genome.fa.s8539.2.7.7.80.10.50.1000.4.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: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6067759

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   

This is table  4  of  31  ( 3630 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)
534320--534362	19	2.5	17	79	17	52	67	6	0	25	1.15
534290--534362	35	2.1	35	82	10	87	64	5	0	30	1.16
535714--535771	16	3.6	16	85	0	71	10	12	18	58	1.61
541249--541780	252	2.1	253	83	2	658	34	16	16	31	1.92
543470--543503	15	2.3	15	100	0	68	17	35	23	23	1.95
544480--544512	16	2.1	16	100	0	66	57	24	12	6	1.57
549166--549421	132	1.9	132	97	0	485	37	13	14	34	1.85
553094--553127	17	2.0	17	88	0	50	73	5	2	17	1.16
555066--555105	19	2.1	19	95	0	71	47	40	0	12	1.41
555071--555109	19	2.1	19	90	0	60	48	41	0	10	1.37
559471--559507	14	2.5	16	83	16	53	75	5	18	0	0.99
561038--561192	65	2.5	63	87	6	217	40	18	12	28	1.87
561113--561388	125	2.2	125	78	6	283	37	22	14	26	1.92
561170--561428	125	2.1	123	83	2	322	35	23	14	26	1.93
563879--563915	18	2.1	18	89	0	56	56	21	5	16	1.59
571391--571464	18	4.4	18	79	17	97	17	50	20	12	1.78
571413--571449	13	2.8	13	91	0	65	16	48	21	13	1.80
571461--571494	7	4.7	7	92	7	59	14	32	29	23	1.94
571395--571471	31	2.5	31	91	4	131	16	46	22	14	1.83
571463--571493	15	2.1	15	100	0	62	12	35	25	25	1.92
572806--572841	18	2.0	18	88	0	54	52	0	16	30	1.44
573969--574075	24	4.5	24	72	0	88	23	13	15	47	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
576193--576268	13	5.3	13	77	17	71	15	44	22	17	1.86
576171--576247	18	4.6	18	81	15	110	16	50	20	11	1.76
576175--576253	31	2.5	31	95	0	149	16	48	21	13	1.81
576229--576275	8	6.5	8	77	22	59	14	38	25	21	1.92
576245--576276	7	4.4	7	92	7	55	12	34	28	25	1.92
576229--576275	15	3.3	15	91	5	71	14	38	25	21	1.92
577588--577623	18	2.0	18	88	0	54	52	0	16	30	1.44
578749--578855	24	4.5	24	72	0	88	23	13	15	47	1.81
579832--579880	20	2.3	22	93	6	84	51	14	4	30	1.61
580303--580341	19	2.1	19	85	0	51	2	2	28	66	1.18
580367--580438	20	3.3	23	75	14	71	4	16	20	58	1.55
580369--580422	20	2.7	20	88	0	81	3	14	22	59	1.51
580389--580446	22	2.5	22	86	5	71	5	15	24	55	1.61
581123--581175	23	2.3	23	90	0	79	30	26	22	20	1.98
581793--581912	54	2.2	55	84	1	152	30	20	19	29	1.97
583450--583489	19	2.0	20	86	13	57	40	2	2	55	1.27
583773--584122	81	4.3	81	87	0	486	22	17	22	38	1.93
584216--585913	67	25.5	67	85	2	2085	32	17	22	27	1.96
584418--584475	29	2.0	29	86	0	80	25	18	27	27	1.98
584954--585078	29	4.0	29	70	17	88	29	14	27	28	1.95
584983--585106	38	3.5	38	69	20	124	33	13	23	29	1.93
592275--592301	14	1.9	14	100	0	54	59	0	3	37	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
593401--593459	3	20.3	3	74	19	54	3	0	33	62	1.12
593395--593457	31	2.0	31	90	6	101	3	0	33	63	1.10
593399--593468	31	2.3	31	85	9	90	4	0	34	61	1.16
593393--593470	22	3.8	20	76	14	72	3	0	33	62	1.13
593404--593486	31	2.8	29	76	13	71	6	0	31	62	1.19
593478--593516	20	2.0	20	85	10	53	7	20	12	58	1.58
594230--594263	3	11.3	3	100	0	68	67	0	0	32	0.91
594309--594369	18	3.0	20	79	16	63	36	1	1	60	1.16
594316--594356	18	2.3	18	91	4	66	36	0	0	63	0.95
594330--594423	23	4.1	23	73	20	72	39	4	1	55	1.27
594316--594423	21	5.2	20	73	21	71	38	3	0	56	1.23
594354--594423	20	3.2	21	78	13	72	40	5	1	52	1.34
594316--594423	44	2.5	45	82	8	127	38	3	0	56	1.23
594384--594460	36	2.2	36	88	6	113	38	11	0	49	1.39
595093--595175	43	1.9	43	85	0	112	20	21	20	37	1.95
599284--599312	8	3.8	8	90	9	51	65	0	0	34	0.93
599345--599452	4	25.8	4	71	17	69	73	2	1	22	1.06
599388--599442	13	4.2	13	81	9	67	78	1	0	20	0.85
599400--599452	22	2.6	20	82	11	63	79	1	0	18	0.83
600635--600697	21	3.0	21	75	15	67	66	0	0	33	0.92
600695--601074	39	10.0	37	80	11	376	44	7	1	46	1.41
600703--601080	38	10.0	36	79	13	329	44	7	1	46	1.41
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
600703--601118	39	10.7	38	78	13	306	43	6	1	47	1.40
601716--602125	85	4.8	85	89	0	608	24	18	21	35	1.95
601716--602125	169	2.4	169	89	2	617	24	18	21	35	1.95
608921--608961	17	2.2	19	87	12	59	73	0	0	26	0.84
608920--608952	4	8.2	4	87	12	50	75	0	0	24	0.80
608921--608959	20	1.9	21	94	5	71	74	0	0	25	0.82
608920--608987	24	2.8	24	78	14	70	69	0	1	29	0.98
608922--608974	11	5.3	9	82	14	52	67	0	0	32	0.91
608985--609427	39	11.9	37	77	14	312	45	7	2	45	1.43
609054--609111	12	5.0	12	70	16	50	48	6	0	44	1.29
609174--609228	28	2.0	28	88	0	83	49	7	1	41	1.41
609186--609286	15	7.5	14	66	29	51	50	4	0	44	1.23
610917--610998	21	3.9	21	72	3	76	35	9	17	37	1.82
610917--611010	21	4.4	20	72	10	73	35	10	15	38	1.83
618600--618715	29	3.9	29	94	2	178	23	16	8	51	1.71
625803--625859	20	2.8	20	91	0	96	19	33	29	17	1.95
627157--627204	19	2.5	20	82	3	62	52	6	12	29	1.63
627203--627253	23	2.2	24	82	3	59	58	1	11	27	1.44
628658--628743	23	4.0	21	79	11	102	19	40	26	12	1.88
628658--628743	43	2.0	43	90	2	138	19	40	26	12	1.88
631913--631992	21	3.8	21	88	0	124	18	40	27	13	1.89
631913--631992	42	1.9	42	94	0	142	18	40	27	13	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
634194--634240	23	2.0	24	87	4	69	34	2	10	53	1.48
634199--634246	23	2.0	23	84	4	60	35	2	12	50	1.52
638919--638956	18	2.1	19	85	5	51	15	18	50	15	1.79
639913--639996	24	3.4	25	82	11	109	34	15	11	38	1.84
639953--640049	41	2.4	39	81	10	106	34	14	12	39	1.83
639977--640010	17	2.0	17	100	0	68	35	11	11	41	1.78
639953--640050	40	2.4	41	86	5	128	33	14	12	39	1.83
646307--646357	6	8.5	6	93	0	75	0	56	0	43	0.99
646311--646361	12	4.2	12	94	0	84	0	58	0	41	0.98
646307--646357	18	2.8	18	93	0	84	0	56	0	43	0.99
646311--646366	6	9.3	6	92	0	67	0	57	0	42	0.99
646305--646363	18	3.4	17	86	4	73	0	54	0	45	0.99
651801--651853	24	2.2	24	100	0	106	37	16	18	26	1.93
658662--658687	2	13.0	2	100	0	52	50	0	0	50	1.00
662613--662646	17	1.9	18	94	5	61	14	20	35	29	1.93
663012--663068	2	28.5	2	100	0	114	50	0	0	49	1.00
663844--663888	23	2.0	22	82	4	54	44	0	22	33	1.53
664051--664092	16	2.6	16	100	0	84	30	4	21	42	1.73
667157--667340	95	1.9	94	83	3	235	35	14	24	26	1.93
667709--667915	59	3.5	59	82	2	256	37	10	19	32	1.85
667933--667967	2	17.5	2	100	0	70	51	0	0	48	1.00
668165--668559	68	5.8	68	90	0	603	31	14	23	30	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
670273--670326	27	1.9	29	85	7	76	25	12	5	55	1.59
672815--672876	32	1.9	32	90	0	97	16	16	11	56	1.67
688231--688264	16	2.1	16	94	0	59	50	20	0	29	1.49
688606--688686	36	2.2	37	84	8	103	32	14	17	35	1.90
688606--688712	37	2.9	37	82	10	114	28	15	16	39	1.90
688914--688969	30	1.9	29	92	7	96	33	14	14	37	1.86
688942--689163	61	3.5	62	78	14	231	32	12	12	42	1.80
688858--689030	90	1.9	91	80	14	207	28	13	15	42	1.85
689296--689560	131	2.0	129	86	2	370	25	32	17	24	1.97
689761--689819	3	19.3	3	77	10	57	37	0	3	59	1.14

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31