genome.fa.s8424.2.7.7.80.10.50.1000.3.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: VEPZ01008424.1 Hibiscus syriacus cultivar Beakdansim tig00111207_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4198033

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

This is table  3  of  16  ( 1819 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)
452080--452402	85	3.8	83	82	5	360	26	18	20	34	1.96
460066--460116	21	2.4	21	90	0	84	23	27	21	27	1.99
462459--462500	20	2.2	19	83	12	50	69	11	0	19	1.19
467526--467591	29	2.4	27	80	7	78	54	7	15	22	1.66
467526--467592	28	2.4	28	80	14	75	53	7	14	23	1.66
475960--476074	61	1.9	60	89	5	178	38	1	19	40	1.62
480810--480846	10	3.7	10	88	0	56	21	32	0	45	1.52
481411--481445	17	2.1	17	94	0	61	28	34	11	25	1.91
485092--485152	2	30.5	2	100	0	122	50	0	0	49	1.00
492815--492918	30	3.5	30	86	1	129	40	14	4	40	1.67
494330--494357	14	2.0	14	100	0	56	42	0	0	57	0.99
495578--495646	36	1.9	36	96	0	129	28	2	36	31	1.72
499940--500025	13	7.2	12	72	22	58	29	3	37	30	1.74
499922--500026	36	2.9	36	95	1	185	28	4	36	30	1.78
501821--501853	16	2.1	16	94	0	57	57	9	0	33	1.30
502398--503001	309	1.9	310	82	3	748	45	14	10	29	1.78
502999--503036	2	19.5	2	94	5	69	50	0	0	50	1.00
504732--504768	18	2.1	18	89	0	56	45	10	10	32	1.74
513079--513111	2	16.5	2	100	0	66	51	0	0	48	1.00
514333--514459	63	2.0	63	95	0	227	40	14	4	40	1.68
517395--517441	20	2.3	20	96	0	85	17	12	36	34	1.87
518177--519094	312	3.0	311	86	3	1201	45	12	11	30	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
522612--522684	24	3.0	24	79	0	92	24	9	15	50	1.73
524835--524864	14	2.2	14	94	5	53	16	26	23	33	1.96
527168--527240	24	3.0	24	83	0	101	23	6	17	52	1.69
527399--527444	19	2.4	19	85	7	58	36	2	8	52	1.45
532605--532778	39	4.5	39	84	1	170	31	22	25	20	1.98
532628--532800	39	4.5	37	80	5	121	31	22	26	20	1.98
532628--532813	78	2.4	77	80	3	194	30	22	26	20	1.98
538524--538716	39	4.9	39	88	0	242	32	23	25	18	1.97
540047--540108	29	2.1	29	84	0	79	37	19	9	33	1.84
545672--545744	2	37.0	2	97	2	139	50	0	0	49	1.00
548861--548918	25	2.3	25	100	0	116	34	32	6	25	1.83
549697--550564	312	2.8	312	89	1	1229	44	12	11	30	1.78
552873--553077	39	5.3	38	82	3	216	30	21	29	18	1.97
552874--553077	77	2.6	78	85	3	268	30	22	29	17	1.97
559468--559558	24	3.8	24	80	2	103	28	15	18	37	1.91
559477--559568	47	1.9	48	88	2	141	29	14	19	36	1.91
562139--562186	21	2.3	21	86	10	64	66	14	0	18	1.25
571395--571533	39	3.6	39	82	1	154	31	21	29	17	1.96
571399--571566	39	4.3	39	79	4	115	33	20	27	17	1.95
578220--578258	18	2.2	18	90	0	60	25	5	5	64	1.35
580617--581088	45	10.6	45	86	3	564	38	22	19	20	1.93
581020--581102	43	1.9	43	95	0	148	33	24	22	19	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
592287--592388	24	4.2	24	71	9	82	22	14	14	48	1.81
595779--595814	18	2.0	18	88	0	54	55	0	13	30	1.39
595892--595944	26	2.0	26	82	7	63	35	15	20	28	1.93
597033--597134	24	4.2	24	73	5	80	22	13	16	47	1.82
598500--598538	13	3.0	13	85	10	53	20	17	20	41	1.91
605868--605941	29	2.5	30	97	2	141	43	13	2	40	1.58
606865--606906	2	22.0	2	90	9	70	50	0	0	50	1.00
607379--607406	13	2.2	13	100	0	56	46	0	0	53	1.00
609051--609654	309	1.9	310	82	3	759	45	13	10	30	1.78
611932--612004	27	2.7	28	83	12	82	50	16	9	23	1.74
615652--616255	312	2.0	310	81	7	710	47	11	11	29	1.75
616888--617417	278	1.9	276	83	4	690	45	13	11	29	1.78
618693--618780	31	2.8	31	72	14	74	23	30	27	18	1.97
618739--618815	31	2.5	31	80	2	91	29	31	24	14	1.94
619685--619722	7	5.4	7	93	0	67	28	28	26	15	1.96
619712--619754	22	2.0	22	100	0	86	9	23	48	18	1.76
619751--619849	9	10.3	9	74	10	72	30	27	26	16	1.96
619776--619850	29	2.5	31	89	8	120	30	28	25	16	1.96
619812--619850	21	1.9	20	94	5	69	33	25	25	15	1.95
626031--626154	63	2.0	63	84	6	162	27	29	26	16	1.97
626031--626154	31	3.9	32	75	4	110	27	29	26	16	1.97
627024--627075	7	7.4	7	95	0	95	28	26	28	15	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
627065--627129	22	3.0	22	97	0	121	12	23	46	18	1.82
627127--627224	9	10.2	9	73	10	70	29	26	26	17	1.97
627132--627225	19	4.9	18	75	11	80	29	26	25	18	1.98
627151--627225	29	2.5	31	87	8	120	29	26	26	17	1.97
628913--629520	311	2.0	312	84	3	805	44	12	12	30	1.79
630106--630716	312	2.0	312	84	3	818	45	11	11	30	1.76
630718--630747	2	15.0	2	100	0	60	50	0	0	50	1.00
630866--630936	35	2.0	35	97	0	133	29	26	21	22	1.99
633276--633323	19	2.5	19	83	16	55	37	10	4	47	1.57
636766--636954	39	4.8	39	86	1	195	33	23	25	17	1.96
636763--636954	78	2.5	78	86	3	244	33	23	25	17	1.96
638311--638366	29	1.9	29	88	0	85	41	19	5	33	1.74
642729--642917	39	4.8	39	80	0	216	33	22	24	19	1.97
644252--644312	29	2.1	29	87	0	86	37	14	9	37	1.80
646349--646423	29	2.6	28	83	8	87	41	21	5	32	1.75
646475--646521	17	2.7	18	76	6	60	10	21	46	21	1.81
646459--646508	22	2.3	22	85	0	73	14	20	44	22	1.86
653561--653634	29	2.5	28	82	8	85	39	25	5	29	1.78
653664--653715	13	4.3	13	81	18	76	11	23	48	17	1.79
653670--653716	22	2.1	23	96	4	87	8	23	51	17	1.72
653719--653782	9	6.6	10	80	8	71	35	31	18	14	1.91
655003--655599	313	1.9	313	81	2	716	45	14	11	28	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
656082--657219	298	3.8	307	73	13	803	45	12	11	30	1.77
656679--656716	2	19.0	2	100	0	76	50	0	0	50	1.00
658985--659019	18	1.9	18	88	0	52	22	22	31	22	1.98
663346--663386	21	2.0	21	90	0	64	34	0	17	48	1.47
666629--666668	18	2.2	18	90	0	62	15	55	15	15	1.71
673826--673877	26	2.0	26	84	3	68	34	9	11	44	1.73
675629--675697	30	2.3	30	80	5	77	46	8	15	28	1.76
675712--675751	5	8.2	5	88	5	55	57	0	20	22	1.41
681533--681704	20	7.7	20	65	29	73	22	26	10	40	1.86
681520--681993	46	10.3	46	89	2	727	22	23	10	44	1.83
681718--681980	20	11.6	20	67	21	121	21	23	10	44	1.82
688843--688985	20	6.6	20	70	19	72	20	25	9	44	1.81
688751--688988	112	2.1	112	90	0	377	21	25	9	44	1.81
688797--689078	66	4.2	66	71	16	200	21	24	9	45	1.81
688743--688873	46	2.8	46	92	0	208	22	23	8	45	1.80
688878--689013	26	5.7	25	65	22	78	19	22	10	47	1.79
688745--689031	158	1.8	158	93	0	493	21	24	9	45	1.80
688863--689139	46	6.0	46	90	0	401	21	22	10	45	1.82
708880--708947	30	2.3	29	82	10	75	44	7	17	30	1.76
712409--712978	46	12.4	46	85	0	719	23	20	13	42	1.88
714834--714872	21	1.9	20	100	0	69	12	25	5	56	1.57
716728--717102	194	1.9	194	95	0	678	33	20	8	37	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
718721--719293	46	12.5	46	83	1	657	24	20	12	41	1.87
723997--724026	15	2.0	15	100	0	60	26	53	0	20	1.46
726951--727054	51	2.0	51	96	0	190	44	16	13	25	1.84
731375--731439	21	3.1	21	95	0	121	18	32	29	20	1.96
735745--735800	16	3.2	16	71	28	51	67	1	3	26	1.16
735745--735815	37	1.9	37	83	11	92	69	1	4	25	1.15
737038--737083	3	16.0	3	86	8	51	63	0	0	36	0.95
737021--737067	21	2.2	21	85	14	62	51	0	2	46	1.13
737060--737086	8	3.4	8	100	0	54	74	0	0	25	0.83
737262--737596	113	2.8	125	80	10	346	25	19	14	40	1.89

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