genome.fa.s260.2.7.7.80.10.50.1000.22.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: VEPZ01000260.1 Hibiscus syriacus cultivar Beakdansim tig00000477_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5583615

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   

This is table  22  of  26  ( 3102 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)
4484980--4489236	163	26.0	163	83	2	4763	38	21	17	22	1.93
4489100--4489374	141	2.0	141	83	2	356	40	20	18	21	1.92
4489237--4490728	82	18.3	82	82	3	1556	37	20	17	23	1.94
4489237--4490728	163	9.1	163	82	3	1633	37	20	17	23	1.94
4489237--4490728	245	6.1	245	84	2	1757	37	20	17	23	1.94
4493972--4494001	15	1.9	15	93	6	51	16	0	0	83	0.65
4495146--4495497	127	2.7	131	84	3	478	33	11	14	40	1.82
4499129--4499180	21	2.4	21	87	3	68	26	21	23	28	1.99
4500494--4500533	16	2.5	16	95	0	71	25	5	17	52	1.64
4510839--4510879	22	2.0	21	85	9	57	26	26	24	21	2.00
4510917--4510980	27	2.5	26	82	9	71	39	18	14	28	1.90
4513363--4513478	38	3.2	36	89	6	139	44	18	21	14	1.86
4513392--4513497	19	5.8	19	91	8	177	47	16	21	14	1.82
4513516--4513573	20	2.9	20	94	0	98	17	22	22	37	1.93
4514955--4515090	20	6.7	20	77	4	137	17	24	17	40	1.91
4514949--4515090	41	3.5	41	100	0	284	17	23	16	41	1.89
4517034--4517060	12	2.2	12	100	0	54	22	22	7	48	1.75
4518132--4518572	239	1.8	240	86	3	647	35	13	15	35	1.87
4520041--4520066	13	2.0	13	100	0	52	69	0	0	30	0.89
4521073--4521111	17	2.3	17	100	0	78	20	53	10	15	1.70
4521882--4523304	106	13.7	106	91	3	2160	23	18	24	32	1.97
4521882--4523304	419	3.4	423	90	3	2176	23	18	24	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4523383--4523779	104	3.8	105	91	4	642	23	19	24	32	1.97
4527480--4527505	13	2.0	13	100	0	52	69	0	0	30	0.89
4528512--4528550	17	2.3	17	100	0	78	20	53	10	15	1.70
4539218--4539268	19	2.7	19	93	0	84	29	25	21	23	1.99
4539316--4539368	21	2.5	21	78	0	61	20	20	18	39	1.92
4539358--4539450	20	4.7	20	100	0	186	38	20	20	20	1.93
4539650--4539712	22	2.9	21	85	4	81	25	36	14	23	1.93
4540048--4540245	20	10.6	19	78	14	101	15	17	23	43	1.86
4540031--4540162	33	3.8	33	75	14	122	14	20	24	40	1.89
4540049--4540223	73	2.4	73	93	0	287	16	17	24	42	1.88
4540082--4540242	20	8.4	20	82	8	165	16	16	24	42	1.88
4542120--4542297	20	8.5	20	81	9	194	42	22	16	18	1.89
4542203--4542246	14	3.1	14	83	0	61	50	25	15	9	1.74
4542143--4542308	88	1.9	88	89	0	260	42	22	18	17	1.89
4542344--4542587	20	12.4	20	86	7	266	20	18	22	38	1.94
4544557--4544609	14	3.9	13	76	9	52	33	0	18	47	1.49
4544786--4544879	20	4.7	20	89	2	145	17	22	25	35	1.95
4547293--4547346	24	2.2	24	93	0	90	40	20	18	20	1.91
4547293--4547360	24	2.8	24	84	0	64	38	20	17	23	1.93
4548188--4548274	20	4.3	20	83	0	120	20	17	29	32	1.95
4548261--4548370	20	5.5	20	98	0	211	19	20	20	40	1.92
4548372--4548415	21	2.1	21	91	0	70	40	15	25	18	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4548463--4548513	19	2.7	19	96	0	93	21	21	27	29	1.99
4549294--4549345	23	2.3	23	82	0	68	21	13	19	46	1.84
4552997--4553035	19	2.1	19	100	0	78	20	20	20	38	1.94
4553437--4553502	20	3.4	18	77	8	51	22	16	13	46	1.82
4554924--4554967	14	3.2	14	81	12	56	72	0	18	9	1.10
4556897--4557023	54	2.3	54	85	5	159	29	8	20	41	1.82
4556905--4557054	54	2.7	54	80	10	146	32	9	19	39	1.83
4557634--4558401	136	5.6	136	88	2	1039	35	16	21	25	1.95
4559969--4560033	19	3.2	21	76	18	59	12	1	7	78	1.02
4561592--4561623	2	16.5	2	93	6	57	50	0	0	50	1.00
4561677--4561742	12	5.6	12	78	10	73	28	46	12	12	1.77
4564262--4564407	45	3.2	45	94	0	247	21	10	17	50	1.76
4570148--4570193	24	1.9	24	86	8	67	71	2	6	19	1.18
4579167--4579213	24	2.0	24	95	4	87	19	25	21	34	1.96
4582045--4582078	5	7.0	5	96	3	61	17	0	0	82	0.67
4586065--4586119	22	2.4	23	87	3	76	34	14	29	21	1.93
4586583--4586706	47	2.8	44	84	7	151	31	20	8	38	1.84
4586596--4586720	47	2.9	41	80	12	112	32	20	9	38	1.85
4587058--4587094	17	2.0	19	85	15	51	48	10	5	35	1.61
4588717--4588776	30	2.0	30	100	0	120	23	26	13	36	1.92
4589556--4589585	14	2.1	14	93	0	51	30	3	0	66	1.07
4590462--4590486	7	3.6	7	100	0	50	28	28	0	44	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4591199--4591249	25	2.0	25	96	0	93	31	21	13	33	1.92
4594950--4594977	2	14.0	2	100	0	56	50	0	0	50	1.00
4597864--4597912	20	2.5	20	80	12	57	12	4	10	73	1.22
4598391--4598420	12	2.5	12	94	0	51	26	10	3	60	1.45
4601418--4601468	6	8.3	6	86	4	66	17	15	9	56	1.65
4601411--4601462	12	4.2	12	90	2	68	19	15	7	57	1.62
4601440--4601506	34	2.0	33	85	8	91	22	20	8	47	1.78
4604578--4604724	9	16.2	8	68	30	68	76	1	19	2	0.95
4604578--4604723	11	12.8	11	70	17	77	76	1	19	2	0.96
4604580--4604724	17	7.8	19	72	17	94	76	1	20	2	0.96
4604581--4604724	35	3.9	35	77	17	116	76	1	20	2	0.96
4604577--4604723	26	5.4	26	72	20	97	76	1	20	2	0.97
4604641--4604724	6	14.3	6	72	18	70	80	1	17	0	0.77
4604577--4604722	63	2.2	64	82	11	165	76	1	20	2	0.97
4604589--4604719	47	2.7	46	84	13	142	76	1	20	1	0.95
4607224--4607286	20	3.2	20	65	13	58	39	12	23	23	1.89
4607349--4607600	120	2.1	118	85	3	344	38	13	21	25	1.91
4611772--4611927	65	2.4	64	84	3	188	29	19	21	29	1.98
4614024--4614062	13	2.9	13	92	3	60	43	7	12	35	1.72
4620378--4620529	65	2.4	64	84	3	189	33	17	19	29	1.95
4621254--4621363	36	3.1	36	98	0	211	27	16	14	41	1.87
4629289--4629423	65	2.1	63	83	5	164	31	15	23	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4629630--4629655	12	2.2	12	100	0	52	46	7	0	46	1.31
4629776--4629809	12	2.7	13	86	9	52	38	5	11	44	1.65
4631529--4631569	18	2.2	19	91	8	66	68	14	0	17	1.22
4631988--4632061	23	3.3	23	69	7	71	28	18	22	29	1.98
4631983--4632088	44	2.4	44	82	0	140	29	18	21	30	1.97
4637590--4637633	18	2.4	18	96	0	79	15	18	36	29	1.92
4638631--4638705	36	2.0	38	92	5	127	25	16	17	41	1.89
4639591--4639623	10	3.3	10	100	0	66	30	18	27	24	1.98
4639816--4639853	14	2.5	15	87	12	60	15	10	0	73	1.09
4639844--4639884	16	2.7	15	84	3	55	24	14	4	56	1.58
4639860--4639914	25	2.2	25	90	0	83	18	12	3	65	1.40
4639867--4639920	25	2.2	25	96	0	99	14	11	3	70	1.29
4640045--4640076	2	16.0	2	100	0	64	50	0	0	50	1.00
4641702--4641748	23	2.0	23	83	0	58	27	21	19	31	1.97
4641709--4641842	23	5.8	23	89	1	160	21	19	18	40	1.92
4641709--4641842	47	2.9	47	89	1	198	21	19	18	40	1.92
4643767--4643818	14	3.7	14	84	0	59	40	28	1	28	1.67
4644140--4644176	19	1.9	19	94	0	65	32	29	16	21	1.95
4644283--4644338	20	2.8	20	94	0	94	25	25	19	30	1.98
4644481--4644531	22	2.3	22	96	0	93	23	45	11	19	1.83
4646865--4646914	20	2.5	20	83	0	55	44	26	18	12	1.84
4646882--4646930	20	2.5	20	89	0	71	34	24	20	20	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4646964--4647001	20	1.9	20	88	0	58	50	15	21	13	1.78
4647002--4647040	19	2.0	20	90	5	62	12	15	20	51	1.76
4647060--4647103	20	2.2	20	91	0	70	15	13	20	50	1.78
4647582--4647681	21	4.8	20	72	8	74	25	33	17	25	1.96
4649082--4649118	14	2.6	14	100	0	74	29	0	21	48	1.50
4649252--4649315	20	3.2	20	86	0	92	46	21	17	14	1.83
4649319--4649489	34	4.8	35	77	12	152	23	18	22	35	1.96
4649359--4649422	20	3.2	20	88	0	92	28	20	20	31	1.97
4649427--4649498	20	3.9	20	74	20	75	23	16	25	34	1.95
4649394--4649490	34	2.9	34	95	0	176	19	16	26	37	1.93

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