genome.fa.s8245.2.7.7.80.10.50.1000.19.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: VEPZ01008245.1 Hibiscus syriacus cultivar Beakdansim tig00110895_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6601124

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   

This is table  19  of  33  ( 3922 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)
3798724--3799343	309	2.0	309	96	0	1132	35	20	14	30	1.92
3805101--3805218	44	2.7	43	81	13	134	30	24	19	25	1.98
3805193--3805297	12	7.9	14	69	24	50	36	23	19	20	1.95
3805186--3805297	20	5.6	20	97	0	206	34	24	19	21	1.96
3812927--3812966	13	3.0	14	89	10	66	57	0	0	42	0.98
3812928--3812966	12	3.1	12	92	7	60	58	0	0	41	0.98
3812928--3812968	14	3.1	14	82	13	59	60	0	0	39	0.96
3814196--3814243	24	2.0	24	84	15	64	31	4	0	64	1.12
3816282--3816324	21	2.0	21	91	8	70	9	9	32	48	1.67
3822235--3822280	21	2.1	22	84	4	58	19	30	19	30	1.97
3835876--3835914	17	2.3	17	100	0	78	53	5	20	20	1.64
3836458--3836586	65	2.0	64	95	1	231	40	6	17	36	1.74
3843527--3843562	2	18.0	2	100	0	72	50	0	50	0	1.00
3875042--3875077	13	2.8	13	86	0	54	27	16	19	36	1.93
3875055--3875220	85	2.0	85	85	7	230	30	19	18	31	1.96
3876992--3877051	27	2.2	27	100	0	120	23	15	23	38	1.92
3879089--3879117	15	1.9	15	100	0	58	65	0	34	0	0.93
3884256--3884289	17	2.1	16	88	5	50	14	8	0	76	1.01
3890651--3890699	20	2.5	20	80	3	55	16	18	0	65	1.28
3894523--3894556	17	2.1	16	88	5	50	14	8	0	76	1.01
3901493--3901528	14	2.6	14	91	8	56	30	33	16	19	1.94
3903112--3903247	67	2.0	67	94	0	236	36	16	12	34	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3904099--3904154	24	2.3	24	78	3	58	55	1	1	41	1.21
3906351--3906381	14	2.2	14	94	0	53	35	3	12	48	1.58
3907730--3907772	17	2.5	17	100	0	86	39	0	25	34	1.56
3913803--3913845	2	21.5	2	100	0	86	51	0	0	48	1.00
3922675--3922722	19	2.5	20	86	3	62	47	6	14	31	1.69
3923869--3923979	26	4.3	26	98	0	213	36	8	8	46	1.63
3930759--3930832	2	37.0	2	97	0	139	50	1	0	48	1.09
3930872--3930979	23	4.5	23	76	7	117	40	10	4	44	1.59
3930896--3930922	14	1.9	14	100	0	54	44	11	7	37	1.68
3930944--3931159	37	5.7	35	72	18	148	39	9	5	45	1.61
3932113--3932228	43	2.7	43	88	5	137	31	22	25	20	1.98
3932114--3932350	85	2.8	85	73	11	223	33	20	22	23	1.97
3932113--3932350	42	5.6	43	79	9	245	33	20	22	23	1.97
3935365--3935702	41	8.2	41	80	6	333	34	19	18	27	1.95
3935365--3935702	125	2.7	122	78	10	312	34	19	18	27	1.95
3935359--3935677	166	1.9	167	82	8	400	33	18	19	28	1.95
3935469--3935702	84	2.8	82	82	5	222	35	19	18	27	1.95
3939109--3939179	3	23.7	3	97	0	133	33	1	0	64	1.02
3940506--3940533	13	2.2	13	100	0	56	39	0	7	53	1.28
3940615--3940652	19	2.0	20	84	5	51	39	2	0	57	1.12
3941354--3941397	18	2.4	18	77	7	54	25	0	2	72	0.96
3944667--3944698	15	2.1	15	94	0	55	31	21	6	40	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3953205--3953821	83	7.5	83	93	1	1055	27	11	23	37	1.90
3954574--3955195	112	5.6	113	94	3	1059	36	12	21	29	1.89
3954577--3955195	221	2.8	224	93	3	1049	36	11	21	30	1.89
3955441--3955513	3	24.7	3	81	13	89	35	1	0	63	1.04
3955444--3955513	14	4.7	15	82	8	90	35	1	0	62	1.04
3961876--3961921	22	2.1	22	100	0	92	54	4	4	36	1.40
3962663--3962694	7	4.6	7	100	0	64	75	12	0	12	1.06
3962662--3962727	29	2.3	29	79	7	73	72	7	1	18	1.15
3962661--3962725	7	9.1	7	84	3	58	73	6	1	18	1.11
3963409--3963542	64	2.1	64	98	0	259	24	14	23	37	1.93
3963619--3963727	31	3.5	31	75	7	112	33	19	17	30	1.95
3963601--3963724	62	2.0	62	84	4	160	30	20	18	30	1.96
3965799--3965935	64	2.1	64	80	5	152	24	22	19	32	1.97
3967939--3967973	15	2.3	15	95	0	61	57	0	0	42	0.99
3968929--3968965	14	2.5	15	91	4	58	27	24	21	27	1.99
3970432--3970479	25	1.9	25	86	0	69	37	14	20	27	1.92
3970968--3971166	96	2.1	96	85	6	271	28	10	18	43	1.82
3973399--3973458	2	31.5	2	86	9	90	50	0	1	48	1.11
3973614--3973732	60	2.0	60	98	0	229	31	15	10	42	1.81
3973964--3974029	31	2.2	30	84	10	82	37	6	21	34	1.78
3974515--3974581	31	2.2	30	79	10	75	37	7	20	34	1.81
3973964--3975071	555	2.0	552	98	0	2162	40	9	10	39	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3977467--3977522	18	3.1	18	84	0	76	42	23	14	19	1.88
3985170--3985217	21	2.3	22	82	13	66	47	0	0	52	1.00
3986287--3986459	94	1.8	95	80	10	212	36	8	8	46	1.64
3986598--3986628	2	15.5	2	100	0	62	48	0	0	51	1.00
3995882--3995947	22	3.0	22	88	0	87	36	18	12	33	1.88
3996615--3997134	45	11.6	45	91	0	817	24	22	19	34	1.96
3997715--3997763	25	1.9	26	83	4	64	42	0	22	34	1.54
3998833--3998862	13	2.3	13	100	0	60	40	0	0	60	0.97
4002652--4003162	240	2.1	240	93	0	869	31	23	19	25	1.98
4003057--4003402	124	2.8	124	88	1	509	32	25	16	25	1.96
4003787--4003853	3	22.3	3	85	11	77	32	1	0	65	1.02
4005336--4005406	10	7.4	9	72	17	54	22	2	1	73	1.05
4005330--4005406	22	3.5	22	75	13	61	23	2	1	72	1.04
4012337--4012380	2	22.5	2	86	4	63	45	0	4	50	1.22
4012448--4012526	36	2.2	36	76	0	86	18	36	10	34	1.85
4015452--4015502	20	2.5	20	100	0	102	27	5	3	62	1.36
4017818--4018127	54	5.8	54	87	3	405	31	20	16	31	1.95
4021768--4021809	16	2.6	16	84	0	57	28	7	23	40	1.81
4024930--4024968	20	2.0	20	100	0	78	51	2	25	20	1.60
4026076--4026117	16	2.6	16	84	0	57	28	7	23	40	1.81
4025765--4026274	246	2.0	247	90	6	810	38	10	18	32	1.85
4033493--4033577	23	3.8	22	78	7	73	27	30	22	20	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4033506--4033577	23	3.3	22	82	5	83	25	33	20	20	1.97
4033506--4033578	21	3.3	21	77	9	74	24	32	21	20	1.97
4040662--4040732	22	3.5	21	75	16	60	33	14	22	29	1.93
4041115--4041370	54	4.7	54	86	4	304	30	18	19	32	1.95
4042407--4042566	29	5.6	28	80	2	158	39	6	20	33	1.79
4042414--4042566	57	2.7	57	77	7	143	39	7	19	33	1.79
4049031--4049189	28	5.6	28	76	5	122	38	6	20	33	1.80
4049033--4049191	57	2.8	57	80	1	176	38	6	20	34	1.79
4049033--4049146	56	2.0	57	84	1	149	38	6	21	34	1.78
4058006--4058037	6	5.3	6	100	0	64	0	18	46	34	1.49
4058891--4058949	5	11.8	5	96	0	100	3	40	38	16	1.66
4058947--4059013	6	11.2	6	96	0	116	2	16	49	31	1.61
4059293--4059341	22	2.3	21	78	3	53	26	6	22	44	1.76
4061296--4061344	5	9.8	5	95	0	80	4	40	38	16	1.67
4061342--4061408	6	11.2	6	96	0	116	2	16	49	31	1.61
4061694--4061734	22	1.9	21	85	5	55	26	7	24	41	1.81
4063694--4063737	5	8.8	5	94	0	61	6	40	38	13	1.71
4063735--4063855	6	20.2	6	96	0	215	1	16	48	33	1.56
4069719--4069762	5	8.8	5	89	0	52	6	38	38	15	1.75
4069760--4069844	6	14.2	6	97	0	152	2	16	49	31	1.58
4074765--4074867	51	2.0	51	96	0	188	40	11	10	36	1.76
4080507--4080552	23	2.0	23	83	8	58	47	0	2	50	1.13
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4082010--4082037	2	14.0	2	100	0	56	50	0	0	50	1.00
4082234--4082261	2	14.0	2	100	0	56	50	0	0	50	1.00
4092269--4092339	24	3.0	24	76	0	79	21	11	16	50	1.76
4097725--4097787	22	2.8	23	87	4	92	36	22	4	36	1.75
4098190--4098260	22	3.2	23	86	4	92	39	19	5	35	1.76
4097324--4098519	470	2.5	475	92	5	1942	40	10	7	42	1.67
4099358--4099915	194	3.1	175	85	9	660	30	18	15	35	1.92
4099535--4099956	195	2.2	193	90	3	663	29	18	16	35	1.93
4100069--4100115	18	2.6	18	93	3	76	53	10	2	34	1.48
4101042--4101386	173	2.0	174	99	0	683	35	20	13	29	1.92

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