genome.fa.s9582.2.7.7.80.10.50.1000.21.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: VEPZ01009582.1 Hibiscus syriacus cultivar Beakdansim tig00116959_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4978262

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   

This is table  21  of  24  ( 2799 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)
4147917--4147964	15	3.2	15	81	0	60	37	0	0	62	0.95
4148061--4148112	27	1.9	27	84	7	70	53	5	0	40	1.25
4147832--4148144	170	1.8	170	80	8	377	39	5	6	48	1.52
4150987--4151117	31	4.1	31	75	8	102	26	22	27	22	1.99
4153150--4153176	13	2.1	13	100	0	54	22	25	14	37	1.93
4153194--4153225	14	2.3	14	94	0	55	40	28	12	18	1.87
4157889--4158571	209	3.3	209	89	4	1008	51	8	11	28	1.68
4158659--4158834	53	3.5	52	76	17	165	48	4	2	44	1.38
4158652--4158834	2	91.5	2	72	18	132	48	4	2	44	1.37
4158865--4158908	18	2.4	18	88	7	63	47	6	0	45	1.29
4158869--4158953	32	2.7	32	77	3	91	48	3	1	47	1.26
4158941--4158996	22	2.7	19	86	8	67	42	1	5	50	1.35
4158941--4158990	22	2.2	24	85	7	68	44	2	4	50	1.32
4159060--4159096	6	6.2	6	100	0	74	32	0	0	67	0.91
4159083--4159156	24	2.7	29	74	22	86	40	8	0	51	1.32
4159187--4159306	20	6.2	20	67	25	64	41	8	8	41	1.65
4159146--4159371	60	3.6	61	71	17	194	41	7	7	43	1.60
4159193--4159359	33	5.1	33	67	20	109	40	8	7	43	1.64
4159226--4159288	18	3.4	17	79	12	63	39	7	7	44	1.63
4159336--4159454	9	12.7	9	70	18	73	42	7	4	45	1.52
4159358--4159454	28	3.5	28	77	9	108	44	8	3	44	1.49
4159383--4159666	18	15.3	18	69	21	60	47	7	4	40	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4159496--4159548	20	2.7	21	82	11	67	45	5	5	43	1.51
4159537--4159660	9	14.0	9	67	22	50	48	5	5	40	1.50
4159542--4159676	18	7.7	18	81	8	152	48	5	5	40	1.50
4159516--4159706	87	2.2	85	85	4	249	47	6	4	41	1.49
4159651--4159721	31	2.2	32	87	9	101	40	8	5	45	1.58
4159550--4159741	87	2.2	86	82	7	228	46	6	5	41	1.54
4159761--4159813	21	2.5	21	87	0	79	39	7	5	47	1.56
4159903--4159941	14	2.8	14	88	0	51	46	5	2	46	1.38
4159896--4160050	50	3.3	48	75	18	150	47	1	1	48	1.24
4159831--4160047	15	14.4	14	70	23	99	45	2	3	48	1.33
4159937--4160048	31	3.7	30	77	17	101	47	0	1	50	1.18
4160005--4160073	26	2.8	25	76	13	70	44	0	1	53	1.09
4162459--4162512	23	2.3	23	90	0	81	24	14	25	35	1.94
4163145--4163196	18	2.8	18	73	23	54	57	3	0	38	1.17
4163188--4163284	51	1.9	51	93	0	167	49	7	3	40	1.46
4163977--4164134	21	7.8	20	72	7	86	38	25	17	18	1.92
4164101--4164370	20	13.5	20	81	6	269	37	25	17	20	1.94
4165044--4165088	22	2.0	23	86	8	65	24	13	22	40	1.90
4168268--4168324	14	3.7	14	77	20	60	45	22	21	10	1.82
4168249--4168341	33	2.8	33	95	0	168	47	21	20	10	1.80
4168212--4168346	19	7.6	19	76	16	128	45	23	19	11	1.82
4168342--4168437	19	5.3	19	79	13	112	9	15	29	45	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4168485--4168951	93	5.1	93	98	0	904	45	19	12	22	1.84
4168485--4168951	185	2.5	186	98	1	904	45	19	12	22	1.84
4170654--4170743	14	5.7	14	72	23	72	44	22	24	8	1.81
4170646--4170760	33	3.5	33	98	0	221	46	20	23	10	1.81
4170668--4170765	19	5.7	19	71	22	99	44	21	23	10	1.82
4170777--4170833	14	3.7	14	75	20	60	8	24	22	43	1.81
4170761--4170841	33	2.5	33	95	0	144	8	22	22	46	1.78
4170818--4170893	21	3.7	21	83	3	109	11	25	17	46	1.82
4170817--4170894	41	1.9	41	97	0	147	12	25	16	44	1.83
4170972--4171042	33	2.2	33	92	0	115	47	18	22	11	1.80
4171228--4171280	21	2.3	25	68	25	60	18	20	37	22	1.94
4171424--4171577	20	7.7	20	81	7	168	18	18	26	37	1.93
4171423--4171577	40	3.8	40	82	4	186	18	18	26	37	1.93
4171564--4171646	21	4.0	21	73	6	78	25	16	24	33	1.96
4171544--4171642	42	2.4	43	77	11	100	21	18	23	37	1.94
4175690--4175776	35	2.5	34	80	12	97	55	10	8	26	1.61
4176384--4176441	18	3.2	18	95	0	107	22	22	29	25	1.99
4177947--4178168	111	2.0	111	93	0	381	45	10	8	36	1.68
4178454--4178579	50	2.5	49	84	5	171	19	28	37	15	1.91
4189047--4189092	20	2.2	21	84	3	58	28	8	30	32	1.87
4198958--4199017	27	2.2	27	82	5	68	23	13	20	43	1.86
4203475--4203550	32	2.4	32	78	8	82	26	13	18	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4209658--4209747	27	3.3	27	82	3	99	26	8	11	53	1.65
4213410--4213467	21	2.8	21	83	0	62	24	13	22	39	1.90
4222547--4222606	31	1.9	31	89	0	93	38	6	10	45	1.64
4223181--4223231	12	4.3	12	81	18	63	68	0	0	31	0.90
4228141--4228172	16	2.0	16	100	0	64	37	0	18	43	1.51
4232972--4233031	31	1.9	31	86	6	86	38	5	10	46	1.59
4233483--4233558	34	2.2	34	81	4	82	57	1	2	38	1.21
4233535--4233595	24	2.3	26	78	16	63	55	1	0	42	1.09
4233489--4233693	64	3.1	65	81	8	218	56	0	1	40	1.17
4233650--4233698	22	2.3	21	83	13	57	69	0	0	30	0.89
4233652--4233700	17	2.9	16	81	6	62	69	0	0	30	0.89
4235753--4235777	4	6.2	4	100	0	50	24	0	0	76	0.80
4236464--4236492	4	7.2	4	100	0	58	24	0	0	75	0.80
4245325--4245539	51	4.2	51	88	2	324	23	13	14	47	1.80
4252893--4252963	33	2.1	33	84	2	88	42	2	2	52	1.31
4253048--4253127	42	1.9	42	94	0	142	51	1	1	46	1.17
4258993--4259097	45	2.3	45	83	6	124	31	20	17	31	1.95
4261103--4261142	21	1.9	21	84	0	53	52	7	7	32	1.58
4266205--4266248	21	2.1	21	82	0	52	9	43	15	31	1.79
4267305--4267409	45	2.3	46	83	8	135	31	20	17	30	1.96
4272583--4272825	116	2.1	111	82	9	278	39	11	7	41	1.69
4272449--4272825	58	6.5	58	71	11	222	41	10	8	40	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4273821--4273854	13	2.6	13	85	0	50	44	17	23	14	1.86
4273853--4273896	13	3.4	13	80	0	52	18	18	43	20	1.89
4275036--4275141	44	2.4	45	80	3	124	42	14	6	36	1.71
4279158--4279232	32	2.3	32	88	0	105	36	20	10	33	1.87
4283601--4283652	24	2.1	25	82	10	63	67	0	21	11	1.22
4295225--4295293	29	2.4	28	86	11	88	24	27	27	20	1.99
4295229--4295293	14	4.5	15	75	14	73	24	27	26	21	1.99
4295292--4295346	14	4.0	14	76	4	58	12	21	20	45	1.84
4312961--4313005	3	15.0	3	90	0	72	33	0	2	64	1.06
4314376--4314700	179	1.8	179	79	11	387	43	9	10	37	1.71
4314975--4315049	39	1.9	39	83	5	98	46	0	2	50	1.15
4314999--4315028	16	1.9	15	93	6	51	56	0	3	40	1.16
4315252--4315329	20	3.8	22	74	19	62	58	3	0	37	1.16
4320909--4320951	18	2.4	18	100	0	86	9	20	16	53	1.70
4327620--4327661	21	2.0	21	90	0	66	26	28	23	21	1.99
4327766--4327813	19	2.5	19	86	0	60	35	14	10	39	1.80
4327878--4327968	31	3.0	31	96	3	168	42	17	6	32	1.75
4328178--4328221	20	2.2	20	83	0	52	34	13	22	29	1.93
4330995--4331081	29	3.0	29	96	0	156	32	22	16	28	1.96
4332419--4332646	19	11.9	18	69	20	69	23	4	1	70	1.14
4332417--4332498	27	3.0	27	75	10	67	23	2	3	70	1.15
4332425--4332616	83	2.3	83	81	12	195	22	4	2	70	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4332509--4332637	3	42.7	3	76	11	88	24	4	0	70	1.11
4332507--4332642	42	3.2	42	79	12	138	22	5	0	71	1.11
4332425--4332619	79	2.4	83	79	14	201	23	4	2	70	1.15
4339143--4339189	18	2.6	18	86	0	67	27	17	17	38	1.91
4347553--4347587	19	1.9	18	88	11	54	31	0	2	65	1.07
4354208--4354252	18	2.5	19	82	7	58	33	17	2	46	1.61
4354469--4354536	23	3.0	23	86	0	91	32	23	20	23	1.98
4354502--4354620	21	5.6	21	79	6	114	37	23	16	21	1.93
4354518--4354620	42	2.5	42	86	0	143	35	24	16	23	1.95
4354495--4354615	63	1.9	65	84	3	165	35	23	17	23	1.95

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