genome.fa.s1129.2.7.7.80.10.50.1000.84.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  84  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)
20240055--20240079	11	2.3	11	100	0	50	56	20	16	8	1.65
20241964--20242010	21	2.2	21	96	0	85	4	21	46	27	1.69
20242224--20242257	17	1.9	18	88	5	52	38	20	26	14	1.91
20242675--20242713	21	1.9	21	89	5	62	79	2	0	17	0.84
20246199--20246250	19	2.7	19	90	0	86	28	30	13	26	1.94
20246201--20246240	11	3.8	11	78	21	50	30	32	12	25	1.92
20250981--20251010	14	2.1	14	100	0	60	70	0	30	0	0.88
20253780--20253829	21	2.4	21	96	0	91	20	26	16	38	1.92
20255250--20255274	5	5.0	5	100	0	50	80	0	0	20	0.72
20256176--20256227	21	2.3	21	83	9	59	59	7	0	32	1.26
20256591--20256777	32	5.9	32	76	2	110	43	4	5	45	1.47
20256590--20256735	64	2.3	64	80	5	170	43	4	6	45	1.50
20256622--20256752	11	12.3	11	66	11	58	41	3	6	47	1.48
20256699--20256750	21	2.5	21	79	17	63	44	1	5	48	1.38
20256610--20256770	64	2.5	64	81	2	171	42	4	6	46	1.48
20258364--20258409	21	2.1	21	84	4	56	45	0	0	54	0.99
20258364--20258416	22	2.4	22	78	6	63	45	0	0	54	0.99
20258610--20258681	32	2.3	31	83	7	83	29	19	9	41	1.83
20260423--20260469	20	2.3	21	78	10	53	17	2	6	74	1.12
20260814--20260958	75	1.9	75	95	0	263	51	8	4	35	1.53
20267353--20267611	128	2.0	128	96	0	482	35	26	13	25	1.92
20267427--20267861	216	2.0	216	100	0	870	35	23	15	25	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20275674--20275796	37	3.4	36	73	18	112	25	14	19	40	1.89
20277084--20277124	22	1.9	21	90	5	64	60	9	0	29	1.28
20277241--20277317	30	2.6	29	83	8	100	51	7	18	22	1.71
20278791--20278829	9	4.3	9	90	0	51	71	0	2	25	0.98
20278795--20278836	3	14.3	3	87	5	59	69	0	2	28	1.01
20279150--20279384	130	1.8	129	90	0	380	23	17	33	25	1.96
20279653--20279834	64	2.8	63	81	3	202	42	15	12	30	1.83
20279886--20279989	36	2.9	35	84	5	120	36	11	18	33	1.87
20285153--20285274	30	4.0	30	72	2	82	58	11	13	17	1.63
20286459--20286484	3	8.7	3	100	0	52	65	0	0	34	0.93
20299849--20299903	20	2.6	22	75	18	64	30	12	27	29	1.93
20301747--20301785	20	2.0	20	85	5	53	56	5	5	33	1.43
20302376--20302409	13	2.6	13	86	13	52	70	5	2	20	1.21
20302376--20302409	14	2.6	13	90	9	52	70	5	2	20	1.21
20310085--20310654	45	12.7	45	89	0	854	21	20	12	45	1.83
20313529--20314324	45	18.0	45	83	5	789	23	19	11	45	1.82
20313529--20314304	135	5.8	134	81	7	886	23	19	11	45	1.82
20313684--20313837	77	2.0	77	100	0	308	25	18	10	45	1.81
20313732--20313792	32	1.9	32	93	0	104	26	18	9	45	1.80
20313814--20313886	24	3.2	24	60	25	57	24	19	10	45	1.82
20315776--20315822	25	2.0	24	87	8	69	68	4	4	23	1.26
20315777--20315828	24	2.2	23	83	10	61	71	3	5	19	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20323106--20323362	127	2.0	127	98	1	498	19	12	32	35	1.89
20325320--20325376	27	2.1	27	100	0	114	21	17	0	61	1.35
20330417--20330443	5	5.4	5	100	0	54	18	0	0	81	0.69
20331003--20331045	12	3.5	12	81	12	52	23	4	4	67	1.28
20331671--20331722	20	2.6	20	100	0	104	30	19	19	30	1.96
20336756--20336845	41	2.2	41	100	0	180	36	24	17	21	1.94
20337651--20337867	36	6.1	36	87	4	296	18	23	19	38	1.93
20337651--20337867	72	3.0	71	93	2	346	18	23	19	38	1.93
20339653--20339838	45	4.1	45	79	0	192	33	2	34	29	1.70
20340287--20340363	40	1.9	40	81	0	91	33	18	16	31	1.93
20342364--20342400	19	1.9	19	88	0	56	40	8	16	35	1.78
20342668--20342710	18	2.4	18	84	0	59	37	11	25	25	1.90
20348282--20348371	8	10.8	8	74	17	58	74	0	6	18	1.03
20348276--20348361	9	9.9	8	74	13	64	75	0	6	17	1.01
20348317--20348390	14	5.4	14	67	22	50	75	0	8	16	1.02
20350265--20351012	247	3.0	248	88	1	1140	24	16	22	35	1.95
20362844--20362934	23	4.0	23	87	5	112	20	27	23	28	1.99
20366770--20366831	28	2.3	27	83	13	74	79	0	6	14	0.93
20366768--20366838	26	2.7	24	79	16	70	77	0	7	15	0.97
20366931--20366972	9	4.9	9	86	13	54	80	0	0	19	0.70
20366935--20366972	17	2.2	18	90	4	60	84	0	0	15	0.63
20366933--20367002	18	4.0	17	74	20	56	77	2	0	20	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20374263--20374361	49	2.0	49	100	0	198	32	15	10	42	1.80
20383128--20383239	56	2.0	56	98	0	215	35	18	12	33	1.89
20383399--20383441	21	2.0	21	86	0	59	44	2	9	44	1.49
20388889--20388985	18	5.1	20	79	8	103	29	29	18	21	1.97
20388889--20388982	38	2.5	38	81	10	120	29	30	18	21	1.97
20390524--20390581	20	2.7	20	86	10	71	27	22	18	31	1.97
20398087--20398159	20	3.6	20	92	1	110	35	21	15	27	1.93
20398108--20398180	20	3.7	20	90	3	78	30	26	15	28	1.96
20402781--20403259	247	1.9	246	93	0	832	30	20	15	33	1.94
20407864--20407892	3	9.7	3	100	0	58	68	0	31	0	0.89
20410412--20410451	18	2.2	18	100	0	80	47	15	5	32	1.66
20410905--20411161	118	2.2	119	82	5	313	29	16	6	47	1.72
20412180--20412216	2	18.5	2	100	0	74	51	0	0	48	1.00
20412672--20412719	23	2.1	23	88	7	71	18	8	16	56	1.65
20416044--20416102	14	4.1	14	76	4	64	37	8	16	37	1.80
20419130--20419200	29	2.5	29	88	2	99	61	5	12	19	1.50
20420580--20421159	131	4.4	131	83	2	653	25	17	31	25	1.97
20420584--20421159	262	2.2	259	83	4	724	25	17	32	25	1.97
20421156--20421270	40	2.8	40	81	5	122	25	20	23	30	1.99
20421224--20421460	123	2.0	117	86	5	330	25	17	27	29	1.98
20421682--20421864	65	2.8	65	79	6	190	44	14	14	27	1.83
20421888--20421998	36	3.2	36	70	12	104	44	11	13	30	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20421888--20422031	69	2.1	69	84	2	182	43	11	13	31	1.80
20422207--20422274	34	2.0	34	85	0	91	36	8	19	35	1.83
20422366--20422438	32	2.3	32	88	4	103	32	20	16	30	1.95
20422366--20422453	32	2.8	32	82	6	90	32	22	15	28	1.95
20423474--20423513	15	2.7	15	88	3	55	2	12	7	77	1.07
20424726--20424763	21	2.0	20	85	15	53	50	10	23	15	1.75
20424943--20425301	198	1.8	199	80	4	438	25	22	20	32	1.98
20428890--20428918	9	3.2	9	100	0	58	34	0	20	44	1.52
20428955--20429019	33	2.0	33	93	0	112	43	12	12	32	1.79
20429824--20429986	65	2.5	64	82	3	211	27	15	26	30	1.96
20429934--20429984	19	2.7	19	85	8	70	25	15	35	23	1.94
20438445--20438590	64	2.3	65	85	3	206	28	16	26	29	1.97
20438555--20438624	19	3.7	19	90	5	108	25	15	35	22	1.94
20438493--20438675	84	2.2	83	81	9	203	25	17	27	28	1.98
20439093--20439246	31	5.0	31	90	0	236	24	16	22	37	1.94
20439415--20439546	31	4.3	31	89	0	174	31	16	16	34	1.92
20442911--20444061	576	2.0	576	96	0	2113	32	7	22	37	1.82
20445228--20445382	31	5.0	31	88	3	222	25	18	21	34	1.96
20445230--20445382	62	2.5	62	92	2	245	26	18	20	35	1.95
20445551--20445618	31	2.2	31	91	0	109	30	10	22	36	1.87
20446330--20446488	65	2.5	65	86	5	207	26	18	23	30	1.98
20446958--20446988	2	15.5	2	100	0	62	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
20453043--20453082	21	1.9	21	85	10	55	35	10	2	52	1.48
20455451--20455509	31	1.9	31	96	0	109	25	15	20	38	1.91
20457479--20457560	30	2.7	29	79	5	74	56	8	15	19	1.65
20458769--20458806	3	12.3	3	94	5	67	65	0	0	34	0.93
20463475--20463539	30	2.2	30	83	10	80	23	16	13	46	1.83
20470311--20470373	33	1.9	33	100	0	126	19	23	22	34	1.96
20470613--20470665	14	3.5	14	72	18	52	56	5	0	37	1.23
20470685--20471172	54	9.2	53	68	17	246	53	11	0	35	1.41
20470734--20470776	22	2.0	22	95	0	77	51	11	0	37	1.39
20470736--20470784	22	2.2	22	85	3	62	55	12	0	32	1.37

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