genome.fa.s1711.2.7.7.80.10.50.1000.13.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: VEPZ01001711.1 Hibiscus syriacus cultivar Beakdansim tig00003454_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4148933

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   

This is table  13  of  13  ( 1546 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)
3913231--3913338	54	2.0	54	100	0	216	31	12	29	25	1.93
3922394--3922437	22	2.0	22	83	16	56	45	4	13	36	1.64
3938971--3939097	46	2.8	46	92	2	211	24	20	12	42	1.87
3944016--3944214	54	3.7	54	88	0	290	36	19	11	33	1.87
3945127--3945204	36	2.2	36	83	4	95	21	17	14	46	1.84
3945415--3946358	56	16.8	56	92	1	1514	34	17	10	37	1.85
3953430--3953465	15	2.6	13	91	8	54	13	19	11	55	1.68
3953471--3953514	21	2.1	21	91	0	70	13	9	9	68	1.40
3957575--3957669	39	2.4	39	84	6	113	35	13	25	25	1.93
3957647--3957822	74	2.4	75	84	3	239	30	13	25	31	1.93
3958702--3958851	54	2.8	54	85	4	205	37	16	22	24	1.93
3959224--3959280	22	2.6	22	88	0	87	31	14	15	38	1.87
3959947--3960658	86	8.3	86	92	0	1156	28	23	19	27	1.98
3960709--3960771	21	3.0	21	68	17	58	34	23	22	19	1.96
3960583--3961011	116	3.7	116	96	0	786	29	21	21	26	1.99
3960941--3961003	21	3.0	21	68	17	58	34	25	22	17	1.95
3961264--3961334	3	24.3	3	88	5	110	35	1	0	63	1.03
3962511--3962612	46	2.2	46	94	3	179	30	23	4	41	1.75
3969144--3969211	26	2.6	26	95	0	118	14	0	48	36	1.44
3971889--3972045	64	2.5	64	81	10	162	27	20	19	32	1.97
3976779--3976935	64	2.5	64	81	10	162	27	20	19	32	1.97
3978305--3978727	86	5.0	86	82	2	428	26	18	19	34	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3978318--3978727	171	2.4	170	80	4	434	26	18	20	34	1.95
3987271--3987353	21	3.7	23	78	12	84	22	34	24	18	1.96
3987269--3987331	22	2.8	22	88	7	83	22	33	25	19	1.97
3991748--3991786	21	1.9	21	94	5	71	69	5	10	15	1.34
3996228--3996293	26	2.5	26	85	2	78	18	0	45	36	1.49
3996265--3996316	19	2.9	18	83	10	72	17	0	51	30	1.45
3996257--3996312	26	2.2	26	80	6	60	17	0	50	32	1.47
3996323--3996354	3	10.3	3	93	6	55	62	0	0	37	0.95
3996848--3996883	18	1.9	18	88	5	54	50	30	0	19	1.48
3996978--3997039	32	2.0	32	90	3	99	29	17	3	50	1.62
3997098--3997186	31	2.8	32	88	5	128	55	12	16	15	1.70
3997677--3997779	52	2.0	52	88	3	154	49	5	8	35	1.58
4003011--4003060	18	2.6	20	75	21	61	30	28	16	26	1.96
4008144--4008193	20	2.5	20	83	6	66	30	16	20	34	1.94
4013025--4013103	23	3.6	23	77	8	101	25	26	22	25	2.00
4013023--4013125	44	2.4	41	81	10	134	28	26	22	23	1.99
4015568--4015608	18	2.3	18	95	0	73	31	12	12	43	1.79
4015768--4015805	20	1.9	20	94	0	67	31	34	15	18	1.92
4015767--4015976	65	3.2	65	76	14	186	30	22	19	27	1.98
4015833--4015976	64	2.2	64	85	6	184	29	22	20	28	1.98
4017347--4017389	17	2.6	17	82	14	54	34	0	16	48	1.46
4018040--4018088	21	2.3	21	96	0	89	28	24	18	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4019788--4019835	18	2.7	18	100	0	96	29	29	16	25	1.97
4024546--4024592	10	4.3	10	80	19	58	8	10	23	57	1.60
4024556--4024586	14	2.2	14	94	0	53	6	12	25	54	1.62
4024521--4024586	24	2.8	24	81	4	62	10	16	22	50	1.76
4024522--4024602	34	2.4	34	76	12	85	12	13	19	54	1.70
4024545--4024592	24	2.0	24	95	0	87	8	12	22	56	1.63
4024545--4024606	24	2.6	24	86	0	79	9	11	19	59	1.58
4025684--4025721	16	2.4	16	90	0	67	15	13	15	55	1.70
4025799--4025831	16	2.1	16	94	0	57	6	9	24	60	1.49
4026430--4026463	17	1.9	17	88	5	50	38	0	20	41	1.53
4028801--4028935	41	3.3	41	89	7	188	31	22	17	28	1.97
4028999--4029093	40	2.3	40	83	1	109	21	20	21	37	1.94
4029017--4029094	40	2.0	40	89	0	120	23	21	17	37	1.94
4029058--4029220	42	3.9	42	79	0	164	23	15	19	41	1.90
4031321--4031353	16	2.1	16	88	5	50	48	0	3	48	1.17
4034978--4035076	45	2.2	46	81	3	110	32	19	11	37	1.87
4035607--4035655	24	2.1	23	81	11	55	65	2	2	30	1.15
4036158--4036235	2	39.0	2	100	0	156	50	0	0	50	1.00
4037903--4037943	21	1.9	22	90	5	66	58	24	2	14	1.49
4039270--4039353	21	3.9	21	80	7	78	19	26	30	23	1.98
4039292--4039336	23	2.0	23	100	0	90	20	26	31	22	1.98
4046618--4047458	134	6.3	133	82	3	762	31	15	20	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4046618--4047458	268	3.1	268	80	4	878	31	15	20	32	1.94
4046618--4047463	402	2.1	400	82	5	1008	31	15	20	32	1.94
4048446--4048546	42	2.4	41	83	6	132	31	22	23	21	1.98
4047710--4048696	233	4.2	233	87	2	1358	34	18	16	30	1.94
4050354--4050449	44	2.2	44	77	7	106	33	16	11	38	1.85
4051515--4051758	7	35.3	7	81	14	190	1	19	0	79	0.80
4051510--4051758	62	4.3	58	75	20	200	1	19	0	79	0.80
4051577--4051758	8	24.0	8	80	11	190	1	15	0	82	0.75
4051577--4051704	1	128.0	1	70	0	85	0	14	0	85	0.65
4058469--4058521	3	18.0	3	92	3	90	66	0	1	32	1.03
4059758--4059833	30	2.5	30	97	0	143	22	19	25	32	1.97
4060028--4060066	17	2.4	17	91	4	62	46	0	5	48	1.24
4065094--4065155	23	2.7	23	87	2	81	22	25	27	24	2.00
4071586--4071794	101	2.1	101	98	0	400	45	21	6	26	1.76
4082827--4082866	21	1.9	21	85	10	55	27	35	25	12	1.92
4091177--4091217	20	2.0	20	85	0	55	68	2	0	29	1.03
4091103--4091314	114	1.9	111	80	4	246	47	8	7	36	1.64
4091359--4091399	21	2.0	21	85	9	57	51	2	0	46	1.14
4091405--4091434	3	10.0	3	92	0	51	63	0	3	33	1.11
4092790--4092868	3	25.7	3	85	10	106	64	0	0	35	0.94
4093069--4093883	124	6.8	124	80	9	826	27	18	13	40	1.88
4094611--4094830	114	1.9	114	91	0	359	30	20	15	33	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4095516--4095573	12	5.3	11	75	21	59	3	18	0	77	0.91
4095509--4095573	21	3.0	21	78	14	71	3	18	0	78	0.88
4095514--4095581	30	2.2	32	84	10	88	4	20	0	75	0.98
4102911--4102942	15	2.1	15	94	0	55	46	9	18	25	1.79
4106704--4106794	48	1.9	49	82	8	118	48	3	3	45	1.35
4106883--4106932	20	2.5	20	83	0	64	70	0	0	30	0.88
4107115--4107144	3	10.0	3	92	0	51	63	0	3	33	1.11
4108492--4108573	3	27.7	3	80	11	98	64	0	1	34	1.01
4108504--4108579	16	4.9	15	82	12	91	67	0	2	30	1.05
4110791--4110820	2	15.0	2	100	0	60	50	0	0	50	1.00
4110804--4111277	235	2.0	235	94	0	833	35	8	15	40	1.78
4112399--4112442	17	2.6	17	92	0	79	29	0	38	31	1.58
4113628--4113913	54	5.3	54	84	4	353	30	18	16	33	1.94
4113628--4113894	108	2.5	108	88	2	401	31	18	16	34	1.93
4113967--4113998	15	2.1	15	100	0	64	50	18	6	25	1.70
4121386--4121627	54	4.5	54	86	3	326	26	17	21	33	1.96
4121951--4122001	22	2.4	21	84	12	61	27	17	19	35	1.94
4128501--4128538	19	2.2	19	86	13	55	42	0	21	36	1.53

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13

The End!