genome.fa.s190.2.7.7.80.10.50.1000.57.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: VEPZ01000190.1 Hibiscus syriacus cultivar Beakdansim tig00000340_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  14308945

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   

This is table  57  of  62  ( 7381 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)
13339860--13339924	21	3.0	21	73	8	67	30	24	20	24	1.98
13339848--13339921	23	3.3	22	75	7	78	29	24	20	25	1.99
13342625--13342780	65	2.4	65	82	7	185	28	21	19	30	1.98
13343244--13343278	16	2.3	15	90	5	52	57	0	0	42	0.99
13343332--13343379	17	2.8	18	84	9	64	62	0	0	37	0.95
13344464--13344506	17	2.4	18	85	11	54	53	0	0	46	1.00
13345751--13345800	22	2.3	22	86	6	66	34	14	12	40	1.82
13348173--13348215	20	2.0	21	86	8	61	34	2	34	27	1.70
13358155--13358197	20	2.0	21	86	8	61	34	2	34	27	1.70
13361240--13361277	20	1.9	19	89	5	58	39	18	2	39	1.65
13361475--13361541	22	3.0	22	95	0	116	28	23	22	25	1.99
13365387--13365454	22	3.1	22	93	0	109	29	26	17	26	1.98
13370091--13370137	17	2.8	18	84	12	64	61	0	0	38	0.96
13370082--13370145	19	3.1	21	73	15	62	59	1	0	39	1.07
13370202--13370249	2	24.0	2	95	0	87	50	2	0	47	1.12
13371277--13371323	17	2.8	17	81	12	60	53	0	0	46	1.00
13371277--13371340	34	1.9	33	83	3	83	53	1	1	43	1.19
13379308--13379368	30	2.0	30	87	0	86	36	21	14	27	1.93
13380680--13380852	86	2.0	87	91	1	285	41	13	11	32	1.81
13385323--13385359	18	2.1	18	100	0	74	27	24	27	21	1.99
13385824--13386091	140	1.9	141	84	6	366	45	13	11	28	1.79
13386710--13386750	14	3.1	14	79	6	50	75	0	0	24	0.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13386692--13386732	20	2.0	20	85	0	55	65	2	2	29	1.18
13387909--13388325	140	3.0	140	80	5	466	29	11	14	44	1.80
13390766--13390817	21	2.4	21	81	12	61	38	1	15	44	1.58
13392120--13392326	24	8.6	24	90	1	290	23	16	23	36	1.94
13392709--13392760	18	3.0	17	76	20	54	28	1	0	69	0.99
13393654--13393687	17	2.0	17	100	0	68	47	17	11	23	1.81
13402214--13402311	44	2.2	43	90	3	151	31	22	14	31	1.94
13408074--13408193	59	2.1	58	85	6	163	34	9	14	42	1.77
13408316--13408430	61	1.9	61	90	0	185	36	17	14	31	1.90
13409907--13409946	14	3.1	13	82	10	55	60	0	0	40	0.97
13410801--13410840	14	2.7	14	92	7	62	0	22	2	75	0.93
13411103--13411141	16	2.5	16	95	4	71	15	17	58	7	1.59
13411280--13411346	3	22.0	3	90	3	107	62	0	4	32	1.15
13411664--13412554	113	7.9	112	89	5	1167	30	20	12	37	1.89
13413283--13413920	83	7.7	83	94	2	1090	36	21	13	28	1.92
13413280--13413920	246	2.6	249	93	2	1132	36	21	13	29	1.92
13415061--13415140	1	80.0	1	72	0	61	0	13	0	86	0.58
13415060--13415140	14	5.8	13	82	16	92	0	14	0	85	0.61
13415067--13415138	9	7.7	9	76	14	74	0	13	0	86	0.58
13415061--13415141	36	2.3	37	87	10	116	0	14	0	85	0.61
13415061--13415141	25	3.2	24	86	6	117	0	14	0	85	0.61
13425742--13425779	15	2.8	13	88	11	51	68	2	5	23	1.23
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13426484--13426523	14	3.1	13	82	10	55	60	0	0	40	0.97
13427379--13427420	15	2.9	14	89	7	57	0	21	2	76	0.90
13427379--13427420	20	2.1	20	86	8	59	0	21	2	76	0.90
13427684--13427722	16	2.5	16	95	4	71	15	17	58	7	1.59
13427876--13427973	3	32.7	3	93	0	169	63	0	3	33	1.10
13429257--13429404	65	2.3	64	81	8	167	30	22	16	30	1.96
13431468--13431506	18	2.2	18	85	0	51	30	12	7	48	1.69
13436862--13436942	2	40.5	2	100	0	162	49	0	0	50	1.00
13437577--13437732	65	2.4	65	83	9	194	29	23	17	30	1.97
13438937--13438961	6	4.2	6	100	0	50	84	0	0	16	0.63
13439014--13439101	2	44.0	2	95	0	158	48	1	1	48	1.16
13440810--13440880	3	23.7	3	100	0	142	67	0	0	32	0.91
13441088--13441811	241	3.0	238	86	3	974	35	15	16	32	1.90
13444613--13444655	7	6.4	7	86	7	63	62	11	11	13	1.54
13444613--13444655	13	3.2	14	90	6	63	62	11	11	13	1.54
13446522--13446628	23	4.8	22	82	7	119	16	22	27	33	1.96
13453374--13453456	23	3.6	23	85	4	105	16	14	27	40	1.88
13453395--13453467	23	3.3	22	84	7	67	15	13	28	42	1.85
13460707--13460740	12	2.8	12	83	16	52	0	11	2	85	0.71
13463724--13463786	33	2.0	31	87	12	92	46	1	7	44	1.42
13465729--13465970	133	1.8	133	82	1	315	29	15	10	44	1.80
13467974--13468024	20	2.5	21	80	3	59	19	13	9	56	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13468283--13468332	21	2.4	21	90	6	75	26	12	10	52	1.70
13480682--13480930	65	3.9	62	76	8	216	32	17	10	38	1.84
13480886--13481163	102	2.7	101	84	1	331	32	17	12	37	1.88
13480886--13481147	101	2.6	102	85	1	328	32	17	12	37	1.88
13481454--13481550	39	2.5	38	80	6	106	43	13	22	20	1.87
13482011--13482065	25	2.2	25	100	0	110	50	9	18	21	1.74
13483623--13483691	14	4.9	13	74	13	57	66	5	1	26	1.22
13488170--13488219	23	2.2	23	92	0	82	38	8	22	32	1.83
13488134--13488294	86	1.9	87	92	1	270	41	11	15	31	1.82
13488289--13489013	200	3.6	199	87	2	983	29	16	15	38	1.89
13491734--13491781	19	2.5	19	89	0	69	56	10	4	29	1.52
13493284--13493326	21	2.0	22	90	4	70	55	9	6	27	1.57
13493290--13494451	200	5.8	200	84	3	1500	31	14	14	39	1.87
13493290--13494444	399	2.9	400	89	2	1714	31	14	14	39	1.86
13493303--13494451	599	1.9	598	85	3	1562	31	14	14	39	1.87
13496015--13496051	18	2.1	18	89	0	56	54	8	5	32	1.53
13496015--13496070	24	2.3	24	81	6	69	51	10	5	32	1.59
13497440--13497492	3	17.7	3	84	0	70	26	32	1	39	1.67
13498979--13500343	200	6.8	201	88	2	1727	31	15	13	39	1.87
13498979--13500312	401	3.3	401	87	2	1785	31	15	14	39	1.86
13500791--13500839	19	2.6	19	96	0	89	55	10	2	32	1.45
13502434--13502588	65	2.4	63	85	6	197	29	21	18	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13508143--13508222	23	3.6	22	76	6	81	26	23	22	27	2.00
13508124--13508196	21	3.5	20	75	12	58	28	26	21	23	1.99
13508124--13508212	44	2.0	43	87	6	126	26	24	22	25	2.00
13510881--13511032	65	2.4	64	89	1	223	29	22	18	29	1.97
13514720--13515318	181	3.3	182	89	1	887	25	16	15	42	1.87
13515577--13515602	11	2.4	11	100	0	52	19	46	15	19	1.85
13515866--13515911	12	4.0	12	77	11	51	19	32	28	19	1.96
13515850--13515890	19	2.3	17	87	8	55	17	29	29	24	1.97
13515869--13515916	22	2.2	22	88	0	69	18	31	27	22	1.97
13517600--13517675	32	2.4	31	86	4	107	13	19	31	35	1.90
13525250--13525290	21	2.0	21	90	0	64	24	2	17	56	1.53
13526705--13526767	11	6.0	11	68	17	53	69	3	1	25	1.12
13526702--13526785	40	2.2	40	87	8	120	66	7	1	25	1.24
13527184--13527219	18	2.0	18	94	0	63	41	5	30	22	1.76
13528630--13528702	17	4.2	18	77	13	57	43	8	6	41	1.61
13528639--13528697	17	3.5	17	81	9	75	42	8	5	44	1.57
13528690--13528723	18	1.9	17	94	5	59	50	14	5	29	1.67
13530023--13530087	29	2.2	30	80	2	78	32	24	7	35	1.84
13531607--13531669	17	3.7	17	81	8	83	39	7	11	41	1.70
13531605--13531686	34	2.4	34	87	2	130	41	9	9	39	1.71
13531605--13531690	17	5.1	16	71	9	55	41	10	9	38	1.72
13535424--13535463	20	1.9	21	90	10	64	72	2	10	15	1.21
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
13539914--13539984	21	3.4	21	90	0	97	18	15	28	38	1.91
13539978--13540030	23	2.3	23	83	0	70	22	22	28	26	1.99
13546603--13546651	21	2.3	21	89	0	71	22	14	28	34	1.93
13547741--13547784	19	2.4	19	88	11	65	68	0	20	11	1.20
13552609--13552646	19	1.9	19	89	5	58	36	5	10	47	1.61
13553947--13553985	18	2.2	18	100	0	78	41	15	0	43	1.46
13555644--13555670	2	13.5	2	100	0	54	51	0	0	48	1.00
13558038--13558062	2	12.5	2	100	0	50	48	0	0	52	1.00
13558237--13558267	14	2.2	14	94	0	53	12	9	0	77	0.99
13558220--13558304	20	4.4	19	73	17	59	17	7	3	71	1.23

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