genome.fa.s9592.2.7.7.80.10.50.1000.20.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: VEPZ01009592.1 Hibiscus syriacus cultivar Beakdansim tig00116971_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  7920512

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   38   39   

This is table  20  of  39  ( 4673 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)
3988164--3988206	20	2.2	20	86	0	59	30	13	20	34	1.92
3998553--3998595	20	2.2	20	86	0	59	30	13	20	34	1.92
4001820--4002128	169	1.8	170	88	2	478	46	16	11	24	1.81
4025312--4025391	35	2.3	35	79	12	85	55	11	8	25	1.64
4027697--4027735	18	2.2	18	86	4	53	61	2	5	30	1.31
4028053--4028115	29	2.1	29	82	8	74	26	15	30	26	1.96
4028746--4028783	17	2.3	17	86	4	51	50	2	2	44	1.30
4029046--4029090	22	2.0	23	82	8	56	44	0	8	46	1.34
4029166--4029229	29	2.2	29	88	5	94	35	6	10	46	1.64
4029179--4029242	29	2.2	30	91	2	103	37	3	12	46	1.57
4029023--4029408	142	2.8	141	85	6	490	35	9	12	42	1.75
4029308--4029371	29	2.2	29	88	0	92	32	9	9	48	1.67
4029857--4029931	30	2.5	30	84	2	89	25	8	28	38	1.84
4031931--4031975	20	2.2	20	96	0	81	26	24	13	35	1.92
4032872--4032910	19	2.1	19	95	0	69	33	28	15	23	1.95
4032934--4033020	20	4.3	20	79	5	95	27	25	20	26	1.99
4033836--4033889	24	2.2	24	93	0	90	20	14	20	44	1.86
4036123--4036157	18	1.9	18	88	0	52	54	22	2	20	1.58
4036217--4036485	139	1.9	140	95	2	488	30	13	14	41	1.84
4036456--4036552	20	4.8	20	89	0	131	30	19	19	29	1.97
4036484--4036618	34	3.8	34	80	5	135	35	20	20	24	1.96
4036592--4036635	20	2.2	20	84	4	54	29	22	20	27	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4036625--4036682	20	2.9	21	77	10	68	12	15	27	44	1.82
4038219--4038342	42	2.9	43	78	9	137	23	17	37	21	1.94
4038219--4038337	21	5.6	21	75	2	103	22	17	36	22	1.94
4038813--4038855	19	2.2	20	91	4	70	48	23	13	13	1.79
4038842--4038890	20	2.5	20	96	0	89	36	26	22	14	1.92
4038990--4039074	20	4.3	19	85	8	107	14	21	27	37	1.91
4038990--4039074	40	2.1	40	89	4	127	14	21	27	37	1.91
4040971--4041014	20	2.2	20	87	0	61	36	25	18	20	1.95
4041389--4041439	22	2.3	22	89	0	75	21	11	41	25	1.87
4041590--4041650	20	3.3	20	72	25	71	21	18	29	31	1.96
4041604--4041630	14	1.9	14	100	0	54	14	22	29	33	1.94
4041615--4041672	21	2.8	21	76	7	66	20	15	25	37	1.92
4041590--4041731	20	7.3	20	70	16	66	25	17	23	33	1.96
4041757--4041793	19	1.9	19	88	0	56	24	16	24	35	1.95
4047323--4047604	137	2.1	137	93	2	478	37	10	9	42	1.72
4048773--4048932	60	2.7	59	76	4	169	32	25	5	37	1.77
4051363--4051632	138	2.0	138	94	0	477	31	9	16	42	1.79
4071260--4072597	268	5.0	270	84	5	1701	34	20	14	31	1.92
4071260--4072597	531	2.5	531	84	4	1744	34	20	14	31	1.92
4072574--4072902	96	3.4	96	87	2	480	22	20	16	40	1.91
4073115--4073386	66	4.1	66	89	0	393	23	25	11	39	1.88
4080197--4080231	17	2.1	17	100	0	70	54	5	22	17	1.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4083043--4083072	6	5.0	6	95	0	51	36	0	63	0	0.95
4089295--4089408	60	1.9	60	83	7	151	35	10	14	40	1.80
4091038--4091088	21	2.4	21	83	9	59	9	5	9	74	1.21
4094412--4094458	25	1.9	25	82	4	60	38	8	2	51	1.45
4095609--4095663	19	2.8	20	83	8	76	20	25	18	36	1.94
4099126--4099250	33	3.8	33	92	0	196	47	16	22	13	1.82
4099144--4099231	14	5.6	14	67	23	50	45	19	23	11	1.83
4099126--4099256	19	7.7	19	64	23	76	46	16	22	13	1.83
4099245--4099328	19	4.7	19	71	16	72	15	15	22	46	1.83
4099268--4099393	33	3.8	33	93	2	200	13	19	19	46	1.83
4099321--4099375	14	3.6	14	73	21	56	10	23	20	45	1.82
4099302--4099393	19	5.4	19	69	24	87	14	22	17	45	1.84
4099500--4099538	14	2.8	13	88	11	60	46	17	0	35	1.49
4100887--4100953	21	3.2	21	68	4	55	19	20	35	23	1.95
4100887--4101009	42	2.9	41	79	7	113	22	18	36	21	1.95
4101406--4101527	19	6.5	19	77	12	128	48	18	21	11	1.79
4101406--4101536	39	3.5	38	80	13	155	48	17	22	12	1.80
4101430--4101562	33	3.8	33	87	6	167	45	18	24	12	1.82
4101571--4101608	20	1.9	20	100	0	76	5	15	28	50	1.66
4101604--4101699	19	5.2	19	73	17	87	10	19	18	51	1.75
4101572--4101675	33	3.1	33	83	1	136	7	19	24	49	1.74
4101791--4102258	94	5.1	94	92	2	743	46	19	12	21	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4103949--4104099	14	8.6	19	67	22	98	45	18	23	12	1.83
4103977--4104099	33	3.7	33	92	1	201	43	21	22	12	1.85
4104135--4104225	20	4.6	20	82	9	114	12	17	19	50	1.77
4104752--4104951	20	9.9	20	78	4	102	32	17	20	30	1.96
4106483--4106550	27	2.6	27	90	4	104	41	17	11	29	1.85
4110242--4110309	27	2.6	27	93	4	113	42	16	10	30	1.81
4118171--4118668	55	9.1	54	80	10	314	30	24	15	29	1.95
4118202--4118662	110	4.2	110	85	5	596	30	24	14	29	1.95
4118201--4118662	165	2.8	164	80	8	548	30	24	14	29	1.95
4120040--4120133	7	13.0	7	77	13	75	6	13	0	79	0.91
4120118--4120174	21	2.8	20	74	15	53	10	17	0	71	1.12
4120035--4120175	57	2.5	57	82	11	148	9	15	0	75	1.04
4123638--4123669	2	16.0	2	93	0	55	50	3	0	46	1.17
4129805--4129902	45	2.1	47	86	5	137	39	20	12	27	1.88
4134518--4134548	16	1.9	16	93	0	53	48	3	9	38	1.52
4136674--4136728	23	2.5	23	82	5	60	40	16	9	34	1.80
4141048--4141080	3	11.0	3	100	0	66	33	0	0	66	0.92
4141225--4141254	3	10.0	3	100	0	60	33	0	0	66	0.92
4140972--4141320	174	2.0	174	98	0	680	43	18	12	25	1.85
4145487--4145535	21	2.5	19	87	9	64	55	10	2	32	1.45
4146399--4146447	21	2.4	20	81	18	57	46	4	10	38	1.57
4149611--4149652	19	2.2	19	91	0	66	42	28	2	26	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4152064--4152101	15	2.5	15	100	0	76	36	13	28	21	1.91
4154237--4154278	19	2.2	19	95	0	75	42	30	2	23	1.67
4154646--4154679	13	2.6	13	100	0	68	26	17	14	41	1.88
4157261--4157308	20	2.4	19	78	18	53	50	4	6	39	1.47
4159925--4159969	22	2.0	23	82	4	56	46	0	2	51	1.13
4171362--4171438	29	2.7	29	91	0	127	38	16	15	28	1.90
4176090--4176170	29	2.8	29	96	1	144	40	12	14	32	1.83
4181043--4181081	19	2.0	20	85	5	53	7	35	0	56	1.28
4181975--4182024	5	9.2	5	85	14	64	78	0	0	22	0.76
4181975--4182024	6	9.0	6	86	6	54	78	0	0	22	0.76
4181975--4182024	16	3.0	16	91	5	73	78	0	0	22	0.76
4182262--4182352	41	2.2	41	88	0	137	21	23	23	31	1.98
4182530--4182715	46	4.2	45	66	20	113	28	18	22	30	1.98
4182302--4183133	132	6.2	132	81	4	918	29	16	22	31	1.96
4182784--4183133	141	2.6	141	81	6	389	29	15	22	32	1.94
4183356--4184034	242	2.8	242	86	1	941	37	14	16	32	1.89
4185139--4185190	27	2.0	26	88	7	79	32	3	17	46	1.66
4185768--4185792	2	12.5	2	100	0	50	48	0	0	52	1.00
4191686--4191733	22	2.1	23	88	11	73	20	0	25	54	1.45
4197082--4197139	20	3.0	20	85	10	84	24	22	31	22	1.99
4197082--4197137	18	3.0	18	89	5	76	21	23	32	23	1.98
4201074--4201107	2	17.0	2	87	0	50	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4202039--4202116	20	4.0	20	81	6	97	23	21	30	24	1.99
4202039--4202115	38	2.0	39	87	5	111	22	22	31	24	1.98
4203032--4203074	2	21.5	2	100	0	86	51	0	0	48	1.00
4204196--4204414	110	2.0	110	95	0	393	42	5	19	32	1.76
4208233--4208281	2	24.5	2	100	0	98	48	0	0	51	1.00
4209389--4209493	52	2.0	53	96	1	194	21	21	24	31	1.98
4211662--4211868	103	2.0	103	100	0	414	35	18	22	24	1.96
4212041--4212112	8	8.9	8	71	18	51	77	0	16	5	0.94
4212033--4212121	22	4.0	21	76	14	63	76	0	17	5	0.98
4212030--4212123	33	2.7	34	79	14	104	75	0	18	6	1.01

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   38   39