	1605	27	15	13	44	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
607328--608533	365	3.3	363	88	1	1691	27	15	13	44	1.83
608462--608500	20	1.9	21	94	5	71	12	15	25	46	1.81
607328--608533	547	2.2	545	91	0	1937	27	15	13	44	1.83
609738--609895	81	2.0	81	83	2	201	27	6	24	41	1.80
616132--616210	39	2.0	39	100	0	158	15	25	41	17	1.88
616192--616235	23	1.9	23	100	0	88	9	25	40	25	1.84
616189--616242	23	2.4	22	84	9	81	11	24	42	22	1.85
616707--617021	172	1.8	173	90	2	510	40	4	17	36	1.71
618761--618797	6	6.2	6	100	0	74	16	0	64	18	1.29
619261--619553	37	7.4	41	80	14	220	51	6	4	38	1.47

Tables:   1   2   3   4   5