genome.fa.s8539.2.7.7.80.10.50.1000.21.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: VEPZ01008539.1 Hibiscus syriacus cultivar Beakdansim tig00111427_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6067759

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   

This is table  21  of  31  ( 3630 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)
3904159--3904367	75	2.8	75	86	2	267	23	32	23	21	1.98
3906914--3907113	82	2.4	81	79	3	202	31	17	18	33	1.94
3906972--3907172	82	2.5	83	78	4	221	31	18	15	33	1.92
3920687--3920729	18	2.4	18	92	0	68	34	23	23	18	1.96
3926988--3927013	6	4.3	6	100	0	52	46	0	0	53	1.00
3930738--3930775	19	2.0	20	85	15	53	21	15	21	42	1.89
3950414--3950467	26	2.1	26	96	0	99	35	27	14	22	1.93
3957960--3958039	26	3.1	26	80	7	108	36	26	12	25	1.91
3962506--3962589	23	3.7	23	95	1	143	19	26	32	22	1.97
3966385--3966424	21	1.9	21	90	10	64	32	10	5	52	1.56
3968717--3968762	18	2.5	18	85	3	65	52	8	10	28	1.66
3971078--3971118	21	2.0	21	90	0	64	17	26	26	29	1.97
3971250--3971319	36	1.9	37	85	8	99	30	18	27	24	1.98
3971693--3971719	2	13.5	2	100	0	54	48	0	0	51	1.00
3974290--3974344	16	3.4	16	72	20	51	76	5	12	5	1.13
3979004--3979056	2	27.5	2	92	7	92	49	0	0	50	1.00
3983589--3983691	43	2.4	43	81	0	107	35	19	21	23	1.96
3985812--3985851	21	1.9	21	90	10	64	47	5	12	35	1.63
3991470--3991956	223	2.2	220	85	8	641	28	11	17	42	1.84
3992294--3992336	16	2.5	17	88	7	61	27	27	6	37	1.83
3993509--3993546	20	1.9	20	89	10	60	36	23	34	5	1.78
3993509--3993574	31	2.1	31	82	0	78	43	19	27	9	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3997871--3997957	11	7.8	11	83	2	93	32	22	19	25	1.98
3997871--3997935	34	1.9	34	87	0	94	32	23	20	24	1.98
3997877--3997966	22	4.0	22	83	8	110	32	22	21	24	1.98
3998169--3998216	16	3.0	16	87	0	69	10	8	20	60	1.55
3999328--4000196	423	2.0	428	92	2	1444	35	11	10	41	1.77
4001897--4002036	70	2.0	72	90	4	221	56	5	8	29	1.52
4010439--4010485	13	3.6	13	94	0	76	19	17	17	46	1.84
4010630--4010701	35	2.1	35	94	0	126	38	16	11	33	1.84
4013828--4013878	13	4.0	13	79	5	50	27	15	15	41	1.88
4017609--4017745	69	2.0	68	98	1	265	33	27	13	25	1.93
4018005--4018044	21	2.0	20	85	5	53	7	15	5	72	1.24
4020657--4020719	30	2.1	31	85	8	85	55	3	19	22	1.57
4020998--4021074	35	2.2	36	86	6	104	42	22	0	35	1.54
4021529--4021810	148	1.9	143	90	5	440	47	9	6	37	1.61
4021988--4022065	35	2.2	35	86	0	102	33	0	20	46	1.51
4027107--4027249	70	2.0	70	93	0	241	37	20	7	34	1.81
4028118--4028155	20	1.9	20	88	0	58	65	0	23	10	1.23
4033981--4034060	35	2.3	35	89	4	117	42	23	1	32	1.62
4034237--4034515	143	1.9	145	86	5	402	36	6	8	48	1.61
4035020--4035098	35	2.2	36	90	2	124	30	0	25	44	1.54
4037452--4037478	8	3.4	8	100	0	54	0	62	0	37	0.95
4038338--4038714	38	10.1	37	78	12	305	43	8	3	44	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4038451--4038516	30	2.2	30	89	2	98	43	7	3	45	1.47
4038376--4038563	104	1.8	104	85	6	265	42	8	3	45	1.50
4038480--4038714	37	6.2	37	77	10	163	45	8	1	44	1.44
4046894--4046983	39	2.3	40	84	1	119	40	6	4	48	1.49
4046944--4047008	25	2.4	27	80	7	80	43	9	3	44	1.51
4046928--4047118	68	2.9	65	80	9	224	43	8	1	46	1.43
4046973--4047166	41	5.3	35	80	15	162	43	8	2	45	1.46
4046975--4047305	38	8.6	37	78	16	284	44	8	2	44	1.47
4047147--4047177	11	2.8	11	95	0	53	38	6	6	48	1.55
4047107--4047215	48	2.2	49	93	1	193	44	5	2	47	1.40
4048484--4048571	44	2.0	43	82	10	108	25	6	9	59	1.53
4048528--4048607	30	2.7	30	84	5	110	27	8	10	53	1.63
4048527--4048607	29	2.7	30	83	7	103	27	8	9	54	1.62
4048650--4048721	30	2.4	29	80	13	83	27	8	11	52	1.65
4051276--4051309	15	2.3	15	100	0	68	11	20	17	50	1.77
4053729--4053856	60	2.1	60	81	5	143	35	16	16	32	1.91
4055837--4055956	42	2.9	41	85	9	154	49	0	15	35	1.44
4055846--4055956	41	2.7	41	87	6	136	46	0	16	36	1.47
4057105--4057247	60	2.4	60	80	8	157	38	5	23	32	1.78
4058341--4058382	2	21.0	2	100	0	84	50	0	0	50	1.00
4063250--4063298	25	1.9	26	84	12	66	32	4	2	61	1.26
4068025--4068083	26	2.2	26	81	6	64	37	23	16	22	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4069092--4069323	96	2.4	96	86	2	313	19	27	26	26	1.99
4069081--4069318	32	7.4	32	86	1	271	18	27	26	26	1.98
4070508--4070540	2	16.5	2	93	0	57	51	0	0	48	1.00
4070680--4070798	29	4.1	29	96	0	202	28	24	2	44	1.67
4071098--4071548	45	11.2	43	66	24	209	29	24	11	34	1.91
4071143--4071514	34	9.6	34	67	23	168	29	23	11	35	1.90
4071084--4071548	79	5.9	79	91	2	736	28	23	12	35	1.91
4071084--4071548	239	2.0	237	90	2	736	28	23	12	35	1.91
4071984--4072037	22	2.6	20	75	11	63	27	29	12	29	1.94
4074468--4074563	2	48.0	2	100	0	192	50	0	0	50	1.00
4077702--4077757	18	3.4	16	79	13	60	16	12	0	71	1.15
4077687--4077746	29	2.0	30	84	9	79	16	15	0	68	1.22
4077702--4077751	18	2.9	18	85	11	61	18	12	0	70	1.17
4077720--4077775	16	3.4	16	81	13	60	8	16	0	75	1.05
4077748--4077782	16	2.2	16	89	0	52	2	20	0	77	0.90
4081242--4081279	15	2.4	16	86	8	51	73	0	5	21	1.02
4091444--4091507	3	20.3	3	84	9	83	59	0	0	40	0.97
4091441--4091509	16	4.3	16	85	7	104	59	0	0	40	0.97
4091450--4091515	13	5.2	13	90	3	98	56	0	0	43	0.99
4093656--4093702	21	2.3	20	81	3	58	57	8	14	19	1.63
4096436--4096495	25	2.4	25	73	15	61	65	5	0	30	1.14
4097375--4097418	20	2.2	20	84	11	56	38	6	9	45	1.63
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4101839--4101892	23	2.3	23	87	0	72	62	16	7	12	1.51
4101861--4101901	13	3.1	14	82	6	50	65	24	4	4	1.32
4101855--4101900	23	2.0	23	83	8	58	63	23	6	6	1.43
4102152--4102203	24	2.1	26	89	7	81	53	17	13	15	1.72
4104172--4104206	12	2.9	12	86	0	52	8	34	25	31	1.86
4111565--4111639	15	5.2	15	64	15	50	42	1	1	54	1.17
4111585--4111677	43	2.2	42	88	3	134	44	2	0	53	1.12
4111604--4111676	20	3.4	22	76	16	80	45	1	0	53	1.09
4111604--4111693	23	4.1	22	75	13	78	50	2	0	47	1.13
4115028--4115075	16	3.0	16	78	6	53	37	22	8	31	1.84
4144544--4144613	28	2.5	28	81	6	79	47	30	5	17	1.70
4144600--4144686	31	2.7	33	84	8	117	44	26	6	21	1.77
4144852--4144901	26	1.9	26	83	0	64	32	22	10	36	1.87
4145739--4145774	18	2.0	18	94	0	63	41	0	5	52	1.24
4147479--4147523	19	2.5	17	85	7	54	26	0	0	73	0.84
4147479--4147523	9	5.0	9	84	7	56	26	0	0	73	0.84
4149327--4149360	16	2.2	15	89	5	50	35	14	11	38	1.83
4152737--4152772	17	2.3	15	90	9	54	36	2	0	61	1.11
4153141--4153173	15	2.3	15	89	5	50	57	0	0	42	0.98
4153231--4153290	15	4.1	14	78	19	61	68	0	5	26	1.10
4154566--4154650	3	28.0	3	80	9	84	57	0	0	42	0.98
4154567--4154650	22	4.0	21	79	17	95	57	0	0	42	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4154566--4154650	19	4.5	19	84	8	102	57	0	0	42	0.98
4154579--4154650	25	2.9	24	88	10	101	58	0	0	41	0.98
4154804--4155289	76	6.4	76	96	0	875	34	22	19	23	1.97
4156132--4156187	23	2.5	22	82	5	76	37	14	14	33	1.86
4157952--4158285	114	2.9	113	92	1	551	31	20	15	32	1.94
4165368--4165419	15	3.6	15	80	14	56	73	0	3	23	1.00
4165870--4165905	17	2.3	15	90	9	54	36	2	0	61	1.11
4167177--4167251	3	24.0	3	82	10	64	57	0	0	42	0.98
4167190--4167251	16	3.9	16	78	17	67	58	0	0	41	0.98
4167177--4167255	22	3.7	22	74	22	87	56	0	0	43	0.99

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