genome.fa.s1129.2.7.7.80.10.50.1000.62.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: VEPZ01001129.1 Hibiscus syriacus cultivar Beakdansim tig00002237_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  21326069

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   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   

This is table  62  of  89  ( 10573 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)
14369654--14369703	22	2.3	22	96	0	91	50	12	22	16	1.77
14370151--14370195	21	2.1	21	100	0	90	53	4	13	28	1.59
14374690--14374758	33	2.1	33	83	5	86	31	1	34	31	1.67
14374729--14374841	36	3.2	36	88	1	147	29	3	33	33	1.75
14379215--14379283	33	2.1	33	83	5	86	31	1	36	30	1.67
14379269--14379365	13	8.0	12	72	22	62	29	3	36	30	1.73
14379254--14379366	36	3.2	36	91	1	165	28	3	35	32	1.74
14382117--14382149	17	1.9	17	93	0	57	6	9	6	78	1.08
14382409--14382448	19	2.0	20	90	4	64	62	0	12	25	1.30
14387343--14387385	20	2.2	20	91	4	70	44	4	13	37	1.65
14392957--14393022	18	3.4	19	78	14	64	1	16	4	77	1.01
14393344--14393388	11	4.1	11	85	5	56	71	2	11	15	1.24
14402309--14402378	11	6.4	11	80	4	79	1	10	10	78	1.03
14402316--14402377	23	2.8	22	85	4	88	1	11	8	79	1.01
14405156--14405193	11	3.5	11	96	0	67	0	7	13	78	0.94
14405523--14405567	11	4.1	11	82	5	56	71	4	11	13	1.29
14405523--14405564	22	1.9	22	90	9	68	69	4	11	14	1.34
14406761--14406828	35	1.9	36	87	3	102	30	4	35	29	1.77
14412278--14412326	21	2.5	20	87	12	66	32	14	8	44	1.74
14414416--14414452	15	2.3	16	90	9	58	64	0	21	13	1.27
14416268--14416310	20	2.2	20	87	4	61	34	9	6	48	1.62
14416658--14416725	35	1.9	36	84	3	93	26	32	2	38	1.71
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14416868--14416910	15	2.9	15	100	0	86	11	27	0	60	1.31
14429535--14429574	6	6.7	6	86	8	55	0	15	2	82	0.77
14430250--14430292	20	2.2	20	91	4	70	44	4	13	37	1.65
14434824--14434878	24	2.3	25	81	6	60	32	16	21	29	1.95
14439029--14439075	19	2.3	20	89	7	69	80	6	10	2	0.96
14439051--14439090	20	2.0	21	85	5	55	75	12	10	2	1.15
14440546--14440600	11	4.9	11	84	6	58	87	3	9	0	0.66
14446380--14446425	19	2.3	21	85	7	60	36	13	8	41	1.75
14446388--14446431	21	2.2	19	92	8	70	34	11	6	47	1.66
14451546--14451607	27	2.3	27	81	8	74	74	4	14	6	1.19
14454025--14454069	19	2.5	17	82	10	54	35	15	8	40	1.79
14454874--14454924	20	2.6	20	90	3	77	35	15	5	43	1.71
14456266--14456307	12	3.8	12	75	18	54	9	11	4	73	1.22
14456262--14456312	21	2.4	22	93	6	95	7	13	3	74	1.18
14458549--14458653	36	2.9	35	91	4	165	29	35	4	30	1.78
14459024--14459068	19	2.3	20	85	11	58	82	6	8	2	0.93
14459024--14459060	18	1.9	19	89	10	58	81	8	10	0	0.89
14459274--14459312	16	2.4	16	86	0	51	10	15	2	71	1.23
14459347--14459390	16	2.8	16	100	0	88	27	34	0	38	1.57
14461252--14461293	22	1.9	22	85	9	59	23	11	14	50	1.76
14462590--14462694	36	2.9	36	94	1	176	30	36	3	29	1.75
14464509--14464554	23	2.0	23	83	8	58	36	6	8	47	1.60
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14464575--14464625	26	2.0	25	81	11	59	41	5	7	45	1.57
14465871--14465910	19	2.0	20	90	4	64	20	15	0	65	1.28
14466177--14466250	13	5.8	13	73	7	62	77	1	17	4	1.00
14466176--14466251	29	2.6	29	76	14	77	76	1	18	3	1.01
14466213--14466237	8	3.1	8	100	0	50	76	0	24	0	0.80
14468939--14468984	23	2.0	23	83	8	58	36	6	8	47	1.60
14470262--14470301	19	2.0	20	90	4	64	20	15	0	65	1.28
14470595--14470653	19	3.0	20	74	20	61	74	3	20	1	1.05
14471914--14471976	24	2.6	24	79	0	72	36	17	17	28	1.93
14471925--14471986	24	2.6	24	82	5	63	38	14	17	29	1.89
14489502--14489526	13	1.9	13	100	0	50	0	16	4	80	0.87
14491524--14491578	19	2.9	19	80	0	65	36	12	9	41	1.75
14493616--14493722	35	3.0	35	80	2	106	28	33	3	33	1.75
14497790--14497866	17	4.4	18	72	25	67	71	5	19	3	1.21
14497797--14497855	13	4.5	12	80	16	64	74	3	20	1	1.05
14497799--14497850	27	1.9	27	88	7	79	75	3	19	1	1.06
14497795--14497852	19	2.9	20	73	21	59	74	3	20	1	1.06
14503934--14504042	35	3.1	35	76	7	105	26	34	3	34	1.74
14504880--14504915	1	36.0	1	88	0	54	94	5	0	0	0.31
14508783--14508891	47	2.4	45	85	7	139	33	22	5	38	1.78
14514584--14514619	2	18.0	2	100	0	72	50	0	0	50	1.00
14514640--14514738	11	8.6	11	70	21	55	3	19	3	74	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14514644--14514732	22	3.8	22	73	15	63	3	19	3	74	1.11
14522809--14522852	21	2.2	21	92	8	74	34	11	6	47	1.66
14523544--14523568	13	1.9	13	100	0	50	80	0	20	0	0.72
14526894--14526945	21	2.6	21	90	6	81	32	13	7	46	1.72
14529386--14529428	20	2.2	20	82	0	50	55	18	6	18	1.64
14529482--14529617	59	2.3	58	78	2	155	28	25	18	27	1.98
14532114--14532162	19	2.4	21	83	6	66	46	6	8	38	1.58
14540085--14540120	12	3.0	12	100	0	72	41	8	33	16	1.78
14542955--14542989	13	2.8	13	91	8	56	40	0	31	28	1.57
14551282--14551338	28	2.1	26	83	6	69	59	15	15	8	1.59
14552202--14552726	105	5.0	105	88	3	756	32	26	20	21	1.97
14554398--14554428	15	2.1	15	93	0	53	29	0	6	64	1.18
14554550--14554582	2	16.5	2	100	0	66	48	0	0	51	1.00
14554705--14554749	2	22.5	2	95	0	81	46	0	0	53	1.00
14555345--14555400	30	1.9	29	82	13	71	37	14	16	32	1.88
14557320--14557371	21	2.6	21	90	6	81	32	13	7	46	1.72
14558989--14559059	8	8.9	8	80	11	74	4	18	1	76	1.03
14558984--14559059	26	3.3	22	79	15	82	3	18	1	76	1.01
14559000--14559046	18	2.6	18	70	16	51	2	19	2	76	0.99
14562960--14562989	13	2.4	13	94	5	53	43	0	30	26	1.55
14565601--14565640	20	2.0	20	100	0	80	30	20	10	40	1.85
14567509--14567537	15	2.0	15	93	6	51	75	3	20	0	0.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14568749--14568791	23	1.9	21	81	13	50	32	18	13	34	1.90
14581804--14581844	16	2.5	17	84	7	50	9	19	4	65	1.40
14582766--14582812	24	2.0	24	86	0	67	34	10	27	27	1.90
14583051--14583091	20	2.0	20	86	9	57	63	0	17	19	1.31
14589352--14589412	32	1.9	33	84	15	85	57	0	26	16	1.39
14589982--14590024	20	2.2	20	87	4	61	48	9	9	32	1.67
14598173--14598273	36	2.8	36	92	1	159	31	33	3	30	1.76
14598717--14598756	11	3.8	11	83	12	57	77	0	20	2	0.88
14598977--14599010	16	2.2	16	89	5	52	29	32	0	38	1.58
14604813--14604863	21	2.5	21	90	6	79	33	11	7	47	1.69
14605468--14605533	13	5.5	11	74	22	62	33	34	3	28	1.73
14605454--14605542	36	2.5	36	96	1	162	30	35	4	29	1.77
14609630--14609686	25	2.4	25	77	13	66	7	15	10	66	1.42
14613042--14613075	17	2.0	17	88	0	50	38	0	29	32	1.58
14629785--14629836	19	2.6	21	90	6	81	46	5	13	34	1.67
14632863--14632924	26	2.2	29	80	8	76	1	20	3	74	1.05
14632895--14632924	8	3.8	8	100	0	60	0	23	0	76	0.78
14632877--14632932	26	2.2	26	84	12	71	1	21	0	76	0.87
14632866--14632930	21	3.1	20	78	8	67	1	21	3	73	1.05
14633626--14633677	19	2.6	21	90	6	81	46	5	13	34	1.67
14650305--14650356	24	2.2	24	100	0	104	30	13	25	30	1.94
14653300--14653357	28	2.1	28	100	0	116	48	6	17	27	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
14653971--14654012	19	2.2	19	91	8	68	26	14	0	59	1.35
14658054--14658095	19	2.2	19	91	8	68	26	14	0	59	1.35
14662351--14662397	24	2.0	24	83	8	60	65	12	12	8	1.46
14664954--14665007	24	2.4	22	84	9	65	12	16	16	53	1.73
14664971--14665021	22	2.2	24	82	6	61	11	11	13	62	1.54
14667899--14667928	13	2.3	13	100	0	60	43	20	30	6	1.77
14675062--14675097	17	2.1	17	90	10	56	0	19	2	77	0.88
14693790--14693841	23	2.3	22	83	9	70	57	11	15	15	1.65
14701904--14701950	22	2.3	22	78	10	55	25	19	19	36	1.95
14706375--14706410	19	1.9	19	88	5	56	30	8	16	44	1.77

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   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89