genome.fa.s9624.2.7.7.80.10.50.1000.21.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: VEPZ01009624.1 Hibiscus syriacus cultivar Beakdansim tig00117016_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8249038

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   

This is table  21  of  38  ( 4514 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)
4010233--4010315	43	1.9	44	87	2	123	37	20	10	31	1.87
4010695--4010766	36	2.0	36	88	0	108	27	11	19	41	1.85
4011246--4011280	17	2.1	17	88	0	52	31	11	17	40	1.85
4012318--4012373	18	3.2	18	78	9	55	57	1	0	41	1.09
4014845--4014949	47	2.2	48	77	6	115	49	3	0	46	1.19
4015764--4015814	16	2.9	17	78	21	52	27	27	19	25	1.99
4015765--4015834	36	1.9	36	94	0	122	27	30	17	25	1.97
4015764--4015837	20	3.9	20	75	22	70	27	31	16	25	1.96
4016023--4016062	20	1.9	22	90	10	66	37	40	10	12	1.77
4018688--4018806	43	2.8	43	84	7	136	28	16	28	26	1.97
4018704--4018806	43	2.5	42	87	6	138	30	17	27	25	1.97
4018704--4018823	43	2.9	41	81	16	133	26	17	27	28	1.98
4018747--4018910	43	3.9	40	80	14	147	20	21	26	31	1.98
4020481--4020527	22	2.1	22	100	0	94	51	12	19	17	1.77
4020485--4020533	22	2.2	22	92	0	80	51	18	16	14	1.77
4022324--4022609	42	6.9	42	83	8	345	32	18	22	26	1.97
4022324--4022688	41	8.8	41	81	7	373	32	18	20	28	1.97
4022324--4022657	83	4.0	83	88	1	474	32	18	20	27	1.96
4026288--4026357	33	2.1	33	100	0	140	34	10	30	25	1.89
4030774--4030802	15	1.9	15	100	0	58	13	34	41	10	1.79
4031120--4031201	40	2.0	40	97	0	155	37	35	6	20	1.78
4037820--4037910	21	4.4	21	72	10	62	46	2	2	49	1.26
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4037793--4037828	2	18.0	2	100	0	72	50	0	0	50	1.00
4037863--4037904	17	2.4	17	88	4	57	45	2	4	47	1.36
4037793--4037988	23	8.7	23	69	17	101	46	1	1	50	1.20
4037880--4037938	31	2.0	29	90	6	91	50	0	0	49	1.00
4037895--4037938	2	22.5	2	86	4	54	52	0	0	47	1.00
4037989--4038014	6	4.3	6	100	0	52	15	0	0	84	0.62
4041247--4041292	22	2.1	22	91	0	74	36	2	10	50	1.50
4041472--4041645	61	2.9	61	86	3	251	28	18	26	27	1.98
4043376--4043459	44	2.0	42	83	4	105	32	25	20	22	1.98
4044008--4044151	53	2.7	54	83	4	157	27	20	19	31	1.97
4044143--4044191	20	2.5	20	86	0	62	36	24	8	30	1.85
4050510--4050581	21	3.4	21	100	0	144	31	23	5	38	1.78
4050967--4051097	54	2.4	54	88	1	181	30	22	16	30	1.96
4051082--4051131	20	2.5	20	84	9	66	28	30	12	30	1.92
4067289--4067329	20	2.0	20	90	0	64	31	9	21	36	1.86
4070978--4071146	85	2.0	85	95	0	302	34	28	8	27	1.86
4071470--4071506	14	2.6	14	86	4	56	45	0	2	51	1.15
4071615--4071669	26	2.2	24	78	15	58	40	1	3	54	1.28
4071698--4071750	18	2.9	18	81	15	65	45	0	3	50	1.19
4076530--4076571	18	2.3	18	95	0	75	38	23	21	16	1.93
4079803--4079828	9	2.9	9	100	0	52	34	11	7	46	1.69
4080224--4080262	20	2.0	20	85	10	53	38	30	12	17	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4080845--4081109	2	135.0	2	75	10	226	44	3	5	46	1.43
4080846--4081109	37	6.8	39	79	13	144	44	3	5	46	1.44
4081231--4081262	16	2.1	15	94	5	55	46	6	0	46	1.27
4081252--4081310	16	3.8	16	73	6	50	59	1	1	37	1.18
4081252--4081317	32	2.1	31	83	5	80	62	1	1	34	1.14
4081881--4081948	25	2.8	25	86	2	102	14	22	23	39	1.91
4081891--4081948	9	7.0	9	75	16	54	17	20	24	37	1.93
4082147--4082201	27	2.0	28	85	3	76	45	1	3	49	1.30
4082368--4082525	77	2.1	77	86	2	219	44	5	12	38	1.64
4091028--4091417	195	2.0	195	100	0	780	24	12	18	44	1.84
4092237--4092464	114	2.0	114	100	0	456	32	21	17	28	1.96
4097372--4097411	21	1.9	21	89	0	62	10	25	40	25	1.86
4100081--4100131	22	2.3	22	93	0	84	49	13	13	23	1.78
4101701--4101732	6	5.3	6	96	0	55	15	34	12	37	1.85
4108431--4108496	12	5.8	12	78	10	84	19	21	22	36	1.95
4108395--4108507	23	4.9	23	87	3	147	23	22	23	30	1.99
4108395--4108507	45	2.5	46	88	5	158	23	22	23	30	1.99
4108396--4108516	11	10.6	11	74	10	82	23	23	23	29	1.99
4108501--4108537	17	2.2	17	90	0	56	32	29	13	24	1.93
4108841--4108909	23	3.0	24	85	10	90	53	26	20	0	1.45
4109312--4109343	16	2.0	16	100	0	64	43	31	0	25	1.55
4110592--4110664	21	3.5	21	74	7	67	45	28	0	26	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4110588--4110673	14	6.2	13	69	12	55	45	30	0	24	1.54
4110590--4110677	42	2.1	42	85	4	115	43	30	0	26	1.55
4110613--4110685	35	2.1	35	85	10	96	43	27	0	28	1.55
4110932--4110972	14	3.1	14	76	20	52	41	0	4	53	1.22
4111064--4111097	5	6.4	5	90	6	50	17	23	35	23	1.95
4111064--4111095	17	1.9	16	93	6	55	18	21	37	21	1.94
4116320--4116360	16	2.6	16	88	0	55	26	29	17	26	1.97
4116332--4116366	16	2.2	16	94	0	61	25	42	14	17	1.86
4116349--4116426	32	2.4	31	79	8	84	38	30	11	19	1.87
4117479--4117591	36	3.0	38	84	10	151	39	7	10	42	1.67
4118502--4118527	13	2.0	13	100	0	52	38	15	15	30	1.88
4119696--4119842	45	3.3	45	96	0	258	19	19	13	47	1.82
4120282--4120330	20	2.5	20	89	0	80	24	26	8	40	1.83
4126457--4126783	45	7.3	45	89	0	485	22	20	12	44	1.84
4127160--4127329	94	1.8	94	81	11	215	25	22	13	38	1.91
4133229--4133289	31	1.9	32	83	9	81	16	32	19	31	1.94
4137820--4138414	297	2.0	298	99	0	1183	29	15	14	40	1.86
4140952--4141020	24	2.8	24	75	2	75	23	10	13	53	1.69
4141209--4141383	23	7.6	23	84	0	170	47	15	9	27	1.77
4141213--4141317	46	2.3	46	98	0	201	42	12	14	30	1.82
4141233--4141383	46	3.3	46	87	0	194	49	15	7	27	1.72
4144085--4144213	11	10.2	13	67	20	62	48	2	3	45	1.30
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4144087--4144147	19	3.2	20	82	15	76	49	3	1	45	1.28
4144092--4144148	21	2.9	19	87	12	73	47	3	1	47	1.29
4144092--4144171	18	4.6	18	74	16	69	47	2	2	47	1.29
4144091--4144177	23	3.7	23	72	22	72	48	2	2	47	1.27
4144162--4144247	13	6.3	13	75	12	75	47	5	5	40	1.51
4144381--4144441	19	3.3	19	79	4	79	44	0	29	26	1.55
4144632--4149157	4	1165.8	4	89	8	7184	24	0	25	49	1.54
4149155--4149458	2	161.0	2	67	21	140	48	4	2	44	1.38
4149163--4149458	57	5.2	57	66	22	106	48	4	3	43	1.39
4149166--4149496	185	1.8	181	88	9	510	48	6	3	41	1.45
4149494--4149685	4	47.8	4	89	3	260	29	1	20	47	1.59
4149683--4149711	14	2.1	14	93	6	51	55	6	0	37	1.27
4149683--4149726	23	1.9	23	85	0	61	54	4	2	38	1.33
4149741--4149823	2	44.5	2	71	21	65	49	2	2	45	1.28
4150158--4150231	23	3.3	22	75	17	64	52	2	5	39	1.38
4150361--4150452	33	2.8	32	79	12	80	39	6	11	42	1.68
4150477--4150527	21	2.3	23	80	6	61	43	3	3	49	1.39
4150475--4150526	23	2.4	22	80	6	61	42	3	3	50	1.39
4150587--4150645	14	4.3	14	72	12	50	44	6	3	45	1.47
4150543--4150705	62	2.5	64	81	10	174	42	5	3	49	1.41
4150642--4150702	16	4.1	14	72	19	52	40	4	1	52	1.33
4150863--4150941	2	37.0	2	73	12	59	45	5	6	43	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4150852--4150912	20	3.1	20	95	2	106	47	4	6	40	1.51
4150852--4150948	20	4.5	21	77	16	85	45	7	6	41	1.57
4151121--4151221	39	2.5	40	82	9	107	43	5	1	48	1.38
4151965--4152021	18	3.2	17	78	9	60	59	7	0	33	1.24
4152158--4152196	16	2.4	16	86	0	51	35	17	25	20	1.95
4152804--4153097	147	2.0	147	100	0	588	33	17	17	32	1.92
4156173--4156212	17	2.4	16	84	8	53	55	10	0	35	1.34
4156130--4156260	68	1.9	68	90	0	208	47	11	3	37	1.58
4156241--4156296	21	2.7	22	82	17	75	53	16	0	30	1.43
4157410--4157459	24	2.1	24	85	3	66	56	10	4	30	1.51

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