genome.fa.s9639.2.7.7.80.10.50.1000.20.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   50   51   52   53   54   55   56   57   58   59   60   61   62   

This is table  20  of  62  ( 7398 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)
4352143--4352319	30	5.9	30	77	1	149	57	9	14	19	1.63
4352250--4352331	30	2.7	30	83	3	103	54	4	15	24	1.61
4354183--4354299	58	2.0	58	100	0	234	34	15	17	33	1.91
4356968--4357111	13	11.2	13	74	12	118	47	5	4	42	1.46
4356998--4357049	18	2.8	19	85	8	72	46	5	1	46	1.38
4356998--4357056	18	3.2	18	80	9	57	47	5	1	45	1.34
4357231--4357308	19	3.6	19	70	25	57	39	0	30	29	1.57
4357260--4357302	19	2.4	18	88	7	61	44	0	30	25	1.55
4357270--4357308	19	2.0	19	95	5	69	43	0	30	25	1.55
4358235--4358328	48	1.9	49	97	2	181	34	14	21	29	1.93
4359335--4359377	21	2.0	21	86	0	59	30	27	25	16	1.97
4359357--4359506	68	2.3	66	87	5	205	28	28	27	16	1.97
4359805--4359874	29	2.4	29	90	0	104	37	10	14	38	1.79
4359890--4359950	31	2.0	32	87	6	90	36	6	22	34	1.81
4366174--4366320	66	2.2	65	84	7	181	29	27	25	17	1.98
4366621--4366690	29	2.4	29	90	0	104	37	10	14	38	1.79
4366706--4366765	30	2.0	31	90	3	95	36	6	23	33	1.81
4366985--4367051	22	3.0	22	100	0	134	19	26	26	26	1.99
4368772--4368802	2	16.0	2	93	6	55	48	0	0	51	1.00
4369051--4369117	7	9.6	7	81	0	71	43	32	1	22	1.62
4369051--4369117	21	3.2	21	82	0	80	43	32	1	22	1.62
4369305--4369371	24	2.8	24	81	4	73	43	7	5	43	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4369375--4369465	21	4.3	20	74	12	74	40	4	6	48	1.49
4369450--4369500	22	2.3	21	80	9	66	41	1	5	50	1.37
4369481--4369529	15	3.2	14	78	16	53	42	2	2	53	1.24
4369474--4369528	16	3.5	15	79	16	67	43	1	1	52	1.22
4369717--4369747	15	2.1	15	100	0	62	32	29	12	25	1.93
4370076--4370140	30	2.1	29	83	13	76	41	3	0	55	1.15
4370290--4370360	16	4.4	16	83	0	88	43	12	21	22	1.86
4373725--4373758	18	1.9	18	88	5	52	14	26	32	26	1.95
4378754--4378798	15	3.0	15	83	0	54	40	33	0	26	1.57
4390484--4390614	43	3.1	43	60	18	101	44	27	11	16	1.82
4390447--4390619	85	2.0	86	98	1	339	45	27	11	15	1.81
4392602--4392690	17	5.2	18	68	14	71	2	13	2	82	0.87
4392611--4392678	20	3.3	20	78	17	68	2	13	2	80	0.93
4392611--4392685	19	3.8	19	79	11	64	2	14	2	80	0.94
4392597--4392655	30	1.9	32	86	6	86	5	13	1	79	0.97
4392600--4392700	11	8.9	11	72	12	62	2	12	2	81	0.93
4392737--4392775	21	1.9	21	85	15	55	41	28	10	20	1.85
4397909--4397984	30	2.5	30	80	2	80	35	19	6	38	1.78
4403267--4403305	13	2.9	14	88	7	62	69	10	0	20	1.17
4403255--4403381	44	2.9	42	72	16	107	65	10	1	22	1.32
4405162--4405224	31	2.0	31	93	0	108	20	17	22	39	1.92
4405404--4405500	31	3.1	31	82	5	133	26	17	19	36	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4406732--4406771	21	1.9	21	84	0	53	17	12	40	30	1.86
4409043--4409095	21	2.5	21	81	0	70	20	22	18	37	1.94
4409085--4409137	20	2.7	20	87	0	79	39	18	20	20	1.92
4409743--4409834	20	4.6	20	81	5	78	15	14	21	48	1.80
4409762--4409836	20	3.8	20	87	0	105	10	14	21	53	1.71
4411726--4411882	20	8.5	20	76	18	135	42	21	18	17	1.90
4411749--4411903	34	4.4	34	75	13	152	42	21	20	16	1.89
4411929--4411995	20	3.3	20	85	0	80	22	19	20	37	1.95
4412481--4412522	21	2.2	19	87	12	59	21	35	19	23	1.96
4412507--4412567	21	2.9	22	73	7	63	26	40	13	19	1.88
4412506--4412597	42	2.2	42	84	3	114	26	35	16	21	1.94
4413967--4414002	14	2.6	14	90	0	54	30	0	22	47	1.52
4414108--4414203	33	2.8	33	82	3	111	42	17	22	16	1.88
4414245--4414274	14	2.1	14	100	0	60	10	26	20	43	1.83
4414252--4414353	40	2.8	34	73	21	91	13	22	26	37	1.92
4414266--4414334	20	3.5	20	90	4	95	14	20	27	37	1.91
4416767--4416820	24	2.2	24	93	0	90	40	20	18	20	1.91
4416767--4416834	24	2.8	24	84	0	64	38	20	17	23	1.93
4417663--4417728	20	3.3	20	86	0	96	22	21	25	30	1.99
4417715--4417787	20	3.7	20	98	0	137	19	20	21	38	1.94
4417777--4417829	21	2.5	21	78	0	61	35	18	22	22	1.95
4418799--4418851	26	2.0	26	100	0	106	39	3	7	49	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4419172--4419219	19	2.5	19	89	0	69	45	2	2	50	1.25
4421121--4421228	43	2.5	42	82	10	137	27	16	2	52	1.57
4425484--4425594	55	2.0	55	100	0	222	34	7	24	34	1.83
4428387--4428471	34	2.5	33	77	7	80	57	10	16	15	1.64
4428588--4428647	14	4.3	14	77	8	59	56	15	16	11	1.67
4434504--4434564	24	2.5	24	97	0	113	49	6	11	32	1.65
4441798--4441863	33	2.1	31	86	8	89	36	24	15	24	1.93
4443551--4443603	2	26.5	2	92	0	88	1	49	0	49	1.12
4443603--4443635	2	16.5	2	100	0	66	48	0	0	51	1.00
4443820--4443900	40	2.0	41	85	7	112	34	9	3	51	1.53
4446376--4446404	7	4.1	7	100	0	58	0	44	13	41	1.44
4447852--4448042	59	3.2	59	82	3	204	38	15	15	30	1.88
4450773--4450847	30	2.5	30	79	16	84	44	9	14	32	1.77
4452701--4452729	15	1.9	15	100	0	58	37	6	20	34	1.80
4452914--4453014	38	2.7	38	88	0	166	23	19	30	25	1.98
4453106--4453304	82	2.4	83	89	0	301	37	9	14	38	1.79
4453493--4453554	18	3.4	18	72	0	70	38	3	22	35	1.71
4456124--4456177	8	6.9	8	80	4	65	83	3	11	1	0.85
4457005--4457079	30	2.5	30	82	4	89	41	9	18	30	1.82
4459127--4459222	38	2.5	38	87	0	156	27	22	26	23	2.00
4459316--4459514	82	2.4	83	89	0	319	36	10	14	39	1.80
4466370--4466407	16	2.6	15	88	12	53	47	0	7	44	1.32
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4466375--4466426	16	2.9	18	83	13	63	38	0	9	51	1.35
4466419--4466458	2	21.5	2	82	14	50	47	0	2	50	1.14
4466420--4466475	29	1.9	29	82	7	69	41	0	3	55	1.17
4476255--4476285	15	2.1	15	93	0	53	41	3	19	35	1.67
4478421--4478463	19	2.4	19	84	7	54	20	0	13	65	1.27
4482680--4482745	2	33.0	2	82	11	82	46	3	3	46	1.33
4482685--4482758	32	2.3	32	81	6	87	44	2	6	45	1.44
4482753--4482798	3	15.3	3	100	0	92	32	0	0	67	0.91
4483631--4483691	28	2.2	28	96	0	113	45	34	6	13	1.69
4484403--4484467	22	3.0	22	93	0	112	29	26	20	24	1.99
4500217--4500373	69	2.3	69	80	2	181	25	19	21	34	1.96
4503374--4504000	201	3.1	197	78	7	622	34	9	21	34	1.87
4508739--4508788	23	2.1	25	81	7	59	46	2	0	52	1.12
4508773--4508823	23	2.2	23	89	0	75	50	3	1	43	1.31
4508868--4508946	27	3.0	26	78	14	74	46	1	2	49	1.23
4508932--4509014	23	3.7	23	73	17	75	53	1	1	44	1.16
4508933--4509043	24	4.5	24	71	20	88	51	0	0	46	1.13
4509001--4509050	16	2.9	16	82	8	55	52	0	0	48	1.00
4509927--4510595	334	2.0	334	99	0	1329	32	7	22	37	1.82
4511069--4511114	20	2.3	20	78	10	51	47	6	15	30	1.70
4512719--4513209	81	6.1	80	86	4	637	28	24	12	34	1.92
4512744--4513209	244	1.9	242	88	1	700	28	24	12	34	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4512719--4513209	163	3.0	161	87	2	666	28	24	12	34	1.92
4514839--4514907	31	2.3	31	94	2	122	24	15	24	34	1.95
4515144--4515572	215	2.0	214	98	1	824	34	20	13	31	1.91
4521747--4521825	32	2.5	31	78	15	81	32	18	10	37	1.85
4521744--4522246	142	3.5	143	86	3	699	35	16	9	38	1.81
4522057--4522136	35	2.4	34	89	6	110	35	15	8	41	1.78
4522089--4522353	110	2.4	110	89	2	394	35	20	7	36	1.82
4521956--4522495	252	2.1	251	88	2	778	35	17	8	37	1.81
4522199--4522530	142	2.4	142	85	4	458	34	18	7	39	1.79
4522320--4522389	35	2.1	34	84	10	90	35	17	5	41	1.73

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   50   51   52   53   54   55   56   57   58   59   60   61   62