genome.fa.s8245.2.7.7.80.10.50.1000.21.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: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6601124

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   

This is table  21  of  33  ( 3922 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)
4317539--4317611	23	3.2	24	69	23	68	60	6	10	21	1.53
4317535--4317603	21	3.2	21	70	22	70	60	5	10	23	1.50
4318533--4318577	5	8.8	5	87	2	63	15	2	4	77	1.02
4321125--4321156	13	2.3	15	89	10	50	59	9	0	31	1.29
4321132--4321175	19	2.2	19	84	8	52	56	6	0	36	1.26
4321153--4321225	26	2.9	26	77	18	82	46	4	4	45	1.41
4321211--4321371	2	78.0	2	66	20	57	44	4	4	45	1.45
4321271--4321433	41	4.0	40	72	20	119	45	6	4	44	1.48
4321299--4321374	13	5.2	15	75	15	61	46	6	1	46	1.37
4321211--4321371	11	15.6	10	64	21	57	44	4	4	45	1.45
4321394--4321446	27	2.0	26	85	7	72	39	5	5	49	1.50
4321411--4321450	20	2.1	18	90	9	62	42	5	2	50	1.37
4321411--4321480	33	2.1	33	82	10	81	44	5	2	47	1.41
4321613--4321778	20	8.3	20	69	22	68	41	6	5	46	1.53
4321872--4321945	27	2.7	27	73	8	78	47	9	2	40	1.50
4322856--4322910	28	2.0	27	89	10	85	47	7	3	41	1.49
4323581--4323605	13	1.9	13	100	0	50	56	8	8	28	1.57
4323809--4323854	16	2.9	16	73	0	56	36	13	19	30	1.90
4337897--4337963	26	2.5	26	75	15	66	29	13	13	43	1.82
4341577--4341603	3	9.0	3	100	0	54	66	33	0	0	0.92
4351591--4351667	34	2.4	34	86	6	115	42	6	12	37	1.69
4354975--4355024	25	2.0	26	84	4	66	56	4	0	40	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4364399--4364444	4	11.0	4	86	4	56	67	0	6	26	1.15
4364803--4364834	11	2.9	11	95	0	55	68	0	31	0	0.90
4365687--4365925	20	11.9	20	73	13	172	40	21	21	16	1.91
4365790--4365937	40	3.7	40	95	0	251	37	22	22	16	1.94
4365764--4365937	60	2.9	61	82	8	196	37	23	22	16	1.94
4366048--4366086	6	6.5	6	100	0	78	33	51	15	0	1.44
4366840--4366896	6	9.5	6	100	0	114	0	15	50	33	1.44
4367020--4367222	60	3.3	60	86	4	264	16	21	24	37	1.94
4367081--4367238	42	3.8	42	84	8	191	16	21	24	37	1.93
4367020--4367299	20	13.9	20	78	9	205	16	21	22	39	1.92
4368444--4369115	105	6.4	105	93	0	1112	22	18	26	32	1.97
4368444--4369115	211	3.2	211	94	0	1141	22	18	26	32	1.97
4380783--4380814	11	2.9	11	95	0	55	68	0	31	0	0.90
4381449--4381554	54	1.9	55	98	1	205	43	24	15	16	1.87
4385152--4385208	11	5.0	11	76	16	62	47	12	1	38	1.51
4389372--4389399	6	4.7	6	100	0	56	46	0	17	35	1.49
4395393--4395432	21	2.0	20	90	5	62	62	10	0	27	1.27
4399548--4399642	29	3.2	29	67	14	77	33	16	4	45	1.67
4399537--4399676	59	2.3	60	85	1	183	30	17	7	45	1.75
4399550--4399693	60	2.4	59	80	5	164	31	18	6	43	1.75
4401569--4401948	189	2.0	189	98	0	742	32	9	12	45	1.74
4402202--4402291	29	3.0	29	63	12	74	38	10	11	40	1.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4410696--4410779	32	2.6	32	92	0	132	23	21	15	39	1.92
4412974--4413038	25	2.6	25	92	0	103	24	24	21	29	1.99
4435136--4435200	25	2.6	25	95	0	112	26	24	20	29	1.99
4437162--4437238	29	2.6	31	78	12	90	35	16	3	44	1.67
4441227--4441255	14	2.0	15	93	6	51	58	0	0	41	0.98
4442285--4442356	28	2.5	28	90	2	117	43	11	9	36	1.73
4442285--4442354	29	2.4	29	92	2	115	44	11	10	34	1.74
4443826--4443885	18	3.2	18	71	17	59	35	0	6	58	1.24
4443874--4443922	19	2.7	18	81	6	53	32	6	0	61	1.21
4443899--4443938	13	3.0	13	83	16	55	40	0	0	60	0.97
4444658--4444725	20	3.4	20	100	0	136	51	10	17	20	1.74
4444658--4444742	40	2.1	40	88	0	125	54	11	15	18	1.71
4447329--4447374	18	2.5	19	82	7	58	52	4	2	41	1.33
4448738--4448762	11	2.3	11	100	0	50	56	0	0	44	0.99
4449012--4449182	89	1.9	89	90	0	270	25	20	18	35	1.95
4458189--4458250	22	2.7	22	75	5	61	48	12	14	24	1.79
4458283--4458325	21	2.0	22	90	4	70	27	34	23	13	1.93
4462049--4462073	11	2.3	11	100	0	50	40	16	16	28	1.89
4463390--4463435	18	2.5	19	82	7	58	52	4	2	41	1.33
4464778--4464831	19	2.6	22	80	16	62	57	1	3	37	1.27
4465085--4465121	2	18.5	2	100	0	74	51	0	0	48	1.00
4465330--4465384	27	2.0	27	86	13	78	9	1	41	47	1.46
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4465342--4465371	15	2.0	15	100	0	60	6	0	40	53	1.27
4465330--4465465	6	23.5	6	69	5	75	10	2	40	47	1.50
4465357--4465462	12	9.1	11	78	10	95	11	1	40	46	1.51
4465639--4465851	102	2.1	102	81	3	250	32	5	29	32	1.79
4466206--4466324	33	3.6	33	94	0	211	43	5	7	42	1.57
4466268--4466394	18	7.3	18	68	18	81	45	4	4	44	1.45
4466301--4466465	2	79.0	2	67	20	54	44	4	5	45	1.48
4466307--4466463	11	14.6	11	65	19	55	43	5	5	45	1.49
4466307--4466417	13	8.2	13	69	21	50	42	4	5	47	1.46
4466268--4466377	52	2.1	53	86	5	154	46	3	5	44	1.44
4466235--4466429	85	2.3	84	83	7	216	43	5	6	45	1.52
4466530--4466573	21	2.2	21	88	8	65	47	0	4	47	1.22
4466532--4466602	27	2.7	27	84	2	81	46	2	5	45	1.41
4466610--4466685	34	2.2	36	83	4	93	43	2	7	46	1.47
4466638--4466692	13	4.1	13	76	6	56	49	0	7	43	1.30
4466627--4466691	29	2.3	29	78	7	71	47	1	6	44	1.37
4466733--4466822	24	4.0	24	73	24	72	41	10	8	40	1.70
4466735--4466842	42	2.6	43	79	18	120	41	9	9	39	1.69
4466759--4466840	18	4.2	18	77	19	76	41	8	9	40	1.69
4466943--4467073	18	6.9	19	69	21	87	42	2	6	48	1.42
4466963--4467033	11	6.4	11	72	15	65	39	1	7	52	1.38
4466981--4467049	34	2.0	36	85	5	97	43	1	7	47	1.39
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4467008--4467104	9	10.9	9	70	22	62	44	2	8	45	1.45
4466938--4467161	20	11.3	20	67	17	119	42	4	7	45	1.51
4466938--4467089	2	72.0	2	66	21	53	42	2	7	47	1.45
4466943--4467105	40	4.2	40	77	13	137	42	2	7	47	1.44
4467097--4467146	24	2.1	24	85	7	66	42	12	6	40	1.67
4467119--4467185	33	2.1	32	86	5	91	40	8	7	43	1.64
4467156--4467190	18	1.9	18	88	0	52	42	11	8	37	1.72
4467255--4467294	18	2.2	18	90	0	62	40	12	7	40	1.71
4467273--4467335	29	2.3	27	86	5	81	39	6	6	47	1.54
4467273--4467343	27	2.5	28	86	4	90	39	5	5	49	1.50
4467291--4467341	9	5.7	9	77	9	50	39	1	5	52	1.37
4467374--4467477	20	4.8	20	71	17	66	47	4	6	41	1.51
4467389--4467484	27	3.7	27	79	6	99	46	4	7	41	1.51
4467450--4467484	18	1.9	18	88	0	52	45	2	5	45	1.41
4466753--4467541	384	2.0	389	86	7	1122	41	7	7	43	1.61
4467523--4467590	30	2.3	31	76	7	77	41	5	7	45	1.56
4467657--4467696	13	3.1	13	96	0	71	52	7	0	40	1.30
4467678--4467850	22	8.4	21	65	22	73	45	4	4	46	1.41
4467772--4468069	11	27.4	11	67	18	81	44	4	4	46	1.43
4467899--4468069	2	85.0	2	74	14	147	47	2	2	46	1.32
4468167--4468672	217	2.3	216	92	1	825	29	9	8	52	1.63
4468607--4468653	16	3.1	15	79	17	53	29	0	4	65	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4472274--4472306	16	1.9	18	88	11	52	24	27	30	18	1.98
4472310--4472344	18	1.9	18	88	0	52	11	31	34	22	1.90
4477924--4477987	11	5.6	11	83	7	83	25	21	25	28	1.99
4477924--4477987	23	2.8	23	95	0	110	25	21	25	28	1.99
4479737--4479816	14	5.7	14	72	5	54	22	2	27	47	1.64
4479786--4479874	21	4.1	21	77	5	79	26	1	37	34	1.64
4480433--4480480	25	1.9	25	82	0	60	41	4	6	47	1.48
4480565--4480599	6	6.0	6	93	6	63	17	31	34	17	1.93
4488069--4488141	26	2.7	27	79	12	78	47	19	12	20	1.81
4488134--4488188	26	2.2	26	83	9	69	40	21	14	23	1.90

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