genome.fa.s9017.2.7.7.80.10.50.1000.3.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: VEPZ01009017.1 Hibiscus syriacus cultivar Beakdansim tig00112407_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1192163

Tables:   1   2   3   4   5   6   

This is table  3  of  6  ( 626 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)
508238--508282	22	2.0	22	83	12	56	55	0	8	35	1.31
508564--508626	11	5.8	11	78	14	51	66	1	4	26	1.20
509960--510020	3	19.7	3	80	6	68	59	0	3	37	1.14
510192--510630	45	9.6	45	91	1	574	32	18	22	25	1.97
511283--511344	22	2.9	22	88	4	92	43	12	9	33	1.76
511712--511863	54	2.8	54	85	4	191	25	19	16	38	1.92
515949--515989	9	4.7	9	84	3	57	0	21	0	78	0.76
518032--518070	19	2.1	19	100	0	78	30	25	28	15	1.96
518758--518800	20	2.1	21	86	4	61	69	9	6	13	1.35
518737--518800	27	2.4	27	81	5	76	67	9	7	15	1.41
518975--519060	43	2.0	43	88	0	127	34	24	9	31	1.87
520440--520483	24	1.9	24	90	9	74	70	0	2	27	0.99
520438--520489	24	2.3	23	83	16	72	67	0	5	26	1.13
521479--521541	11	5.8	11	75	14	60	68	1	3	26	1.14
521507--521568	16	3.9	16	69	22	51	66	1	3	29	1.17
522882--522922	3	13.7	3	84	0	55	60	0	2	36	1.10
527310--527357	25	2.0	24	87	4	69	54	20	10	14	1.70
529590--529682	42	2.2	42	90	1	143	49	7	17	25	1.72
529655--529697	14	3.1	14	82	0	50	53	11	16	18	1.72
530156--530180	11	2.3	11	100	0	50	68	16	8	8	1.38
532307--532346	21	1.9	21	84	0	53	25	5	7	62	1.42
533903--533954	21	2.5	21	87	0	77	23	21	25	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
541239--541285	20	2.3	20	88	0	76	34	34	6	25	1.81
550735--550791	21	2.8	21	83	2	71	40	28	12	19	1.87
550814--550885	21	3.5	20	72	10	56	37	30	15	16	1.90
552875--552927	25	2.2	24	93	3	88	37	5	9	47	1.60
556895--556959	32	2.0	32	96	0	121	27	21	16	33	1.95
557115--557171	22	2.6	22	76	13	64	49	8	5	36	1.57
557236--557320	33	2.6	33	73	3	82	54	9	2	34	1.46
557298--557361	32	2.0	32	87	3	94	54	9	4	31	1.53
557442--557484	19	2.2	19	83	8	50	34	6	11	46	1.67
559424--559464	21	2.0	21	85	0	55	39	19	12	29	1.88
561153--561206	20	2.7	19	77	8	63	38	7	14	38	1.75
564944--565108	65	2.6	65	82	0	206	29	22	19	28	1.98
570943--570994	20	2.6	20	96	0	95	28	25	17	28	1.97
571393--571436	18	2.3	20	81	14	58	20	0	13	65	1.26
573255--573287	15	2.1	16	88	5	50	30	3	6	60	1.36
573635--573756	65	1.9	64	91	1	199	31	25	15	27	1.96
573635--573796	65	2.5	65	85	5	195	30	23	16	29	1.96
575666--575717	28	1.9	28	92	7	90	48	5	7	38	1.56
576539--576586	19	2.6	18	83	6	51	29	12	6	52	1.63
578056--578105	20	2.5	20	83	6	66	44	16	2	38	1.59
578687--578732	23	2.1	22	84	8	58	30	2	10	56	1.46
580656--580707	22	2.5	20	79	11	59	30	30	13	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
585235--585325	46	2.0	46	91	0	146	20	20	8	49	1.75
585290--585735	79	5.6	78	89	2	633	26	23	11	38	1.89
585390--585680	34	7.6	34	69	22	168	28	22	11	37	1.89
585571--585698	45	3.1	44	69	24	125	25	21	12	39	1.89
590902--590941	20	2.0	20	90	0	62	32	17	17	32	1.93
594169--594290	44	2.8	44	92	0	199	40	11	21	26	1.87
594380--594427	19	2.6	18	81	15	62	39	4	25	31	1.74
594379--594419	18	2.1	21	86	13	61	46	2	19	31	1.63
595062--595116	21	2.7	21	82	2	67	34	25	16	23	1.95
595161--595233	37	2.0	36	86	2	101	32	28	17	20	1.96
609593--609633	14	2.8	15	82	13	50	65	0	0	34	0.93
612563--612635	28	2.6	29	71	6	69	34	19	6	39	1.78
618336--618380	12	3.6	12	85	11	63	44	17	20	17	1.87
618342--618381	12	3.1	13	86	13	64	45	15	17	22	1.85
623843--624751	106	8.6	106	95	0	1498	33	25	18	22	1.97
625355--625393	17	2.3	17	86	8	53	25	0	2	71	0.98
626513--626571	30	2.1	29	84	9	77	22	6	0	71	1.09
626587--626624	16	2.4	16	79	16	51	15	7	0	76	1.01
628985--629022	20	2.0	19	90	10	60	28	15	10	44	1.80
629011--629109	33	3.0	33	94	1	164	32	7	15	45	1.73
629095--629149	13	4.2	13	75	13	58	34	3	12	49	1.59
629567--629629	17	3.8	17	77	10	76	33	9	12	44	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
629547--629626	32	2.5	32	97	0	151	31	8	12	47	1.72
629545--629632	15	5.6	15	75	10	77	31	10	12	45	1.75
631004--631096	31	3.0	31	98	0	177	30	6	24	38	1.81
638064--638458	196	2.0	198	93	2	670	32	11	12	43	1.78
639369--639446	23	3.3	23	90	1	102	32	21	20	25	1.98
645559--645603	20	2.2	20	96	0	81	20	15	17	46	1.84
646324--646385	23	2.7	22	90	5	97	29	24	24	22	1.99
647036--647086	20	2.5	20	84	6	68	27	27	11	33	1.92
655109--655164	21	2.6	22	91	2	87	14	19	44	21	1.86
656972--657012	21	1.9	22	85	5	57	29	0	41	29	1.56
660446--660486	21	1.9	22	85	5	57	29	0	41	29	1.56
665054--665093	21	1.9	21	85	10	55	35	10	2	52	1.48
667878--668583	353	2.0	352	97	0	1331	34	15	15	33	1.90
669831--669871	8	5.2	8	77	16	50	75	2	0	21	0.92
669831--669875	5	8.8	5	85	4	63	75	2	0	22	0.91
670908--670953	20	2.3	19	85	14	58	50	8	15	26	1.73
679495--679536	21	2.0	20	86	13	59	50	9	16	23	1.75
687272--687317	2	23.0	2	100	0	92	50	0	0	50	1.00
687692--687734	21	2.0	21	86	0	59	32	6	25	34	1.83
688914--688955	21	2.0	22	85	4	59	42	4	11	40	1.63
690269--690338	30	2.3	31	80	7	79	32	18	8	40	1.81
703031--703076	22	2.0	24	87	8	69	32	2	8	56	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
705303--705343	21	2.0	20	86	9	57	21	36	24	17	1.94
710428--710477	23	2.3	23	86	6	68	18	38	22	22	1.94
710460--710497	20	1.9	20	88	0	58	26	36	26	10	1.89
716168--716223	18	3.2	18	87	7	80	25	33	21	19	1.97
717598--717666	31	2.3	30	77	7	77	37	21	5	34	1.78
718602--718665	29	2.1	31	85	5	87	35	17	7	39	1.78
718666--718712	18	2.7	18	77	12	53	44	10	10	34	1.74
718943--718974	10	3.1	11	86	13	50	75	0	0	25	0.81
719906--720097	106	1.9	102	84	6	262	34	7	8	48	1.63
722701--722752	20	2.5	22	81	12	65	36	23	11	28	1.90
724389--724988	181	3.4	174	85	7	750	41	14	15	28	1.87
724656--725046	182	2.2	182	91	0	622	40	14	16	28	1.87
727387--727445	6	9.8	6	86	0	64	38	1	28	30	1.67
727410--727445	15	2.4	15	100	0	72	33	0	27	38	1.57
728746--728798	24	2.2	24	82	0	61	33	3	15	47	1.63
730008--730056	19	2.6	19	83	0	71	34	4	8	53	1.50
733445--733482	19	2.0	20	85	15	53	47	7	2	42	1.46
734561--734732	35	4.9	35	83	2	220	38	17	20	23	1.93
740487--740531	17	2.6	17	75	0	54	42	0	0	57	0.98
741360--741404	23	2.0	23	90	0	72	24	13	17	44	1.85
741846--741880	6	6.2	6	96	3	56	37	45	17	0	1.48
742398--742422	6	4.2	6	100	0	50	32	0	32	36	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
742538--742737	21	9.6	21	81	9	221	22	21	25	32	1.98
755806--755835	15	2.0	15	93	0	51	63	10	0	26	1.26
759110--759453	172	2.0	172	100	0	688	32	16	19	30	1.95
760980--761290	104	3.0	103	88	1	435	35	21	15	27	1.93
762623--762669	25	2.0	24	84	16	62	29	4	10	55	1.53
762486--763463	505	1.9	506	90	1	1539	32	13	16	37	1.88
764378--764431	20	2.7	20	82	0	63	44	0	0	55	0.99
764588--764625	20	1.9	20	94	0	67	36	0	18	44	1.50
769922--770017	42	2.3	42	85	8	124	16	12	18	52	1.75
770222--770333	23	4.5	26	72	24	66	50	0	0	47	1.13

Tables:   1   2   3   4   5   6