genome.fa.s8027.2.7.7.80.10.50.1000.19.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  19  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)
3970069--3970210	21	6.7	21	75	6	124	23	17	23	35	1.95
3970148--3970226	23	3.5	23	82	6	108	20	16	26	36	1.93
3971852--3971920	24	2.8	24	74	12	68	50	15	14	18	1.78
3973208--3973234	14	1.9	14	100	0	54	22	0	3	74	0.98
3973409--3973444	2	18.0	2	94	0	63	47	0	0	52	1.00
3974587--3974677	2	47.0	2	78	10	73	51	3	0	45	1.17
3975209--3975268	26	2.3	26	80	2	68	48	1	8	41	1.43
3975868--3975930	28	2.2	28	88	5	90	79	6	4	9	1.05
3975893--3975931	21	1.9	19	85	10	51	79	5	5	10	1.04
3975876--3975930	28	1.9	29	92	3	94	78	7	5	9	1.10
3976978--3977024	24	2.0	24	86	0	67	31	29	14	23	1.95
3977085--3977125	9	5.1	8	83	16	50	63	0	0	36	0.95
3977172--3977413	37	6.6	38	84	11	269	45	8	4	41	1.54
3977172--3977387	73	3.0	72	85	11	273	46	7	4	42	1.51
3977967--3979324	165	8.2	164	84	3	1469	24	20	24	30	1.98
3992599--3992640	14	2.8	15	82	7	50	73	9	2	14	1.18
3993615--3993684	24	2.7	27	86	8	110	28	31	21	18	1.97
3993729--3993773	3	16.0	3	77	13	51	60	2	2	35	1.22
3993834--3994049	37	5.9	37	83	12	245	46	7	3	42	1.49
3993821--3994074	73	3.5	71	79	14	261	45	8	4	41	1.54
3994074--3994102	2	14.5	2	100	0	58	0	0	48	51	1.00
3994231--3994270	14	2.8	14	84	3	53	75	5	0	20	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4002174--4002208	18	1.9	18	88	0	52	2	57	2	37	1.29
4003128--4003187	24	2.5	24	81	5	68	15	16	31	36	1.90
4006808--4006844	16	2.3	16	100	0	74	59	16	10	13	1.61
4007910--4007939	10	3.0	10	95	0	51	56	23	10	10	1.62
4009057--4009202	60	2.4	59	78	7	161	40	11	8	39	1.73
4011379--4011445	35	1.9	35	84	6	91	34	19	22	23	1.97
4016425--4016457	17	1.9	17	93	0	57	27	18	39	15	1.90
4018476--4018547	37	2.0	37	89	8	112	34	1	9	54	1.42
4018741--4018785	23	2.0	23	81	0	54	53	4	2	40	1.33
4019236--4019275	17	2.2	19	86	8	57	37	0	12	50	1.41
4020658--4020688	15	2.0	16	93	6	55	35	19	19	25	1.95
4023496--4023589	29	3.2	29	73	11	93	39	0	1	59	1.04
4023489--4023532	17	2.6	17	85	7	63	31	0	0	68	0.90
4023518--4023602	14	6.4	14	67	22	58	40	0	1	58	1.05
4023496--4023652	65	2.5	64	90	5	239	40	0	2	56	1.13
4025752--4025792	21	2.0	21	95	0	73	29	24	17	29	1.97
4026399--4026449	21	2.4	21	80	0	57	50	1	1	45	1.24
4032168--4032365	76	2.7	74	88	4	283	20	23	27	28	1.99
4032317--4032358	20	2.1	20	90	0	66	9	21	40	28	1.84
4040397--4040450	23	2.4	22	87	6	81	16	37	18	27	1.93
4042383--4042415	16	2.1	16	94	0	57	21	0	27	51	1.48
4043900--4044285	202	1.9	202	96	0	709	41	14	12	31	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4044729--4044786	21	2.6	22	77	15	66	22	25	32	18	1.97
4044770--4044811	22	2.0	21	86	9	59	19	21	33	26	1.97
4047496--4049441	973	2.0	973	98	0	3759	30	19	12	38	1.88
4049509--4049548	21	1.9	21	85	10	55	35	7	2	55	1.42
4050892--4050936	22	2.0	22	86	4	63	31	33	26	8	1.87
4051538--4051563	2	13.0	2	100	0	52	50	0	0	50	1.00
4052502--4052569	23	3.0	22	89	4	91	20	25	26	27	1.99
4053653--4053697	21	2.1	21	87	0	63	31	28	24	15	1.96
4055406--4055468	13	5.5	13	68	27	61	20	26	26	25	1.99
4055394--4055482	22	4.0	22	97	1	151	20	26	28	24	1.99
4058620--4058664	21	2.1	21	87	0	63	31	28	24	15	1.96
4060373--4060435	13	5.5	13	68	27	61	20	26	26	25	1.99
4060361--4060449	22	4.0	22	97	1	151	20	26	28	24	1.99
4062835--4063018	76	2.5	73	83	8	228	22	22	25	29	1.99
4062984--4063023	19	2.1	19	90	0	62	15	22	37	25	1.93
4064083--4064115	7	4.7	7	96	0	57	12	39	0	48	1.40
4090856--4090890	7	5.1	7	86	6	54	28	28	28	14	1.95
4094005--4094045	21	2.0	21	100	0	82	17	19	14	48	1.81
4098137--4098182	24	1.9	24	82	8	58	13	17	23	45	1.83
4101013--4101275	130	2.0	128	89	3	395	36	9	16	37	1.82
4102146--4102180	17	2.0	17	88	5	52	77	0	2	20	0.90
4103766--4103817	26	2.0	26	100	0	104	34	38	19	7	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4109730--4109797	33	2.1	33	100	0	136	39	20	14	25	1.91
4111367--4111486	41	2.9	40	80	7	134	29	17	18	35	1.94
4112799--4112838	21	2.0	21	85	9	57	40	12	7	40	1.71
4113937--4113984	25	2.0	24	83	4	60	52	16	6	25	1.67
4115948--4116320	55	6.9	54	82	9	332	22	24	21	31	1.99
4115948--4116485	110	5.0	108	78	9	354	24	24	20	31	1.98
4116003--4116485	55	8.9	54	84	7	348	24	24	19	31	1.98
4117495--4117535	10	3.8	11	78	15	50	12	9	0	78	0.98
4117502--4117567	28	2.4	26	78	14	69	10	16	0	72	1.11
4128870--4128917	25	2.0	24	83	4	60	52	16	6	25	1.67
4131041--4131083	6	7.2	6	89	0	68	48	13	2	34	1.56
4134266--4134949	179	3.8	185	82	7	837	27	14	13	44	1.82
4137566--4137600	18	1.9	18	100	0	70	17	48	22	11	1.79
4137565--4137589	13	1.9	13	100	0	50	16	48	24	12	1.79
4139150--4139197	24	2.0	24	100	0	96	50	12	16	20	1.78
4140113--4140207	24	4.0	24	75	5	93	23	13	16	46	1.83
4142310--4142363	13	3.8	13	73	21	54	18	48	18	14	1.82
4142311--4142376	18	3.9	18	71	18	70	18	46	19	15	1.83
4144860--4144961	24	4.2	24	71	5	80	22	13	16	47	1.82
4147427--4148398	200	4.9	198	86	3	1245	28	13	14	42	1.85
4148598--4148644	24	2.0	24	86	0	67	48	17	2	31	1.58
4152097--4152153	30	1.9	30	85	0	78	59	15	5	19	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4153760--4153803	3	13.7	3	81	13	52	61	0	0	38	0.96
4153748--4153805	13	4.8	12	76	18	57	58	1	0	39	1.08
4153760--4153803	7	6.8	6	89	7	52	61	0	0	38	0.96
4153760--4153803	16	2.7	16	85	3	61	61	0	0	38	0.96
4153747--4153803	26	2.2	26	84	12	73	61	1	0	36	1.07
4154078--4154505	129	3.3	128	79	4	425	26	18	27	27	1.98
4155038--4155352	86	3.7	83	83	4	362	25	18	21	34	1.96
4155412--4155678	86	3.1	86	86	2	383	24	22	23	29	1.99
4156106--4156190	32	2.7	32	79	0	89	31	18	14	35	1.91
4157230--4157282	12	4.6	11	80	17	56	1	16	1	79	0.92
4159233--4159268	2	18.0	2	88	0	54	50	5	0	44	1.25
4161164--4161279	57	2.2	51	76	16	133	42	16	19	21	1.89
4161176--4161323	63	2.5	61	87	6	205	41	17	17	23	1.90
4161289--4161358	36	1.9	36	94	0	122	42	17	11	28	1.83
4162053--4162131	32	2.5	32	89	4	124	35	26	8	29	1.87
4162650--4162684	17	2.1	17	100	0	70	34	22	14	28	1.93
4163464--4163520	30	1.9	30	85	0	78	59	15	5	19	1.55
4165126--4165169	16	2.7	16	82	3	52	59	0	2	38	1.10
4165197--4165852	199	3.3	198	91	1	996	28	14	15	42	1.86
4166225--4166274	19	2.6	19	93	0	82	58	10	2	30	1.42
4167733--4167771	18	2.2	18	85	0	51	7	41	0	51	1.31
4168148--4168187	9	4.4	9	87	0	53	5	55	5	35	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4169708--4169775	19	3.6	18	84	7	82	38	14	1	45	1.54
4170204--4170982	182	4.3	182	88	2	1174	26	15	13	44	1.84
4170204--4170982	363	2.1	364	90	2	1237	26	15	13	44	1.84
4171334--4171367	17	2.1	16	88	5	50	76	0	8	14	1.01
4175186--4175229	20	2.2	20	84	4	63	65	0	15	18	1.27
4181293--4182313	201	5.1	200	93	2	1676	37	14	14	33	1.87
4182524--4182571	23	2.1	23	96	0	87	8	6	18	66	1.39
4185210--4185264	24	2.3	25	81	9	69	32	5	14	47	1.67
4185229--4185265	18	2.1	18	89	0	56	32	5	10	51	1.60
4185221--4185273	24	2.2	24	86	0	70	35	3	13	47	1.61

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