genome.fa.s8756.2.7.7.80.10.50.1000.20.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: VEPZ01008756.1 Hibiscus syriacus cultivar Beakdansim tig00111848_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4584045

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   

This is table  20  of  21  ( 2443 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)
4271323--4271412	13	6.5	13	82	12	108	16	20	45	17	1.85
4271344--4271384	18	2.3	18	86	0	64	9	19	48	21	1.77
4271331--4271397	31	2.2	31	88	0	107	13	19	47	19	1.82
4271323--4271411	44	2.0	44	91	0	142	15	20	46	17	1.85
4273389--4273463	35	2.1	35	92	0	123	33	29	28	9	1.88
4273573--4273615	19	2.3	19	80	4	52	39	20	18	20	1.93
4274732--4274767	18	2.0	18	88	0	54	30	16	0	52	1.44
4276024--4276071	10	5.6	9	85	14	50	22	22	35	18	1.96
4276025--4276096	8	9.4	8	73	25	59	20	22	40	16	1.91
4276058--4276147	13	6.5	13	82	12	108	16	20	45	17	1.85
4276079--4276119	18	2.3	18	86	0	64	9	19	48	21	1.77
4276066--4276132	31	2.2	31	88	0	107	13	19	47	19	1.82
4276058--4276146	44	2.0	44	91	0	142	15	20	46	17	1.85
4277154--4277195	21	2.0	21	95	0	75	26	28	21	23	1.99
4277342--4277401	29	2.0	31	90	6	97	41	16	6	35	1.75
4278618--4278660	17	2.6	16	85	10	52	13	20	0	65	1.27
4281980--4282027	19	2.5	20	76	10	55	47	20	8	22	1.77
4283228--4283285	23	2.5	23	85	0	71	25	8	15	50	1.73
4284425--4284449	2	12.5	2	100	0	50	52	0	0	48	1.00
4287320--4287362	16	2.6	17	85	10	54	76	0	0	23	0.78
4287326--4287371	17	2.7	18	80	12	53	76	0	0	23	0.79
4287327--4287364	11	3.5	11	82	17	53	78	0	0	21	0.74
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4303345--4303378	9	3.9	9	84	7	52	35	0	2	61	1.11
4303344--4303382	17	2.4	17	95	4	71	33	0	5	61	1.18
4305121--4305198	33	2.4	33	91	0	120	20	34	12	32	1.90
4305598--4305658	26	2.3	26	83	5	70	18	3	11	67	1.35
4305624--4305671	13	3.7	13	82	0	60	16	2	12	68	1.29
4305622--4305671	26	1.9	26	91	0	82	18	4	12	66	1.39
4305687--4305773	33	2.6	33	85	7	104	21	3	12	62	1.45
4310245--4310289	19	2.4	18	92	3	72	40	0	0	60	0.97
4310272--4310352	24	3.2	25	73	16	78	35	1	4	58	1.28
4317309--4317431	62	1.9	64	90	4	196	28	17	14	39	1.89
4323512--4323563	21	2.4	21	81	9	61	25	15	23	36	1.93
4324900--4325288	194	2.0	195	98	0	762	37	18	15	27	1.92
4325630--4325671	20	2.1	20	100	0	84	33	9	35	21	1.86
4336684--4336743	30	2.0	30	90	6	95	45	6	3	45	1.46
4337647--4339508	932	2.0	930	96	2	3487	29	19	18	32	1.96
4344104--4344177	35	2.1	35	87	5	105	45	20	0	33	1.51
4344359--4344637	143	1.9	144	89	7	435	36	6	9	47	1.62
4345136--4345215	35	2.3	35	95	0	142	32	0	25	42	1.55
4346555--4346613	31	1.9	31	92	0	100	38	8	10	42	1.69
4349744--4349888	70	2.0	73	96	4	269	39	12	27	20	1.89
4349997--4350142	73	2.0	73	100	0	292	27	9	21	41	1.84
4351083--4351128	16	2.8	17	74	9	51	50	4	8	36	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4358680--4358930	128	2.0	122	89	8	382	51	7	6	34	1.56
4361297--4361336	19	2.1	20	86	9	57	40	0	2	57	1.12
4361296--4361337	18	2.3	18	80	8	50	42	0	2	54	1.13
4369293--4369347	23	2.4	23	81	3	67	70	5	1	21	1.16
4369695--4369747	22	2.5	22	82	14	58	37	0	1	60	1.08
4369735--4369775	18	2.3	18	91	0	64	31	0	9	58	1.31
4371673--4371701	2	14.5	2	100	0	58	51	0	0	48	1.00
4379976--4380051	13	4.9	16	71	26	65	17	47	19	15	1.83
4379973--4380051	31	2.5	31	91	0	131	17	46	20	15	1.83
4381372--4381407	18	2.0	18	88	0	54	52	0	16	30	1.44
4382525--4382632	24	4.5	24	73	6	85	22	14	15	47	1.82
4384635--4384680	9	4.9	9	79	10	56	13	19	32	34	1.90
4384685--4384723	18	2.2	18	95	0	69	20	51	17	10	1.74
4384715--4384746	7	4.4	7	92	7	55	12	34	28	25	1.92
4384712--4384745	15	2.3	15	100	0	68	14	35	26	23	1.94
4386052--4386087	18	2.0	18	88	0	54	52	0	16	30	1.44
4387211--4387315	23	4.5	23	72	11	81	21	13	17	47	1.81
4387476--4387512	2	18.5	2	100	0	74	48	0	0	51	1.00
4389454--4389492	18	2.2	18	95	0	69	20	51	17	10	1.74
4389484--4389515	7	4.4	7	92	7	55	12	34	28	25	1.92
4389481--4389514	15	2.3	15	100	0	68	14	35	26	23	1.94
4390824--4390858	17	2.1	17	88	0	52	54	0	17	28	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4391983--4392091	24	4.5	24	74	4	94	21	14	16	47	1.82
4394188--4394226	16	2.5	15	84	12	51	43	0	2	53	1.14
4398675--4398764	36	2.4	38	80	12	114	51	3	0	45	1.18
4409230--4409441	20	10.5	20	76	11	146	38	25	18	17	1.92
4409291--4409444	20	7.6	20	82	7	168	38	24	18	17	1.92
4409230--4409449	40	5.5	41	83	7	247	38	24	18	18	1.93
4410302--4410355	24	2.2	24	93	0	90	20	18	20	40	1.91
4411828--4411880	20	2.7	20	87	0	79	33	18	20	26	1.96
4411887--4411932	19	2.4	19	96	0	83	50	17	17	15	1.79
4411834--4411947	52	2.1	54	87	3	160	42	18	21	17	1.90
4412074--4412110	14	2.6	14	86	0	56	48	21	0	29	1.50
4413453--4413519	21	3.2	21	68	4	55	19	20	35	23	1.95
4413453--4413575	42	2.9	41	79	7	113	22	18	36	21	1.95
4415543--4415614	20	3.7	19	83	7	99	45	18	23	12	1.83
4415634--4415690	14	3.7	14	72	20	51	10	22	22	43	1.84
4415618--4415698	33	2.5	33	93	0	135	9	20	22	46	1.80
4415682--4415753	20	3.5	20	84	5	92	12	16	19	51	1.76
4416347--4416497	20	7.5	20	73	12	130	19	16	23	40	1.91
4416365--4416535	20	8.4	20	77	7	175	19	17	24	38	1.93
4416347--4416535	40	4.7	40	89	0	261	19	16	24	39	1.92
4416544--4416596	20	2.7	20	85	5	72	13	16	24	45	1.83
4416314--4416596	122	2.3	123	81	7	304	18	17	25	38	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4416364--4416596	81	2.9	81	79	11	226	19	17	24	39	1.92
4425833--4425923	22	4.1	22	82	10	105	31	26	19	21	1.98
4426571--4426622	22	2.5	20	82	14	61	30	25	11	32	1.91
4428850--4428970	56	2.1	57	87	1	172	29	12	23	34	1.91
4431435--4431536	30	3.4	30	86	1	132	46	1	0	51	1.12
4431463--4431541	17	4.8	17	69	18	60	45	1	0	53	1.08
4436201--4436242	16	2.6	16	77	7	50	52	4	0	42	1.22
4444051--4444143	21	4.5	21	78	4	100	39	18	23	18	1.92
4444051--4444143	41	2.3	41	98	0	177	39	18	23	18	1.92
4444129--4444226	41	2.4	41	80	8	119	38	21	16	23	1.92
4446053--4446097	18	2.5	18	88	0	72	26	44	15	13	1.83
4446577--4446643	20	3.4	20	83	2	82	40	23	20	14	1.90
4446632--4446689	14	3.9	14	79	16	71	48	24	17	10	1.78
4446616--4446706	32	2.8	33	94	3	166	47	21	18	12	1.81
4446724--4446780	14	3.8	14	74	17	60	12	15	22	49	1.78
4446725--4446796	32	2.2	33	95	2	128	13	18	20	47	1.82
4446745--4446838	19	5.2	19	75	13	72	13	21	21	43	1.87
4446781--4446835	20	2.8	19	89	5	83	16	25	23	34	1.95
4448841--4448889	19	2.6	19	100	0	98	48	16	20	14	1.80
4448935--4448983	20	2.5	20	89	0	71	20	16	22	40	1.91
4450268--4450292	12	2.1	12	100	0	50	72	0	28	0	0.86
4452579--4452670	19	5.4	19	66	24	78	43	19	20	16	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4452579--4452704	33	3.8	33	86	5	184	42	20	23	14	1.88
4452580--4452711	66	2.0	65	94	1	228	40	20	22	15	1.90
4452704--4452746	20	2.2	20	83	4	52	16	16	23	44	1.86
4452888--4452921	14	2.4	14	90	0	59	44	23	0	32	1.54
4454305--4454388	42	2.0	42	83	0	105	22	15	39	22	1.92
4456402--4456504	39	2.9	33	84	10	107	44	22	22	10	1.83
4456377--4456509	20	7.1	19	78	13	141	45	20	22	12	1.84
4456385--4456487	53	1.9	54	84	5	138	43	22	22	11	1.85
4456521--4456557	14	2.6	14	100	0	74	13	21	24	40	1.89
4457095--4457147	20	2.7	20	93	0	88	26	20	28	24	1.99

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21