genome.fa.s8430.2.7.7.80.10.50.1000.3.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: VEPZ01008430.1 Hibiscus syriacus cultivar Beakdansim tig00111220_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1186098

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 614 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)
520901--520957	30	1.9	30	92	3	98	43	17	5	33	1.71
522538--522614	21	3.7	21	94	1	120	32	16	28	22	1.96
522677--522734	21	2.8	21	97	0	107	22	18	37	20	1.94
522815--522871	30	1.9	29	96	3	105	45	17	5	31	1.71
525574--525617	2	22.0	2	100	0	88	50	0	0	50	1.00
526893--528139	6	208.0	6	97	2	2373	33	0	16	49	1.46
533839--533915	31	2.4	32	86	2	111	37	2	11	48	1.54
540608--540644	17	2.2	17	90	4	58	21	0	21	56	1.42
541724--541793	23	3.1	22	81	6	86	22	27	22	27	1.99
543803--543835	10	3.0	11	86	13	50	18	18	18	45	1.86
543794--543835	22	1.9	22	95	0	75	16	21	19	42	1.89
543794--543835	12	3.7	12	84	12	61	16	21	19	42	1.89
549518--549588	24	3.0	24	81	2	90	19	23	25	30	1.98
550200--550237	12	3.2	12	88	0	58	21	18	21	39	1.93
554384--554436	23	2.2	24	86	3	72	26	7	22	43	1.80
554545--554699	77	2.0	77	97	0	292	52	12	13	21	1.72
566641--566671	15	2.1	15	93	0	53	22	16	29	32	1.95
568080--568264	91	2.0	92	94	1	327	52	7	11	28	1.65
570774--570826	20	2.7	20	80	16	65	32	24	11	32	1.91
574369--574433	20	3.2	20	84	4	87	20	16	23	40	1.92
574496--574645	65	2.3	64	90	3	230	52	16	2	30	1.55
574623--574659	14	2.6	14	91	0	65	48	18	0	32	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
576014--576130	21	5.6	20	78	9	110	24	18	34	22	1.96
576014--576136	42	2.9	41	81	4	165	25	18	34	21	1.96
576539--576588	21	2.4	21	79	0	55	32	34	14	20	1.92
578587--578643	22	2.6	22	91	0	87	21	15	40	22	1.91
578791--578859	20	3.5	20	87	0	93	24	17	21	36	1.95
579905--580279	92	4.1	92	89	3	580	36	13	17	32	1.89
579905--580277	179	2.1	181	89	2	570	36	13	17	32	1.89
592893--592943	21	2.4	21	96	0	93	19	23	27	29	1.98
593903--594097	41	4.7	42	74	8	150	35	22	20	22	1.96
593903--594097	62	3.1	62	88	1	293	35	22	20	22	1.96
600356--600399	22	2.0	22	86	4	63	50	11	6	31	1.65
600448--600474	12	2.2	12	100	0	54	33	7	33	25	1.84
603897--604022	31	4.1	31	82	4	148	43	16	16	23	1.87
604338--604410	21	3.5	21	81	3	85	21	21	19	36	1.95
604316--604432	41	2.9	41	78	7	114	26	22	18	32	1.97
604400--604511	20	5.6	20	81	4	127	37	19	20	22	1.94
604400--604493	41	2.3	41	87	1	127	39	18	21	21	1.93
605040--605121	33	2.5	33	88	6	112	45	21	20	12	1.84
605064--605128	33	2.0	33	90	0	103	46	21	21	10	1.82
605141--605191	14	3.1	17	72	21	54	11	23	23	41	1.87
607369--607435	21	3.2	21	66	6	55	23	35	20	19	1.95
607317--607435	42	2.8	42	79	5	98	22	36	17	23	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
610920--611007	20	4.4	20	89	0	113	28	19	27	25	1.99
611018--611069	21	2.5	20	84	3	59	38	15	23	23	1.92
611066--611167	20	5.1	20	82	7	107	29	26	19	24	1.98
611055--611167	41	2.8	41	82	4	113	31	24	18	24	1.97
611100--611167	20	3.4	20	95	0	118	23	29	20	26	1.99
611140--611185	20	2.3	20	84	0	56	30	26	19	23	1.98
611054--611185	40	3.3	40	79	1	129	33	23	18	24	1.97
611380--611449	34	2.1	33	86	2	95	40	21	24	14	1.90
611472--611516	19	2.4	19	88	0	63	17	22	20	40	1.92
613104--613195	42	2.2	42	86	1	132	21	15	41	21	1.90
613559--613631	20	3.7	20	90	0	101	34	23	26	16	1.95
613634--613692	14	3.9	14	72	20	55	49	22	16	11	1.78
613618--613697	33	2.4	33	95	0	142	47	20	18	13	1.82
613618--613708	33	2.8	33	91	3	121	47	21	17	13	1.82
613704--613800	19	5.7	18	67	23	66	15	18	18	47	1.83
613707--613800	33	2.8	33	90	0	152	15	18	18	47	1.82
613789--613827	20	2.0	20	94	0	69	23	23	20	33	1.97
615725--615763	20	2.0	20	94	0	69	51	17	15	15	1.77
616047--616090	22	2.0	22	90	0	70	20	15	43	20	1.88
616257--616394	41	3.4	41	85	2	197	21	17	25	35	1.95
616277--616390	20	5.7	20	83	6	140	21	18	27	32	1.97
616380--616435	21	2.7	21	97	0	103	19	23	17	39	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
616277--616411	41	3.3	40	86	3	164	22	19	25	33	1.97
616380--616448	21	3.3	21	89	2	86	20	23	15	40	1.91
616442--616494	21	2.5	22	78	6	65	35	18	24	20	1.95
622575--622653	34	2.3	34	95	0	140	25	31	11	31	1.91
624890--624937	14	3.8	13	78	13	55	54	0	0	45	0.99
624883--624941	24	2.3	26	88	8	95	54	0	0	45	0.99
624883--624941	13	4.7	13	80	14	70	54	0	0	45	0.99
626054--626122	3	22.7	3	91	2	111	62	0	37	0	0.96
626103--626307	101	2.0	101	100	0	410	49	11	20	17	1.78
636063--636093	15	2.1	15	93	0	53	45	0	0	54	0.99
643561--643612	21	2.5	21	78	12	54	23	36	7	32	1.83
645565--645619	21	2.6	23	88	11	66	49	10	21	18	1.78
645575--645619	21	2.1	21	100	0	90	48	13	22	15	1.79
648637--648695	2	29.5	2	92	0	100	50	3	0	45	1.18
660811--661252	225	2.0	225	91	4	716	45	8	7	38	1.63
661318--661363	20	2.3	19	89	10	74	54	10	17	17	1.70
661482--661528	20	2.4	19	79	10	58	55	8	17	19	1.67
663818--663883	33	2.0	33	87	0	96	28	1	45	24	1.62
665652--665687	16	2.2	17	90	5	56	30	2	11	55	1.49
665770--667368	196	8.1	199	93	4	2750	37	14	15	32	1.88
665770--667368	594	2.7	590	95	2	2784	37	14	15	32	1.88
668817--668884	21	3.4	18	69	21	55	36	8	35	19	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
668817--668913	6	16.3	6	76	2	70	37	7	35	20	1.80
668832--668917	3	29.0	3	75	2	75	36	5	34	23	1.79
668820--668917	12	8.2	12	81	2	81	35	7	34	22	1.82
670763--670787	13	1.9	13	100	0	50	44	16	16	24	1.86
670372--671399	181	5.7	184	95	2	1864	35	14	15	34	1.89
670372--671399	363	2.8	365	95	2	1874	35	14	15	34	1.89
673950--674010	22	2.8	22	85	5	79	34	6	21	37	1.79
673955--674024	21	3.3	21	80	9	70	32	5	21	40	1.77
674376--674438	23	2.7	23	90	0	90	36	6	19	38	1.77
674376--674448	23	3.2	23	86	3	85	35	5	19	39	1.75
673852--674867	429	2.4	430	97	1	1938	40	8	13	37	1.74
674806--674869	22	2.8	23	85	4	85	34	7	18	39	1.80
675072--675108	18	2.1	18	89	0	56	32	5	10	51	1.60
675064--675110	24	2.0	24	86	0	67	34	4	14	46	1.64
676408--676445	16	2.3	17	90	4	60	68	7	10	13	1.39
680833--681228	131	3.0	132	88	1	598	25	23	18	31	1.98
682300--682337	20	1.9	20	94	0	67	39	28	5	26	1.78
684584--684623	20	1.9	22	85	10	57	52	2	7	37	1.43
698262--698300	18	2.2	18	86	4	53	43	0	2	53	1.14
698577--698622	20	2.2	21	92	7	76	36	0	4	58	1.18
698852--698896	19	2.3	20	88	11	76	20	15	17	46	1.84
698864--698966	22	5.2	19	77	7	64	23	14	21	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
698828--698940	22	5.4	22	76	10	103	19	16	23	40	1.91
699039--699076	6	6.5	6	90	3	60	31	50	15	2	1.58
699707--699821	22	5.4	22	70	12	96	38	25	16	20	1.93
699689--699821	41	3.2	41	86	4	203	38	24	17	20	1.93
699810--699853	21	2.1	21	86	0	61	34	29	15	20	1.94
700721--700775	27	2.0	27	100	0	110	14	3	32	49	1.61
702407--702469	2	31.5	2	100	0	126	49	0	0	50	1.00
704856--704890	2	18.0	2	94	5	63	48	0	0	51	1.00
706147--706410	140	1.9	137	85	3	368	45	7	9	37	1.64
706528--706967	180	2.4	177	78	7	449	39	10	7	41	1.70

Tables:   1   2   3   4   5   6