genome.fa.s9462.2.7.7.80.10.50.1000.21.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

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   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   

This is table  21  of  91  ( 10815 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)
4181254--4181292	15	2.6	15	87	0	51	35	7	17	38	1.79
4181550--4181602	25	2.1	25	96	0	97	49	9	3	37	1.53
4182593--4182638	6	7.7	6	87	0	56	15	32	2	50	1.56
4184122--4185324	200	6.0	200	88	3	1597	32	15	12	39	1.84
4184144--4185620	400	3.8	397	83	7	1732	32	15	12	39	1.84
4185882--4185930	19	2.6	19	90	0	80	53	10	4	32	1.54
4187485--4187595	18	6.2	18	84	4	143	2	39	0	57	1.13
4187489--4187597	54	2.0	54	89	3	166	3	38	0	57	1.16
4187839--4187903	21	3.2	20	80	12	78	15	30	9	44	1.78
4187987--4188018	15	2.1	15	94	0	55	15	62	3	18	1.45
4190217--4191066	182	4.7	182	89	1	1165	27	16	14	41	1.88
4190217--4191066	361	2.4	361	85	3	1179	27	16	14	41	1.88
4198283--4198879	182	3.3	182	93	0	973	26	16	15	41	1.88
4199094--4199118	6	4.2	6	100	0	50	0	16	0	84	0.63
4206121--4206717	182	3.3	182	93	0	973	26	16	15	41	1.88
4206932--4206956	6	4.2	6	100	0	50	0	16	0	84	0.63
4215962--4216004	22	2.0	23	86	13	65	69	6	11	11	1.35
4216879--4216934	23	2.5	22	86	8	78	64	0	1	33	1.04
4217081--4217138	29	2.0	30	96	3	109	46	3	15	34	1.63
4230788--4230876	29	3.0	29	69	16	76	38	19	10	32	1.85
4231390--4231430	20	2.2	20	91	8	68	19	4	12	63	1.46
4231451--4231478	2	14.0	2	100	0	56	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4233864--4233920	23	2.5	23	80	5	62	45	8	14	31	1.75
4233951--4234010	23	2.6	23	83	0	66	40	6	18	35	1.77
4233851--4234085	87	2.7	87	90	0	362	42	10	14	33	1.79
4234087--4234761	198	3.4	198	88	4	936	31	15	13	38	1.87
4234829--4234943	32	3.7	32	73	17	82	46	1	1	49	1.22
4234889--4234951	28	2.2	29	77	8	67	50	1	1	46	1.20
4235103--4235135	2	16.5	2	100	0	66	48	0	0	51	1.00
4235629--4235722	31	3.0	31	77	9	86	50	1	1	47	1.15
4235629--4235712	31	2.7	32	79	13	88	47	1	1	50	1.16
4235637--4235739	14	7.2	14	69	13	50	46	2	0	49	1.23
4235703--4235745	14	3.1	14	83	6	52	53	4	0	41	1.21
4235756--4235807	24	2.2	24	80	16	65	38	0	5	55	1.24
4236059--4236108	23	2.2	23	88	0	73	32	16	12	40	1.84
4236043--4236360	87	3.7	87	93	0	537	33	14	10	41	1.80
4236136--4236186	23	2.2	23	89	0	75	33	19	9	37	1.85
4236223--4236273	23	2.2	23	92	0	84	33	21	7	37	1.82
4236310--4236394	23	3.7	23	88	0	125	36	20	5	37	1.77
4236897--4236932	17	2.1	17	89	0	54	33	22	13	30	1.93
4238081--4238163	12	6.9	12	72	5	78	49	18	15	16	1.80
4238069--4238177	24	4.5	25	77	11	102	50	17	15	16	1.78
4239946--4240014	36	1.9	36	100	0	138	27	21	8	42	1.82
4243221--4243279	15	4.1	15	77	12	54	42	3	1	52	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4243262--4243307	21	2.4	19	77	19	51	52	0	0	47	1.00
4243371--4243452	16	4.9	16	73	14	67	45	1	1	52	1.16
4243411--4243495	42	2.0	43	86	2	118	44	0	1	54	1.07
4243541--4243589	15	3.8	13	78	17	50	48	4	0	46	1.20
4248361--4248482	43	2.8	43	93	1	199	28	19	17	34	1.94
4252001--4252050	24	2.1	24	100	0	100	8	22	32	38	1.83
4254417--4254475	21	2.8	21	74	23	61	18	16	22	42	1.89
4254980--4255047	19	3.4	19	84	11	84	57	0	35	7	1.27
4259297--4259375	39	2.0	39	95	0	140	35	24	15	25	1.94
4266204--4266256	23	2.3	23	87	6	72	32	26	15	26	1.95
4266697--4266762	2	33.0	2	83	11	82	46	1	3	48	1.26
4268263--4268287	13	1.9	13	100	0	50	60	0	32	8	1.26
4270694--4270779	44	2.0	44	92	0	145	32	26	16	24	1.96
4274197--4274236	20	2.0	20	100	0	80	15	15	0	70	1.18
4274345--4274427	32	2.6	32	90	0	130	22	12	16	48	1.80
4274353--4274473	32	3.6	33	82	9	99	23	15	13	47	1.80
4274431--4274477	18	2.7	18	80	3	60	29	19	8	42	1.80
4274424--4274473	18	2.9	17	73	5	55	26	22	10	42	1.84
4284490--4284535	14	3.3	14	75	0	56	43	26	8	21	1.81
4284483--4284570	33	3.0	28	80	18	106	40	23	10	25	1.86
4284500--4284570	33	2.2	33	97	0	133	43	22	8	25	1.81
4287328--4287485	44	3.6	44	79	6	158	32	15	20	31	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4292441--4292479	19	2.1	19	86	13	55	58	5	5	30	1.41
4292989--4293058	24	2.9	24	73	0	68	44	17	11	27	1.82
4293787--4293870	29	2.9	29	85	1	123	46	22	5	25	1.74
4293883--4293926	12	3.8	12	82	11	65	11	22	47	18	1.80
4293878--4293930	22	2.4	22	96	0	97	9	22	49	18	1.76
4293871--4293908	17	2.2	17	100	0	76	10	23	47	18	1.79
4300238--4300307	24	2.9	24	78	0	77	45	17	11	25	1.81
4300213--4300307	48	2.0	47	81	2	109	45	15	13	25	1.83
4301038--4301121	29	2.9	29	90	1	132	44	23	7	25	1.79
4301134--4301165	17	1.9	16	93	6	55	15	21	43	18	1.87
4305133--4305202	24	2.9	24	78	0	77	45	17	11	25	1.81
4305108--4305202	48	2.0	47	81	2	109	45	15	13	25	1.83
4305914--4305995	29	2.8	29	92	1	128	43	21	8	25	1.81
4306004--4306042	17	2.3	17	90	0	60	17	20	41	20	1.91
4312203--4312272	24	2.9	24	78	0	77	45	17	11	25	1.81
4312178--4312272	48	2.0	47	81	2	109	45	15	13	25	1.83
4313004--4313087	29	2.9	29	90	1	132	44	23	7	25	1.79
4313100--4313131	17	1.9	16	93	6	55	15	21	43	18	1.87
4317088--4317157	24	2.9	24	78	0	77	45	17	11	25	1.81
4317063--4317157	48	2.0	47	81	2	109	45	15	13	25	1.83
4317867--4317948	29	2.8	29	92	1	128	43	21	8	25	1.81
4317957--4317995	17	2.3	17	90	0	60	17	20	41	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4323603--4323641	19	2.1	19	86	13	55	58	5	5	30	1.41
4324147--4324216	24	2.9	24	78	0	77	45	17	11	25	1.81
4324923--4325020	29	3.4	29	85	5	85	42	23	7	26	1.79
4324938--4325020	29	2.9	29	87	3	114	43	22	7	26	1.79
4325033--4325064	17	1.9	16	93	6	55	15	21	43	18	1.87
4328994--4329063	24	2.9	24	78	0	77	45	17	11	25	1.81
4329769--4329849	29	2.8	29	90	3	119	44	22	8	24	1.81
4334169--4334246	38	2.1	38	100	0	156	32	2	17	47	1.62
4334553--4334613	30	2.0	30	93	6	106	50	16	13	19	1.77
4335649--4335806	72	2.2	72	97	0	298	29	19	21	29	1.98
4336265--4336314	20	2.5	19	84	15	66	16	44	0	40	1.47
4344507--4344545	19	2.1	19	90	0	60	25	20	28	25	1.99
4345590--4345635	12	3.7	13	78	18	53	71	2	0	26	0.97
4352295--4352336	23	1.9	22	85	9	59	38	19	9	33	1.84
4366594--4366775	91	2.0	91	86	0	256	24	13	19	41	1.88
4367013--4367105	20	5.0	20	69	24	78	47	11	5	35	1.63
4367119--4367157	20	2.0	20	94	0	69	41	17	5	35	1.72
4367011--4367158	53	2.8	52	93	3	262	47	12	5	33	1.65
4371696--4371735	20	2.0	20	90	9	64	47	10	5	37	1.59
4371749--4371788	20	2.0	21	90	5	64	45	15	5	35	1.68
4371802--4371840	20	2.0	20	94	0	69	41	17	5	35	1.72
4371694--4371841	52	2.8	52	94	3	262	48	12	5	33	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4378910--4378971	24	2.6	24	86	0	88	32	14	16	37	1.89
4380623--4380787	90	1.8	89	93	1	285	39	9	6	45	1.61
4381682--4381726	21	2.1	21	100	0	90	20	13	28	37	1.90
4382900--4382983	23	3.7	22	80	10	89	19	17	22	40	1.91
4388045--4388089	20	2.2	20	84	11	56	31	11	26	31	1.91
4388827--4388910	44	1.9	44	80	9	100	40	7	15	36	1.75
4395364--4395401	20	1.9	20	88	0	58	28	13	26	31	1.93
4399502--4399983	264	1.8	262	89	2	752	21	19	15	43	1.87
4399975--4400004	15	2.1	15	93	6	53	6	33	0	60	1.23
4402407--4402463	21	2.7	21	86	2	78	24	19	19	36	1.94

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   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91