genome.fa.s2637.2.7.7.80.10.50.1000.3.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: VEPZ01002637.1 Hibiscus syriacus cultivar Beakdansim tig00005377_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3156206

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

This is table  3  of  14  ( 1653 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)
424335--424438	5	19.8	5	77	19	97	2	18	0	77	0.94
424335--424442	17	6.8	16	75	20	102	2	18	0	77	0.94
424334--424442	40	2.8	39	78	19	129	2	18	0	77	0.93
424335--424442	45	2.4	44	80	11	123	2	18	0	77	0.94
434520--434548	14	2.1	14	100	0	58	27	34	13	24	1.93
439549--439591	15	2.9	15	96	3	79	53	0	13	32	1.41
439594--439619	13	2.0	13	100	0	52	38	7	7	46	1.61
442970--442997	3	9.3	3	100	0	56	32	0	0	67	0.91
443397--443455	25	2.3	25	85	8	75	20	13	3	62	1.45
449502--449549	25	1.9	25	86	0	69	33	0	31	35	1.58
460626--460714	30	3.0	30	84	0	115	52	17	6	22	1.68
460648--460828	23	7.2	26	76	12	146	50	16	7	25	1.71
460711--460828	49	2.4	49	87	5	175	49	16	6	27	1.71
462382--462436	25	2.2	25	96	0	101	30	21	3	43	1.70
462503--462528	12	2.2	12	100	0	52	15	30	0	53	1.42
465508--465534	4	6.8	4	100	0	54	77	0	0	22	0.76
466974--467022	25	2.1	24	88	11	75	38	16	16	28	1.90
468741--468826	40	2.1	41	80	6	93	32	15	17	34	1.91
469081--469125	21	2.1	21	100	0	90	55	22	4	17	1.60
477635--477679	24	2.0	22	83	16	56	40	6	15	37	1.74
479546--479647	41	2.5	41	90	0	150	38	15	15	30	1.89
479580--479723	41	3.5	42	78	8	129	35	15	18	30	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
483783--483821	17	2.2	18	86	4	53	30	0	5	64	1.15
486100--486156	13	4.8	12	73	18	57	19	0	10	70	1.16
489213--489267	25	2.2	25	100	0	110	30	20	16	32	1.94
490322--490359	17	2.2	18	85	4	51	52	2	2	42	1.29
491471--491516	21	2.2	21	84	7	58	54	13	2	30	1.50
494935--494959	6	4.2	6	100	0	50	16	0	36	48	1.46
503926--503960	16	2.2	16	100	0	70	17	25	40	17	1.90
503983--504039	10	6.0	9	78	11	51	26	29	28	15	1.96
503983--504039	19	3.0	19	79	5	62	26	29	28	15	1.96
504981--505027	22	2.2	21	85	11	60	48	10	19	21	1.78
505253--505426	77	2.3	77	84	4	233	38	9	17	35	1.81
505290--505460	77	2.2	77	82	2	191	39	8	14	36	1.77
505490--505636	69	2.1	69	81	6	172	31	11	8	48	1.68
507215--507408	79	2.5	79	85	5	270	39	15	6	37	1.74
507557--507609	21	2.5	21	81	6	54	39	3	9	47	1.54
512548--512725	90	2.0	90	95	0	320	44	6	11	37	1.67
513523--513588	20	3.4	19	70	6	60	40	12	15	31	1.83
514103--514151	15	3.2	15	77	5	53	57	14	6	22	1.59
514306--514335	3	10.0	3	92	0	51	30	33	3	33	1.74
515428--515462	2	17.5	2	100	0	70	51	0	0	48	1.00
516006--516042	19	1.9	19	88	0	56	35	13	13	37	1.84
519512--519551	17	2.4	16	84	12	53	20	17	17	45	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
519521--519555	17	2.1	17	100	0	70	17	25	17	40	1.90
525402--525430	14	2.1	14	93	6	51	55	0	0	44	0.99
526415--526469	24	2.2	26	78	12	62	54	1	7	36	1.39
530506--530544	20	2.0	20	85	5	53	66	2	0	30	1.05
533056--533101	2	23.0	2	100	0	92	50	0	0	50	1.00
539038--539072	3	11.3	3	93	6	61	62	0	34	2	1.10
540195--540291	9	11.8	8	81	15	78	77	0	11	11	1.00
540194--540258	9	7.3	9	83	16	91	78	0	10	10	0.97
540193--540275	20	4.3	18	73	21	62	78	0	10	10	0.97
540194--540322	9	15.5	8	75	15	70	79	0	10	9	0.99
541600--541879	55	5.1	55	89	1	447	27	14	28	28	1.95
541600--541882	108	2.6	110	91	2	471	27	14	28	28	1.95
541875--542155	52	5.4	52	89	0	418	29	16	24	28	1.97
542400--542457	3	19.3	3	79	13	66	36	0	1	62	1.06
542417--542447	16	1.9	16	100	0	62	32	0	0	67	0.91
542400--542457	19	3.1	19	90	5	82	36	0	1	62	1.06
546540--546578	3	12.7	3	94	5	69	66	0	0	33	0.92
549066--549167	10	10.2	9	70	19	53	39	1	1	56	1.22
549102--549150	22	2.2	22	86	13	66	40	2	0	57	1.10
549081--549170	28	3.4	26	73	20	80	44	1	0	54	1.07
549118--549185	12	5.0	13	73	21	50	48	0	0	51	1.00
549118--549197	42	1.9	41	84	2	106	47	1	0	51	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
549675--549753	32	2.5	32	81	4	88	56	11	13	17	1.66
552232--552261	14	2.1	15	93	6	53	33	0	16	50	1.46
552479--552542	20	3.0	20	72	22	60	51	0	0	48	1.00
552481--552514	10	3.3	10	87	4	50	47	0	0	52	1.00
552515--552543	14	2.1	14	93	6	51	58	0	0	41	0.98
552498--552545	15	3.0	15	79	11	51	54	0	0	45	0.99
552710--552950	42	5.7	41	85	5	268	33	20	22	23	1.97
552730--552950	85	2.6	84	83	9	261	33	21	21	23	1.97
552710--552949	128	1.9	128	83	6	317	33	20	22	23	1.97
556832--557296	41	11.4	41	78	7	471	35	19	19	25	1.95
556832--557290	124	3.7	124	82	5	506	34	20	19	25	1.96
560987--561208	111	2.0	111	97	0	417	36	8	10	45	1.69
563329--563413	35	2.5	33	76	14	82	25	7	10	56	1.58
566775--566821	21	2.2	21	96	0	85	12	12	36	38	1.82
569279--569717	36	11.9	35	75	13	280	42	2	8	46	1.45
569279--569707	74	5.8	74	76	11	325	43	2	8	46	1.45
569708--569761	15	3.6	16	76	18	62	27	0	0	72	0.85
569708--569767	11	5.5	11	74	9	52	30	0	0	70	0.88
570905--570974	22	3.2	22	75	16	74	17	8	2	71	1.23
570906--570996	43	2.1	45	87	8	134	18	6	4	70	1.27
571056--571134	32	2.8	25	72	24	68	17	5	1	75	1.04
571064--571127	17	3.9	16	72	12	58	17	6	1	75	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
572252--572681	37	11.6	34	73	17	242	43	2	8	46	1.45
572252--572691	38	11.9	35	75	13	289	42	2	8	46	1.45
572252--572681	75	5.8	74	76	11	327	43	2	8	46	1.45
572682--572735	15	3.6	16	76	18	62	27	0	0	72	0.85
572682--572741	11	5.5	11	74	9	52	30	0	0	70	0.88
573381--573510	35	3.5	36	77	11	129	40	3	11	44	1.59
575858--575899	3	13.7	3	95	5	75	66	0	0	33	0.92
576394--576431	17	2.2	17	86	9	51	18	26	5	50	1.68
577003--577052	20	2.4	21	80	10	57	24	18	20	38	1.93
578198--578227	14	2.1	15	93	6	53	33	0	16	50	1.46
578389--578490	10	10.2	9	70	19	53	39	1	1	56	1.22
578425--578473	22	2.2	22	86	13	66	40	2	0	57	1.10
578404--578493	28	3.4	26	73	20	80	44	1	0	54	1.07
578441--578508	12	5.0	13	73	21	50	48	0	0	51	1.00
578480--578508	14	2.1	14	93	6	51	58	0	0	41	0.98
579000--579086	32	2.8	32	81	5	90	60	10	10	18	1.56
581548--581577	14	2.1	15	93	6	53	33	0	16	50	1.46
581799--581849	20	2.5	19	87	9	66	52	0	0	47	1.00
581831--581859	14	2.1	14	93	6	51	58	0	0	41	0.98
581814--581861	15	3.0	15	79	11	51	54	0	0	45	0.99
581913--581952	22	1.9	22	90	10	66	15	10	22	52	1.71
583060--583462	37	10.9	34	75	15	217	43	2	7	45	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
583094--583463	112	3.3	109	78	12	342	44	1	7	46	1.43
583101--583470	38	9.9	36	75	13	164	44	1	7	46	1.43
583060--583471	114	3.7	110	75	17	329	43	2	7	46	1.45
583470--583520	11	4.7	11	76	11	52	29	0	0	70	0.87
584883--584919	16	2.3	16	90	0	56	8	10	0	81	0.89
584883--584928	16	2.9	16	81	12	51	13	10	0	76	1.03
586722--587003	150	1.9	144	86	4	393	35	14	27	21	1.93
587932--588137	99	2.1	99	92	1	342	35	15	16	32	1.90
588125--588163	2	21.0	2	85	15	57	53	0	0	46	1.00
592573--592611	3	12.7	3	94	5	69	66	0	0	33	0.92

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