genome.fa.s8527.2.7.7.80.10.50.1000.16.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: VEPZ01008527.1 Hibiscus syriacus cultivar Beakdansim tig00111402_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  9057482

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   

This is table  16  of  37  ( 4336 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)
3920627--3920666	17	2.5	15	88	8	53	47	0	2	50	1.14
3921202--3921245	22	2.0	23	86	4	63	56	4	4	34	1.40
3921853--3921893	16	2.6	16	84	7	57	39	12	4	43	1.63
3921922--3922031	11	9.2	11	72	18	69	45	5	0	49	1.25
3921926--3922069	24	6.0	24	73	16	129	48	4	0	45	1.28
3921973--3922001	14	2.0	15	93	6	51	44	0	0	55	0.99
3922070--3922103	13	2.6	13	85	0	50	35	5	14	44	1.70
3925703--3925765	11	5.9	11	73	14	60	58	1	1	38	1.17
3925824--3925883	7	8.6	7	78	14	52	50	26	1	21	1.59
3925812--3925841	14	2.1	14	93	0	51	46	26	3	23	1.68
3925817--3925884	21	3.2	21	85	6	93	48	26	1	23	1.59
3925817--3925884	14	4.8	13	80	7	55	48	26	1	23	1.59
3925936--3925995	7	8.6	7	86	0	66	50	30	0	20	1.49
3934249--3934325	38	2.0	38	100	0	154	46	10	7	35	1.67
3935441--3935488	22	2.2	22	92	0	78	47	8	6	37	1.59
3935549--3935611	30	2.0	32	82	11	78	57	0	3	39	1.15
3939370--3939406	17	2.2	17	86	13	51	37	8	0	54	1.30
3943220--3943499	83	3.3	83	78	10	291	25	18	4	51	1.65
3943213--3943494	43	6.7	42	78	9	238	24	18	4	52	1.64
3944007--3944133	20	6.3	21	71	12	70	35	25	11	27	1.91
3944489--3944709	41	5.4	41	70	10	146	32	18	18	31	1.94
3944488--3944783	81	3.6	82	81	5	269	31	18	17	32	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3944563--3944775	84	2.6	83	82	4	234	30	17	15	35	1.92
3945211--3945281	35	2.0	36	88	2	108	16	30	29	22	1.96
3945845--3945969	31	4.0	31	93	2	198	19	19	24	37	1.94
3947000--3947037	20	1.9	20	94	0	67	47	18	18	15	1.83
3947054--3947092	20	2.0	20	100	0	78	15	12	20	51	1.76
3947056--3947099	20	2.2	20	91	0	70	15	13	20	50	1.78
3947593--3947630	20	2.0	20	84	5	51	50	10	10	28	1.70
3947710--3947772	20	3.0	20	77	6	63	30	11	28	30	1.91
3947790--3947844	27	2.0	27	96	0	101	41	9	10	38	1.72
3968505--3968658	31	5.0	31	93	1	256	37	20	20	22	1.95
3969431--3969475	21	2.1	21	87	0	63	15	24	28	31	1.96
3972412--3972562	30	5.0	31	89	5	229	36	21	19	22	1.95
3973326--3973369	21	2.2	20	87	4	61	15	25	27	31	1.96
3974581--3974669	36	2.6	34	83	3	106	19	14	15	50	1.78
3974621--3974651	10	3.1	10	90	0	53	22	9	9	58	1.59
3975302--3975359	22	2.4	25	83	11	77	48	15	0	36	1.45
3976205--3976246	6	7.0	6	94	0	57	47	30	21	0	1.51
3978531--3978565	18	1.9	18	88	0	52	28	17	0	54	1.43
3979825--3979860	7	5.0	7	96	3	63	27	27	30	13	1.94
3979853--3979912	30	2.0	30	84	12	79	16	20	43	20	1.88
3979846--3979898	18	2.9	17	86	11	61	15	22	43	18	1.87
3979880--3979925	13	3.7	12	85	5	56	19	17	43	19	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3983530--3983564	18	1.9	18	88	0	52	28	17	0	54	1.43
3984855--3984891	7	5.0	7	90	9	56	27	27	32	13	1.94
3984846--3984910	8	8.5	8	77	19	68	21	26	36	15	1.93
3984846--3984891	15	2.9	15	93	6	74	26	28	32	13	1.93
3984884--3984959	13	5.5	13	75	14	62	17	19	44	18	1.87
3984878--3984930	18	2.8	18	88	8	70	15	20	45	18	1.85
3984884--3984945	31	2.0	31	87	6	90	16	19	45	19	1.86
3989181--3989239	28	2.1	27	81	12	66	47	11	16	23	1.80
3989322--3989367	12	3.6	12	81	16	56	45	17	19	17	1.85
3989328--3989368	12	3.1	13	80	19	57	46	14	17	21	1.84
3991673--3991714	21	2.0	21	90	0	66	30	11	7	50	1.66
3991703--3991811	33	3.4	32	88	6	159	32	8	13	45	1.73
3992143--3992194	24	2.1	25	85	3	70	36	0	1	61	1.07
3998336--3998402	23	3.1	21	77	12	64	58	8	11	20	1.60
4001450--4001478	2	14.5	2	100	0	58	48	0	0	51	1.00
4005187--4005258	36	2.0	36	86	0	99	47	12	13	26	1.79
4005877--4005911	16	2.1	16	89	5	52	62	0	2	34	1.10
4008195--4008287	42	2.2	42	94	3	161	21	22	21	34	1.97
4008195--4008311	42	2.8	42	88	6	148	18	23	21	35	1.95
4014432--4014606	29	6.1	28	74	12	97	33	3	15	48	1.62
4015454--4015581	42	3.0	42	88	0	175	21	23	21	32	1.98
4016071--4016142	32	2.2	32	92	0	117	43	12	6	37	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4016344--4016428	32	2.7	32	96	0	152	36	15	17	30	1.91
4023493--4023534	21	2.0	20	86	4	57	52	4	2	40	1.35
4023493--4023539	20	2.3	21	85	3	60	51	4	4	40	1.41
4023493--4023539	21	2.3	21	82	10	53	51	4	4	40	1.41
4025100--4025205	52	2.0	52	98	0	203	46	16	8	28	1.77
4026200--4026260	31	2.0	31	90	6	97	42	9	13	34	1.77
4026976--4027027	22	2.4	22	96	0	95	21	21	23	34	1.97
4028492--4028522	16	2.0	16	93	6	55	32	0	0	67	0.91
4028706--4028735	14	2.1	15	93	6	53	43	0	0	56	0.99
4038080--4038131	25	2.1	25	96	0	95	50	7	15	26	1.71
4039374--4039412	15	2.6	15	95	0	69	35	15	23	25	1.94
4040428--4040455	11	2.5	11	100	0	56	21	14	0	64	1.29
4048901--4048933	16	2.1	16	94	5	59	0	27	12	60	1.32
4051013--4051128	57	2.0	57	94	0	205	21	15	28	34	1.94
4060249--4060274	2	13.0	2	100	0	52	50	0	0	50	1.00
4062237--4062280	23	1.9	23	90	0	70	36	6	2	54	1.40
4062311--4062396	29	3.0	29	80	13	115	52	0	8	39	1.31
4062333--4062382	23	2.1	24	82	10	59	50	0	10	40	1.36
4062310--4062586	30	9.1	30	71	20	123	53	0	5	40	1.28
4063448--4063525	38	2.1	38	90	4	122	14	8	34	42	1.77
4063234--4063680	242	1.9	238	88	5	684	23	10	27	38	1.88
4064318--4064355	17	2.3	17	86	4	51	28	28	2	39	1.70
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4067514--4067881	122	3.0	122	95	0	648	37	14	14	33	1.86
4067977--4068021	7	5.6	8	87	12	58	24	0	2	73	0.95
4083153--4083222	30	2.4	29	83	4	95	44	7	11	37	1.68
4084594--4084625	12	2.7	12	100	0	64	15	0	50	34	1.45
4093433--4093489	26	2.4	21	81	18	60	33	3	1	61	1.23
4098476--4098518	20	2.3	19	92	8	70	37	9	27	25	1.87
4104864--4104997	44	3.1	44	82	5	184	41	13	8	36	1.76
4111336--4111541	112	1.8	113	90	3	335	32	12	11	43	1.79
4111510--4111561	20	2.6	20	100	0	104	26	9	21	42	1.83
4111398--4111673	132	2.1	132	95	0	498	30	12	13	43	1.81
4111531--4111821	113	2.6	113	91	0	467	31	12	13	43	1.80
4112064--4112113	23	2.2	23	88	0	73	32	16	12	40	1.84
4112052--4112251	87	2.3	87	90	1	312	32	12	11	44	1.76
4112642--4113144	113	4.5	113	92	0	778	32	11	12	43	1.78
4113401--4113605	87	2.4	88	90	3	317	34	12	10	42	1.77
4113552--4113596	23	2.0	23	90	0	72	44	17	4	33	1.69
4119952--4120034	21	3.9	21	78	7	78	25	36	24	14	1.93
4126858--4126892	17	1.9	17	88	11	52	68	0	31	0	0.90
4130612--4130700	45	1.9	47	90	4	146	29	11	22	37	1.89
4140246--4140399	12	13.5	11	67	18	66	75	1	16	5	1.06
4140267--4140359	14	6.3	15	78	20	83	77	1	16	5	1.01
4140266--4140401	51	2.9	46	78	16	122	76	1	15	6	1.06
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4140256--4140396	43	3.0	44	80	15	133	76	1	16	5	1.04
4140264--4140394	27	5.0	25	75	16	90	77	1	14	6	1.02
4140274--4140391	12	8.8	13	73	25	72	77	0	15	6	1.02
4140281--4140405	60	2.1	58	80	10	137	77	0	15	6	1.01
4141675--4141746	37	2.0	36	94	2	126	36	20	22	20	1.96
4141761--4142064	111	2.8	109	85	6	391	26	16	24	31	1.96
4141763--4142064	166	1.8	165	84	9	418	27	16	24	31	1.96
4141761--4142064	55	5.5	55	84	7	386	26	16	24	31	1.96
4141761--4142098	110	3.1	109	82	6	317	27	15	23	32	1.95
4145169--4145200	2	16.0	2	100	0	64	50	0	0	50	1.00

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