genome.fa.s7748.2.7.7.80.10.50.1000.21.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: VEPZ01007748.1 Hibiscus syriacus cultivar Beakdansim tig00110013_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4568288

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  ( 2778 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)
4032990--4033061	30	2.3	30	95	4	126	37	18	2	41	1.65
4035254--4035337	21	4.1	20	79	8	71	17	26	33	22	1.96
4039127--4039166	21	1.9	21	85	10	55	35	10	2	52	1.48
4041039--4041278	77	3.2	77	91	4	375	20	24	32	22	1.98
4070469--4070493	12	2.1	12	100	0	50	76	0	16	8	1.02
4072176--4072274	47	2.1	48	86	1	137	30	8	8	53	1.59
4076983--4077092	15	7.7	15	65	13	54	46	2	0	50	1.22
4076973--4077099	41	3.0	41	76	13	134	46	2	0	50	1.19
4076977--4077099	43	3.0	42	76	16	132	47	2	0	49	1.20
4079866--4079936	20	3.5	20	86	5	90	21	38	23	16	1.93
4088522--4088607	43	2.0	43	95	0	154	24	1	17	56	1.47
4089375--4089412	14	2.7	14	88	8	51	28	0	0	71	0.87
4094468--4094503	17	2.1	18	94	5	65	27	5	2	63	1.30
4094562--4094846	111	2.6	111	94	1	500	35	8	9	45	1.68
4096390--4096428	18	2.2	18	100	0	78	25	30	23	20	1.98
4100630--4100743	51	2.2	51	84	0	138	21	29	32	15	1.95
4102860--4102903	22	2.0	22	86	8	63	18	0	15	65	1.27
4103934--4103995	16	4.0	16	79	4	65	72	0	4	22	1.03
4103966--4104005	20	2.0	21	85	5	55	67	2	10	20	1.31
4104057--4104081	13	1.9	13	100	0	50	72	4	0	24	1.02
4103936--4104142	15	12.7	16	63	20	63	69	1	5	23	1.17
4104025--4104217	88	2.2	87	80	11	207	66	2	3	27	1.19
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4104032--4104216	48	4.1	46	72	19	131	67	2	3	27	1.20
4104061--4104223	40	4.2	39	73	13	113	65	3	2	29	1.21
4104756--4104865	37	3.0	37	91	2	177	30	14	13	40	1.85
4105471--4105588	36	3.4	35	94	4	204	32	9	17	40	1.82
4105541--4105691	67	2.2	70	83	5	184	36	11	21	31	1.88
4105641--4105967	37	9.1	37	79	10	367	39	14	19	26	1.90
4105641--4105967	73	4.6	73	78	11	372	39	14	19	26	1.90
4105676--4105940	138	1.9	139	86	2	381	38	14	20	26	1.91
4105583--4105967	175	2.2	177	85	5	512	38	14	20	26	1.90
4105871--4105934	22	3.2	21	67	28	59	39	14	20	26	1.90
4106574--4106641	30	2.2	30	84	5	82	33	25	13	27	1.93
4106996--4107084	32	2.8	32	82	0	106	34	25	12	26	1.92
4108121--4108182	21	3.1	19	70	21	54	1	11	6	80	0.96
4109706--4109748	20	2.2	20	86	0	59	34	13	16	34	1.88
4117087--4117127	21	2.0	21	85	0	55	14	19	0	65	1.26
4119662--4119704	20	2.2	20	86	0	59	34	13	16	34	1.88
4121186--4121232	20	2.3	20	78	10	51	25	27	2	44	1.65
4128906--4128986	23	3.7	22	83	6	94	24	32	24	18	1.97
4132450--4132527	25	3.1	24	72	22	63	70	1	5	23	1.14
4132489--4132577	35	2.6	34	80	13	96	67	1	2	29	1.10
4132488--4132578	33	2.7	33	79	14	98	68	1	2	28	1.09
4132424--4132598	93	1.9	94	82	8	225	68	1	4	25	1.15
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4133179--4133249	37	1.9	37	94	0	124	33	12	12	40	1.81
4133377--4133405	6	4.8	6	100	0	58	86	0	0	13	0.58
4133796--4133833	17	2.1	18	85	9	51	63	13	7	15	1.51
4135662--4135720	20	3.0	20	75	9	68	28	27	20	23	1.99
4135662--4135720	18	3.0	20	72	18	61	28	27	20	23	1.99
4137831--4137866	3	11.3	3	88	11	54	63	0	36	0	0.94
4137832--4137866	13	2.7	13	95	0	61	65	0	34	0	0.93
4137831--4137866	10	3.7	10	92	3	56	63	0	36	0	0.94
4140769--4140859	8	11.9	8	89	9	145	39	25	9	25	1.86
4141201--4141261	20	3.0	20	80	0	77	24	26	21	27	1.99
4141469--4141502	13	2.6	13	100	0	68	38	29	0	32	1.58
4142207--4142276	34	2.1	34	86	5	99	22	30	15	31	1.95
4146762--4146797	14	2.6	14	95	0	63	33	0	22	44	1.53
4146907--4146962	19	3.2	19	64	23	50	48	17	19	14	1.81
4146908--4146983	33	2.3	33	88	0	107	48	21	18	11	1.79
4146993--4147086	33	2.8	33	91	0	143	13	20	19	46	1.83
4147080--4147173	33	2.8	34	80	3	118	15	22	21	40	1.91
4147028--4147139	53	2.1	52	83	1	134	15	19	18	46	1.84
4147146--4147219	20	3.7	20	69	16	53	24	16	25	33	1.95
4149689--4149742	24	2.2	24	90	0	81	42	16	16	24	1.88
4150598--4150784	20	9.6	20	76	11	138	18	18	22	40	1.91
4150598--4150784	40	4.8	40	79	9	206	18	18	22	40	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4150667--4150768	34	2.8	36	86	10	127	17	18	21	42	1.90
4150623--4150766	74	1.9	75	87	1	209	18	16	22	43	1.88
4152424--4152494	34	2.2	32	89	5	106	21	30	15	32	1.94
4154952--4155007	18	3.1	18	84	0	85	23	30	17	28	1.97
4159228--4159254	13	2.1	13	100	0	54	37	14	18	29	1.91
4160225--4160270	17	2.8	16	93	6	74	56	0	2	41	1.11
4160225--4160270	16	2.8	17	86	6	67	56	0	2	41	1.11
4160228--4160273	18	2.6	17	83	16	58	60	0	2	36	1.09
4163481--4163554	4	17.0	4	77	12	58	66	2	4	27	1.23
4164132--4164173	17	2.4	17	88	8	57	64	14	4	16	1.45
4167132--4167189	20	2.7	20	81	10	62	32	18	20	27	1.97
4167968--4168016	18	2.7	18	93	3	80	18	20	30	30	1.96
4170189--4170245	24	2.3	24	77	19	64	42	0	19	38	1.51
4170189--4170271	25	3.4	25	77	14	68	40	0	18	40	1.50
4170202--4170285	24	3.4	25	78	10	86	41	0	15	42	1.47
4170206--4170283	25	3.1	26	75	10	74	44	0	14	41	1.44
4172349--4172390	17	2.3	19	88	8	61	69	14	4	11	1.34
4173164--4173217	22	2.5	22	96	0	99	46	25	0	27	1.53
4173228--4173371	72	2.0	72	91	2	236	22	25	19	33	1.97
4176573--4176624	21	2.5	21	81	3	61	38	19	25	17	1.93
4176613--4176747	20	6.7	19	79	9	108	34	24	17	24	1.96
4176610--4176741	61	2.2	61	87	0	183	36	24	15	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4176915--4176958	22	2.0	22	95	0	79	20	45	15	18	1.85
4177222--4177259	20	1.9	20	88	0	58	13	15	21	50	1.78
4177396--4177450	25	2.2	24	78	15	58	20	9	18	52	1.71
4178579--4178623	18	2.5	18	85	0	63	26	42	15	15	1.87
4179073--4179182	19	6.1	19	77	15	72	42	20	21	14	1.88
4179073--4179128	20	2.8	20	81	2	69	39	21	23	16	1.92
4179101--4179182	19	4.6	19	76	17	104	45	20	20	13	1.85
4179194--4179284	14	5.9	14	72	20	74	10	16	24	48	1.78
4179189--4179300	33	3.4	33	96	1	199	11	17	23	47	1.80
4179285--4179340	20	2.8	20	83	2	69	16	23	23	37	1.93
4179706--4179793	41	2.1	41	85	2	122	21	43	14	20	1.88
4181208--4181246	14	2.8	13	81	11	51	35	0	17	46	1.49
4181383--4181428	19	2.4	19	88	0	74	47	15	19	17	1.82
4181469--4181544	20	3.8	20	68	6	64	18	19	19	42	1.90
4181758--4181807	20	2.5	20	80	0	73	22	18	22	38	1.94
4182663--4182716	24	2.2	24	86	0	72	24	16	18	40	1.90
4182891--4182915	12	2.1	12	100	0	50	72	0	28	0	0.86
4185201--4185327	33	3.8	33	87	4	193	43	19	22	14	1.88
4185202--4185334	66	2.0	66	95	0	239	42	19	21	16	1.89
4185497--4185533	14	2.6	14	91	0	65	45	24	0	29	1.53
4187229--4187410	88	2.0	89	91	5	294	47	18	12	21	1.82
4189097--4189229	20	7.1	19	79	11	123	42	21	23	12	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4189225--4189290	18	3.5	19	83	4	80	10	16	25	46	1.79
4189236--4189287	19	2.7	19	88	5	70	11	19	25	44	1.84
4189804--4189857	20	2.7	20	88	0	72	29	18	27	24	1.98
4189826--4189920	41	2.3	41	80	3	102	21	20	23	35	1.96
4189970--4190010	21	2.0	21	85	0	55	34	31	17	17	1.93
4190017--4190062	19	2.3	20	81	7	58	26	17	28	28	1.98
4191438--4191484	20	2.3	20	78	7	51	31	8	0	59	1.27
4196534--4196575	21	2.0	22	86	13	61	42	14	0	42	1.45
4197463--4197502	6	7.0	6	94	5	66	0	17	52	30	1.45
4197460--4197501	22	1.9	22	100	0	84	0	19	52	28	1.46

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