genome.fa.s8243.2.7.7.80.10.50.1000.21.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: VEPZ01008243.1 Hibiscus syriacus cultivar Beakdansim tig00110893_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10265705

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   

This is table  21  of  49  ( 5786 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)
4217401--4217458	18	3.4	17	83	11	75	75	3	6	13	1.13
4217638--4217682	15	3.1	14	81	12	56	71	0	4	24	1.05
4217657--4217749	42	2.2	43	84	9	129	66	0	5	27	1.13
4218876--4218900	2	12.5	2	100	0	50	52	0	0	48	1.00
4219226--4219261	15	2.5	15	95	4	65	27	25	19	27	1.99
4219490--4219684	101	1.9	101	96	0	363	28	14	17	38	1.90
4220023--4220063	10	4.6	9	82	14	50	70	26	2	0	0.99
4220314--4220369	14	4.1	14	73	21	57	53	14	14	17	1.73
4224048--4224083	2	18.5	2	88	5	56	55	0	44	0	0.99
4233988--4234027	21	1.9	21	89	0	62	10	25	40	25	1.86
4240914--4241099	36	5.2	36	90	2	259	19	24	22	32	1.97
4261003--4261096	32	3.0	31	83	9	104	48	2	3	45	1.30
4261141--4261302	60	2.7	60	83	6	206	35	22	4	37	1.76
4261469--4261620	60	2.5	60	79	7	166	44	3	19	32	1.67
4261433--4261620	59	3.1	58	75	6	180	45	4	19	31	1.69
4261865--4261920	29	2.0	29	89	3	87	35	26	8	28	1.87
4271166--4271202	17	2.2	17	95	0	65	40	0	13	45	1.43
4271174--4271210	17	2.1	17	90	5	56	40	2	16	40	1.62
4271166--4271224	17	3.3	17	81	9	55	40	1	11	45	1.51
4272222--4272332	31	3.7	30	84	8	138	44	4	9	42	1.56
4272251--4272323	15	4.9	15	70	11	51	45	2	8	43	1.48
4272236--4272332	31	3.2	29	85	7	140	45	4	8	42	1.53
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4272826--4272878	19	2.8	18	80	5	61	54	0	1	43	1.11
4272993--4273072	42	1.9	42	86	0	115	48	17	2	31	1.60
4273061--4273087	14	1.9	14	100	0	54	51	3	0	44	1.19
4273077--4273177	38	2.7	38	93	1	168	56	10	4	27	1.54
4281436--4281502	33	2.0	33	100	0	134	49	14	8	26	1.73
4281872--4281983	21	5.4	21	83	8	90	32	22	21	24	1.98
4281913--4281964	20	2.6	20	100	0	104	38	17	21	23	1.93
4293763--4293805	14	3.1	14	80	6	52	53	25	0	20	1.46
4294456--4294507	23	2.3	21	81	18	61	30	3	9	55	1.50
4294462--4294504	22	1.9	23	86	13	63	30	4	11	53	1.57
4301239--4301273	16	2.2	16	89	0	52	42	2	5	48	1.41
4301245--4301284	20	2.0	20	85	0	53	40	2	2	55	1.27
4302679--4303047	184	2.0	187	98	1	717	27	17	18	36	1.94
4307343--4307383	15	2.7	15	84	0	55	24	63	4	7	1.40
4336700--4336756	29	2.0	29	89	0	87	43	7	5	43	1.54
4347272--4347315	2	22.0	2	100	0	88	50	0	0	50	1.00
4348689--4348740	26	2.0	27	82	17	65	57	1	1	38	1.21
4356236--4356303	28	2.5	27	81	9	75	55	2	1	39	1.24
4356639--4356665	5	5.4	5	100	0	54	62	0	0	37	0.95
4358246--4358290	21	2.1	21	83	0	54	31	31	24	13	1.93
4359018--4359083	31	2.2	30	81	10	80	30	19	18	31	1.96
4359072--4359224	30	5.1	30	96	0	272	21	22	25	30	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4363285--4363329	21	2.1	21	83	0	54	31	31	24	13	1.93
4364107--4364259	30	5.1	30	96	0	272	21	22	25	30	1.99
4367641--4367679	19	2.0	19	85	5	51	64	12	15	7	1.49
4372187--4372221	15	2.2	16	90	5	54	17	0	11	71	1.14
4372336--4372440	47	2.2	47	79	3	113	37	18	14	30	1.90
4373684--4373728	2	23.0	2	95	4	83	51	0	0	48	1.00
4380885--4381064	91	2.0	89	84	6	238	40	6	11	41	1.68
4381824--4381861	18	2.2	18	86	13	53	39	2	7	50	1.46
4387849--4388099	126	2.0	125	98	1	486	36	17	16	29	1.92
4389480--4389541	2	31.0	2	96	0	115	51	0	0	48	1.00
4395295--4395354	23	2.6	23	81	0	66	35	11	8	45	1.71
4398337--4398376	7	6.0	7	78	21	50	27	0	0	72	0.85
4398342--4398382	19	2.2	19	86	8	57	24	2	0	73	0.96
4398337--4398390	26	2.0	26	85	3	72	22	5	0	72	1.05
4401998--4402030	16	2.1	16	100	0	66	51	6	18	24	1.68
4408598--4408652	24	2.3	24	80	0	65	45	16	12	25	1.83
4414693--4414746	26	2.0	27	89	3	83	37	27	5	29	1.80
4417660--4417750	6	16.0	6	98	1	147	29	52	17	0	1.45
4418432--4418486	6	9.2	6	100	0	110	0	16	50	32	1.45
4418604--4418657	20	2.7	19	88	8	81	11	20	18	50	1.77
4418644--4418694	19	2.6	20	90	3	77	15	17	23	43	1.88
4420834--4420887	21	2.6	21	81	0	63	14	14	38	31	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4433047--4433083	16	2.3	16	95	0	65	48	5	13	32	1.65
4442154--4442202	25	2.0	25	100	0	98	32	20	22	24	1.98
4444796--4445102	161	1.9	159	84	7	406	36	16	13	33	1.88
4449374--4449417	21	2.0	23	82	8	56	50	4	4	40	1.43
4460272--4460305	18	2.0	18	88	11	54	41	0	0	58	0.98
4469365--4469414	23	2.1	25	85	7	68	32	2	6	60	1.32
4469676--4469811	60	2.3	59	81	8	159	35	22	5	36	1.79
4469998--4470166	60	2.8	59	73	17	141	42	4	20	32	1.71
4475792--4475824	2	16.5	2	100	0	66	48	0	0	51	1.00
4479350--4479421	17	4.4	17	72	16	62	63	2	0	33	1.08
4487883--4487916	2	17.0	2	100	0	68	50	0	0	50	1.00
4489043--4489103	2	31.0	2	96	3	115	49	0	0	50	1.00
4498014--4498041	2	14.0	2	100	0	56	50	0	0	50	1.00
4499184--4499241	2	29.0	2	100	0	116	50	0	0	50	1.00
4505614--4505732	35	3.3	36	87	6	161	45	17	3	33	1.65
4505662--4505725	21	3.4	21	66	28	61	46	17	4	31	1.68
4509796--4509828	16	2.1	16	94	0	57	33	27	6	33	1.81
4510237--4510355	35	3.3	36	89	6	179	44	18	2	34	1.63
4510285--4510348	21	3.4	21	66	28	61	46	17	3	32	1.63
4514348--4514390	22	2.0	22	86	9	61	51	4	0	44	1.22
4517357--4517583	4	56.8	4	98	0	436	25	0	24	49	1.56
4529523--4529597	5	15.8	5	78	8	77	77	5	0	17	0.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4529523--4529598	33	2.3	34	93	6	138	77	5	0	17	0.94
4529546--4529592	23	2.0	23	91	0	76	78	4	0	17	0.90
4533203--4533246	21	2.1	21	83	4	54	34	11	0	54	1.36
4533248--4533313	29	2.2	30	81	5	80	28	7	9	54	1.59
4533260--4533339	29	2.7	29	84	1	88	26	15	10	48	1.75
4537051--4537206	50	3.1	50	81	7	167	16	31	30	21	1.96
4537463--4537684	110	2.0	110	95	0	399	36	7	11	45	1.69
4538264--4538348	35	2.4	35	80	14	95	25	7	9	57	1.55
4539159--4539281	51	2.4	50	81	8	133	22	26	32	17	1.97
4550504--4550551	20	2.4	20	92	0	78	43	22	12	20	1.86
4550579--4550834	62	4.2	61	75	12	242	26	14	26	31	1.95
4550579--4550804	119	1.9	118	84	6	305	26	15	27	30	1.96
4550579--4550835	21	12.6	20	77	8	173	26	14	26	31	1.95
4550816--4550906	40	2.3	40	84	3	121	24	15	26	34	1.95
4550993--4551018	2	13.0	2	100	0	52	50	0	0	50	1.00
4554531--4554634	28	3.5	30	87	10	153	43	8	6	41	1.62
4554753--4554789	19	2.0	19	89	5	58	40	0	2	56	1.13
4554800--4554830	2	15.5	2	93	0	53	51	3	0	45	1.17
4555043--4555076	17	1.9	18	88	5	52	58	2	0	38	1.13
4559643--4560011	20	18.5	20	84	5	451	34	26	18	20	1.96
4561147--4561437	19	16.4	19	83	13	390	47	18	20	14	1.83
4561147--4561419	33	7.8	34	86	8	267	47	18	20	14	1.83
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4561147--4561457	52	5.9	51	84	11	301	46	18	20	14	1.83
4561465--4561566	19	5.6	19	85	12	151	14	23	17	44	1.86
4561672--4561708	14	2.6	14	91	0	65	45	21	0	32	1.52
4563591--4563655	18	3.4	19	83	10	80	44	27	16	10	1.81
4563591--4563724	19	7.6	19	75	18	119	45	23	19	11	1.82
4563646--4563702	14	3.7	14	77	20	60	45	22	21	10	1.82
4563591--4563719	33	3.8	33	87	5	168	46	24	18	10	1.81
4563720--4563849	19	7.3	19	72	18	109	8	17	28	45	1.78
4563720--4563811	34	2.8	33	91	3	148	7	19	28	44	1.78
4563892--4564172	89	3.1	93	91	6	495	46	18	12	23	1.82

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