genome.fa.s8027.2.7.7.80.10.50.1000.25.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: VEPZ01008027.1 Hibiscus syriacus cultivar Beakdansim tig00110503_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7662336

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   

This is table  25  of  38  ( 4505 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)
5179078--5179110	13	2.5	13	95	0	57	9	45	15	30	1.77
5181687--5181756	22	3.1	22	87	4	86	28	24	24	22	1.99
5181698--5181756	22	2.7	22	91	0	100	27	25	27	20	1.99
5188334--5188373	20	2.0	20	85	5	53	42	12	2	42	1.56
5188560--5188642	22	3.8	22	96	0	148	26	26	27	19	1.99
5189211--5189333	64	1.9	64	85	3	167	23	17	21	37	1.94
5189309--5189351	19	2.3	19	100	0	86	27	27	13	30	1.95
5191722--5191787	14	5.3	13	70	26	54	18	9	12	60	1.57
5191722--5191787	24	2.8	24	90	0	105	18	9	12	60	1.57
5192080--5192191	40	2.8	40	90	1	163	43	13	10	32	1.78
5192527--5192577	10	5.1	10	87	0	75	7	9	21	60	1.53
5192806--5192845	20	2.0	20	85	0	53	7	10	22	60	1.54
5193576--5193622	21	2.2	21	82	14	53	40	29	0	29	1.57
5196109--5196160	16	3.3	15	78	7	59	25	28	32	13	1.93
5196117--5196160	15	2.9	15	89	3	70	25	29	31	13	1.94
5196424--5196492	30	2.3	30	97	0	129	27	13	18	40	1.88
5196590--5196661	36	2.0	35	86	2	99	26	8	13	51	1.70
5196850--5196937	11	7.7	11	77	7	86	31	23	20	23	1.98
5196859--5196925	12	5.8	12	79	13	86	35	23	19	20	1.95
5196844--5196936	23	4.0	23	97	0	159	33	23	19	23	1.97
5199754--5199800	22	2.1	22	100	0	94	31	8	19	40	1.81
5203487--5203513	4	6.8	4	100	0	54	74	0	0	25	0.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5213383--5213466	2	43.0	2	92	4	145	48	1	0	50	1.08
5213780--5213842	28	2.2	29	86	8	85	38	3	12	46	1.58
5217257--5217336	32	2.5	31	73	2	88	32	13	0	53	1.40
5224855--5225119	142	1.9	142	97	0	503	35	15	17	31	1.91
5227587--5227652	31	2.1	31	88	0	96	24	9	24	42	1.83
5228054--5228090	19	1.9	19	89	10	58	21	5	2	70	1.20
5228647--5228688	22	1.9	22	85	0	57	16	7	4	71	1.26
5234187--5234311	60	2.1	60	100	0	250	52	4	6	36	1.48
5236744--5236815	37	1.9	37	97	0	135	29	15	9	45	1.78
5250085--5250118	16	2.1	17	88	5	52	44	2	11	41	1.56
5252789--5252827	21	1.9	20	84	5	51	28	15	20	35	1.93
5253946--5253978	16	2.1	16	94	0	57	27	33	15	24	1.95
5256307--5256345	2	19.5	2	100	0	78	48	0	0	51	1.00
5260345--5260394	23	2.2	23	88	0	73	38	22	24	16	1.93
5267216--5267280	23	2.8	23	83	0	85	36	24	21	16	1.94
5269988--5270017	15	2.0	15	100	0	60	33	13	20	33	1.91
5275252--5275283	2	16.0	2	100	0	64	50	0	0	50	1.00
5288931--5289035	56	1.9	56	86	2	149	37	4	28	29	1.78
5307693--5307732	18	2.2	18	86	0	53	60	2	0	37	1.11
5309133--5309184	19	2.8	19	73	2	52	38	5	3	51	1.44
5324390--5324482	21	4.4	21	71	5	71	23	15	21	39	1.91
5324488--5324546	21	2.8	21	94	0	100	18	18	25	37	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5326020--5326094	31	2.4	31	93	0	123	33	16	26	24	1.95
5328143--5328202	14	4.3	14	97	0	111	23	36	33	6	1.81
5328150--5328217	28	2.4	28	90	0	100	22	35	32	10	1.88
5328908--5328982	31	2.4	31	84	0	105	32	16	28	24	1.96
5330963--5331004	17	2.5	17	84	3	59	26	4	2	66	1.23
5334572--5334629	23	2.7	22	76	12	66	75	6	15	1	1.09
5335242--5335292	22	2.3	22	96	0	93	35	27	11	25	1.91
5335707--5335742	18	2.0	18	88	0	54	19	8	30	41	1.81
5336223--5336366	36	4.0	36	92	0	252	25	20	13	39	1.90
5336181--5336366	72	2.6	72	86	5	227	26	19	15	37	1.92
5336224--5336504	72	4.0	71	73	10	281	26	19	13	39	1.89
5336406--5336503	36	2.7	36	88	4	135	24	19	16	39	1.91
5336264--5336566	138	2.2	136	82	4	385	28	20	12	38	1.89
5336479--5336634	66	2.4	68	84	4	203	32	22	8	35	1.85
5336786--5336852	29	2.3	29	76	7	73	44	10	16	28	1.80
5337278--5338001	105	7.0	105	93	1	1149	33	26	16	22	1.96
5337278--5338001	207	3.5	207	91	2	1130	33	26	16	22	1.96
5339152--5339190	17	2.4	17	82	4	53	25	5	2	66	1.25
5339136--5339254	53	2.4	49	79	20	115	31	3	4	61	1.31
5341739--5341783	24	1.9	23	81	4	54	46	0	6	46	1.29
5346436--5346484	19	2.7	17	84	9	53	26	20	28	24	1.99
5353541--5353589	19	2.7	17	84	9	53	26	20	28	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5366655--5366702	25	1.9	25	91	0	78	54	4	6	35	1.45
5366799--5366877	27	2.9	27	77	7	97	39	2	15	43	1.60
5367333--5367547	96	2.2	102	84	5	280	52	13	2	30	1.55
5371400--5371464	33	2.0	31	82	11	78	53	24	0	21	1.46
5371768--5371796	12	2.4	12	100	0	58	0	41	31	27	1.56
5373427--5373512	23	3.7	23	95	0	145	22	25	30	22	1.99
5386334--5386374	21	1.9	21	90	5	64	34	7	2	56	1.40
5388994--5389023	15	2.0	15	93	0	51	50	6	10	33	1.62
5389266--5389317	3	17.0	3	96	4	95	67	0	0	32	0.91
5390777--5390808	16	2.0	16	93	0	55	59	25	9	6	1.52
5390760--5390864	23	4.4	23	65	19	63	59	17	9	14	1.61
5390874--5390932	25	2.4	25	94	0	100	50	16	0	32	1.46
5390997--5391033	17	2.2	18	85	9	51	40	2	8	48	1.47
5391085--5391111	14	1.9	14	100	0	54	59	18	7	14	1.58
5391117--5391156	14	2.9	14	84	0	53	52	20	17	10	1.72
5391145--5391194	24	2.3	22	80	16	59	56	20	12	12	1.67
5391152--5391201	24	2.1	24	96	0	91	54	20	14	12	1.71
5391724--5391766	15	2.9	15	96	0	77	53	0	0	46	1.00
5391722--5391831	45	2.3	45	86	13	141	47	0	3	49	1.19
5391724--5391807	15	6.4	14	73	15	65	47	0	2	50	1.14
5391776--5391807	13	2.4	13	94	5	55	43	0	0	56	0.99
5391845--5391905	31	1.9	32	83	9	81	34	1	13	50	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5391885--5391927	22	2.0	22	95	4	79	37	2	13	46	1.57
5391858--5392150	52	5.5	54	75	10	316	34	0	12	51	1.43
5391959--5392118	31	4.7	31	72	22	133	33	0	14	52	1.42
5391988--5392131	74	1.9	76	85	8	204	31	0	15	52	1.44
5392098--5392140	22	2.0	22	100	0	86	34	0	13	51	1.42
5392165--5392223	31	1.9	31	92	0	100	42	10	6	40	1.65
5397291--5397464	61	2.9	60	79	5	197	32	22	5	39	1.78
5402506--5402593	45	1.9	46	90	2	142	28	22	18	30	1.97
5408316--5408407	44	2.1	44	82	7	109	28	27	19	25	1.99
5408335--5408387	21	2.5	22	84	3	63	26	24	24	24	2.00
5408334--5408433	43	2.3	42	78	8	103	27	26	23	24	2.00
5411020--5411058	20	2.0	20	94	0	69	30	30	15	23	1.95
5411040--5411145	45	2.4	45	85	6	144	31	21	14	33	1.93
5411858--5411906	22	2.2	22	79	13	57	48	6	10	34	1.62
5420760--5420786	13	2.1	13	100	0	54	40	14	7	37	1.74
5423575--5423757	29	6.6	29	77	14	156	30	2	19	48	1.63
5423645--5423704	28	2.2	28	84	3	77	33	1	15	50	1.54
5423576--5423722	78	1.9	79	88	4	226	29	2	19	48	1.60
5424436--5424839	62	6.5	62	91	4	429	32	21	21	24	1.98
5424436--5424839	124	3.3	124	85	8	497	32	21	21	24	1.98
5424416--5424738	145	2.2	145	95	0	574	33	21	21	23	1.97
5424436--5424839	41	9.8	41	73	16	277	32	21	21	24	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
5424849--5424889	21	2.0	21	100	0	82	24	24	21	29	1.99
5425611--5425684	21	3.4	21	89	7	121	40	17	20	21	1.91
5425607--5425703	44	2.3	42	85	7	149	38	20	19	21	1.94
5426323--5426484	42	3.9	41	91	4	252	18	25	24	32	1.97
5426322--5426484	84	1.9	84	93	2	283	18	25	23	32	1.97
5428446--5428485	20	2.0	20	90	0	62	42	10	15	32	1.79
5429703--5429748	24	1.9	24	100	0	92	30	13	15	41	1.85
5432039--5432200	60	2.7	59	81	6	184	34	22	6	37	1.79
5437992--5438039	22	2.3	20	82	7	60	54	0	0	45	0.99
5439780--5439820	20	2.0	20	95	0	73	63	14	12	9	1.52

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