genome.fa.s7984.2.7.7.80.10.50.1000.59.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   

This is table  59  of  65  ( 7696 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)
11607938--11607983	21	2.2	21	88	0	65	36	19	28	15	1.92
11616857--11616894	15	2.5	15	91	0	58	26	21	28	23	1.99
11617369--11617426	27	2.0	30	83	9	77	60	0	0	39	0.97
11619634--11619704	20	3.5	20	94	0	124	21	22	9	46	1.80
11631920--11632163	133	1.8	133	84	3	330	35	10	18	34	1.86
11639550--11639607	2	29.0	2	100	0	116	50	0	0	50	1.00
11643920--11643995	35	2.2	35	92	0	125	39	23	1	35	1.63
11644391--11644638	130	1.9	130	90	0	397	37	14	12	35	1.85
11644403--11644666	130	2.0	128	79	5	289	40	13	12	33	1.82
11644962--11645024	28	2.3	27	78	8	63	46	1	3	49	1.27
11645104--11645137	16	2.0	18	88	11	54	64	5	2	26	1.30
11648395--11648488	34	2.6	36	85	10	120	38	2	2	57	1.23
11649010--11649103	21	4.5	21	86	7	129	21	26	34	18	1.96
11652183--11652234	21	2.5	21	81	3	61	38	19	25	17	1.93
11652223--11652357	20	6.7	20	80	7	121	33	24	17	24	1.96
11652220--11652351	61	2.2	61	87	0	183	35	24	16	23	1.95
11652525--11652568	22	2.0	22	90	0	70	20	43	15	20	1.88
11652810--11652868	20	3.0	20	87	0	73	15	18	22	44	1.87
11653005--11653059	25	2.2	24	78	15	58	20	9	18	52	1.71
11654187--11654231	18	2.5	18	88	0	72	26	44	15	13	1.83
11654707--11654773	20	3.4	20	81	2	73	38	23	22	14	1.92
11654762--11654819	14	3.9	14	79	16	71	48	24	17	10	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11654746--11654836	32	2.8	33	91	6	150	47	23	18	10	1.80
11656829--11656867	20	2.0	20	94	0	69	46	30	10	12	1.75
11656873--11656937	19	3.7	19	84	15	95	46	18	21	13	1.84
11656964--11657012	20	2.5	20	96	3	91	16	22	28	32	1.95
11657225--11657266	20	2.4	17	84	15	50	14	28	21	35	1.92
11657231--11657271	20	2.0	20	100	0	82	19	29	21	29	1.98
11658016--11658069	24	2.2	24	90	0	81	22	16	20	40	1.91
11658244--11658268	12	2.1	12	100	0	50	72	0	28	0	0.86
11660526--11660652	33	3.8	33	86	4	184	43	19	21	15	1.88
11660526--11660656	19	7.7	19	64	23	76	43	19	21	15	1.88
11660527--11660659	66	2.0	66	94	0	230	42	19	21	17	1.90
11660652--11660693	19	2.2	19	91	0	66	16	19	23	40	1.91
11660661--11660724	19	3.6	19	74	20	75	10	23	20	45	1.82
11660843--11660869	14	1.9	14	100	0	54	37	25	0	37	1.57
11662225--11662430	42	4.9	41	72	11	157	23	17	35	22	1.95
11662255--11662430	84	2.1	84	96	0	325	24	17	36	21	1.94
11662647--11662833	91	2.0	93	91	6	310	47	19	11	21	1.81
11662977--11663118	63	2.3	63	87	2	160	26	37	16	19	1.93
11663000--11663130	63	2.1	63	100	0	262	23	37	18	20	1.94
11664583--11664746	19	9.1	19	76	14	159	45	19	21	12	1.84
11664608--11664737	33	3.8	33	84	9	170	45	21	21	11	1.83
11664583--11664747	71	2.3	72	90	2	269	45	19	21	13	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11664742--11664786	19	2.4	19	84	0	63	6	15	26	51	1.68
11665340--11665392	20	2.7	20	93	0	88	26	20	28	24	1.99
11665401--11665454	20	2.7	20	97	0	99	25	18	24	31	1.97
11665341--11665457	61	1.9	61	85	0	162	23	17	24	33	1.97
11670952--11671021	32	2.2	32	92	0	113	28	32	0	38	1.57
11676778--11676836	29	2.0	29	100	0	118	23	13	13	49	1.78
11681466--11681524	29	2.0	29	96	0	109	23	11	13	50	1.74
11683626--11683658	16	2.1	16	94	0	57	33	6	27	33	1.81
11687355--11687387	16	2.1	16	94	0	57	33	6	27	33	1.81
11692336--11692378	7	6.1	7	100	0	86	58	0	41	0	0.98
11695372--11695475	33	3.2	32	86	6	147	43	16	6	33	1.74
11695470--11695511	21	2.0	21	95	0	75	47	7	14	30	1.71
11695989--11696107	25	4.8	25	94	0	184	47	13	15	23	1.80
11697757--11697962	109	1.9	111	90	2	335	54	4	3	37	1.39
11700624--11700698	37	2.0	37	87	10	109	36	6	4	53	1.46
11701842--11701887	21	2.2	21	92	0	74	43	39	0	17	1.49
11702116--11702158	20	2.2	20	91	0	68	16	16	20	46	1.84
11703600--11703658	30	2.0	30	86	6	84	27	1	5	66	1.22
11703618--11703656	17	2.2	18	86	4	53	25	0	2	71	0.98
11703629--11703673	22	2.2	20	84	8	54	26	0	4	68	1.08
11703599--11703671	30	2.4	29	81	6	83	27	1	5	65	1.22
11720905--11720951	6	8.3	6	86	13	73	0	34	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11720906--11720951	11	4.2	11	100	0	92	0	34	0	65	0.93
11726990--11727168	37	5.2	36	66	20	112	29	11	12	47	1.75
11726931--11727264	68	5.0	68	83	4	421	28	10	11	49	1.72
11726927--11727264	131	2.5	134	87	3	468	28	10	11	49	1.72
11728263--11728308	2	23.0	2	100	0	92	50	0	0	50	1.00
11734377--11734414	19	2.1	19	90	5	60	57	23	0	18	1.40
11734463--11734501	19	2.1	18	86	13	53	7	30	17	43	1.77
11736946--11737001	23	2.4	23	81	0	67	41	7	19	32	1.79
11738126--11738169	18	2.4	18	88	0	70	22	25	13	38	1.91
11738676--11738705	13	2.2	14	94	5	53	26	6	26	40	1.81
11742249--11742310	25	2.5	26	74	7	67	53	1	0	45	1.10
11742277--11742345	20	3.4	20	74	21	63	49	1	2	46	1.25
11742492--11742533	12	3.4	12	83	6	57	76	0	2	21	0.90
11750088--11750167	3	27.3	3	74	20	55	36	0	0	63	0.94
11750078--11750292	16	14.7	16	63	28	72	38	2	0	59	1.10
11750088--11750167	10	8.1	10	76	15	51	36	0	0	63	0.94
11750085--11750176	13	7.5	13	72	22	58	35	1	0	63	1.02
11750234--11750292	20	2.7	22	79	12	68	33	0	0	66	0.92
11757452--11757591	32	4.4	32	78	9	153	30	17	18	32	1.95
11758041--11759036	6	166.7	6	96	3	1859	33	0	16	49	1.47
11759402--11759444	21	2.0	21	95	0	77	25	25	25	23	2.00
11759466--11759506	21	2.0	21	95	0	73	24	24	26	24	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11760726--11760770	18	2.7	18	83	10	60	48	0	0	51	1.00
11766582--11766645	21	3.0	21	81	0	92	23	25	25	26	2.00
11767269--11767389	31	3.9	31	74	5	77	37	21	19	22	1.95
11767294--11767389	31	3.1	31	77	5	113	38	19	17	23	1.93
11780243--11780298	29	1.9	29	100	0	112	16	28	39	16	1.89
11780323--11780382	22	2.7	22	92	0	84	5	48	21	25	1.70
11780410--11780462	22	2.3	22	83	6	70	24	22	15	37	1.92
11780677--11780712	18	1.9	19	94	5	65	38	0	2	58	1.13
11780899--11781016	30	3.9	30	92	3	184	40	1	13	44	1.54
11780928--11781012	15	5.6	15	65	21	52	41	1	15	42	1.54
11781070--11781103	15	2.2	16	94	5	61	38	0	5	55	1.24
11783520--11783546	14	1.9	14	100	0	54	44	7	3	44	1.49
11783563--11783593	11	2.8	11	95	0	53	48	12	0	38	1.42
11783505--11783843	26	13.7	26	74	14	220	44	8	2	44	1.49
11783573--11783819	121	2.0	121	93	3	426	43	8	2	44	1.50
11783791--11783860	16	4.9	14	77	19	65	52	8	1	37	1.41
11783781--11784059	27	10.7	27	67	23	104	49	12	1	36	1.48
11783800--11783913	35	3.3	34	80	11	117	51	10	0	36	1.42
11783835--11784094	8	29.0	9	71	22	110	50	13	0	35	1.47
11783808--11784085	62	4.4	61	76	16	246	50	13	0	35	1.47
11783896--11783927	14	2.3	14	94	0	55	43	9	0	46	1.35
11783840--11784115	62	4.3	62	77	14	283	50	13	0	35	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11783919--11784138	35	6.5	35	86	8	312	50	12	0	35	1.47
11783850--11784135	19	15.3	19	65	27	98	50	12	0	36	1.45
11783835--11784123	97	3.0	96	89	2	413	50	12	0	35	1.46
11784389--11784421	13	2.4	14	90	5	50	39	18	0	42	1.50
11784344--11784470	49	2.6	49	91	1	209	45	13	0	40	1.43
11784493--11784533	14	2.9	14	92	0	73	43	9	4	41	1.59
11787533--11787562	16	1.9	16	93	6	53	50	10	0	40	1.36
11787444--11787605	82	2.0	83	96	1	299	51	8	3	36	1.51
11793581--11793625	20	2.2	20	84	7	56	64	0	22	13	1.28
11800480--11800528	23	2.1	23	85	7	64	59	8	2	30	1.38

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   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65