genome.fa.s8061.2.7.7.80.10.50.1000.20.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: VEPZ01008061.1 Hibiscus syriacus cultivar Beakdansim tig00110556_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5800122

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   

This is table  20  of  26  ( 3118 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)
3971711--3971763	25	2.1	26	82	3	63	58	1	3	35	1.27
3976233--3976267	2	17.5	2	100	0	70	0	48	0	51	1.00
3982130--3982159	15	2.0	15	100	0	60	33	20	26	20	1.97
3992944--3992988	19	2.4	19	85	7	56	46	0	2	51	1.13
3993256--3993357	30	3.4	30	78	6	118	35	11	10	42	1.77
3998269--3998302	16	2.0	16	88	11	50	58	0	2	38	1.13
3999943--3999992	25	2.1	25	81	7	59	22	4	14	60	1.51
4003269--4003316	2	24.0	2	100	0	96	50	0	0	50	1.00
4004242--4004315	38	1.9	38	94	5	132	27	9	12	51	1.70
4004239--4004304	19	3.5	20	67	24	61	27	9	12	51	1.69
4013273--4013347	21	3.6	21	75	10	73	25	24	18	32	1.97
4013337--4013388	21	2.5	21	87	3	70	38	17	23	21	1.93
4013377--4013430	20	2.7	20	82	0	72	29	25	20	24	1.99
4013584--4013617	12	2.9	12	86	4	52	17	41	5	35	1.74
4014174--4014227	24	2.2	24	83	0	63	24	16	16	42	1.88
4014402--4014426	12	2.1	12	100	0	50	72	0	28	0	0.86
4016699--4016807	20	5.4	20	91	2	166	36	23	22	17	1.94
4016812--4016858	19	2.4	20	89	3	69	44	14	21	19	1.86
4017043--4017079	14	2.6	14	86	0	56	48	21	0	29	1.50
4018481--4018573	42	2.2	42	88	3	143	23	15	38	22	1.92
4018945--4019009	20	3.2	20	84	0	85	30	26	24	18	1.98
4019018--4019084	19	3.8	18	71	18	52	50	22	16	10	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4019011--4019077	33	2.0	33	85	5	91	50	22	17	8	1.74
4019094--4019214	20	6.4	19	75	12	81	14	22	22	41	1.89
4021124--4021175	20	2.6	20	93	0	95	42	23	21	13	1.88
4021144--4021238	32	2.9	34	82	6	122	42	21	22	14	1.89
4021285--4021372	20	4.5	19	81	7	95	14	19	23	42	1.88
4021286--4021372	40	2.2	39	85	6	113	14	18	24	42	1.88
4021713--4021758	22	2.1	22	95	0	83	17	13	45	23	1.83
4021961--4022027	20	3.3	20	87	8	100	22	19	29	28	1.98
4022059--4022111	21	2.5	22	78	6	65	33	16	26	22	1.96
4022411--4022472	32	1.9	35	84	15	89	48	3	1	46	1.28
4022573--4022611	20	2.0	20	85	10	53	51	0	2	46	1.14
4022837--4022866	13	2.3	13	100	0	60	53	0	0	46	1.00
4024732--4024789	29	2.0	30	90	6	93	36	6	0	56	1.26
4034156--4034207	14	3.5	14	73	14	50	53	0	0	46	1.00
4034151--4034210	17	3.7	17	75	20	65	56	0	0	43	0.99
4034640--4034678	21	1.9	21	84	5	53	46	7	7	38	1.61
4041555--4041616	13	5.0	12	79	11	63	75	0	4	19	0.97
4041548--4041617	19	3.7	19	70	11	63	72	0	4	22	1.01
4041587--4041617	10	3.2	10	90	9	55	77	0	0	22	0.77
4047539--4047654	60	1.9	60	80	0	133	19	10	56	12	1.65
4055246--4055287	21	2.0	20	86	4	57	40	7	14	38	1.73
4059955--4059996	21	2.0	20	86	4	57	40	7	14	38	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4063641--4063668	14	2.0	14	100	0	56	28	14	14	42	1.84
4063603--4064088	154	3.0	165	85	6	642	31	18	20	29	1.97
4063806--4063832	14	1.9	14	100	0	54	29	7	14	48	1.71
4064800--4064865	30	2.2	30	88	0	96	34	24	30	10	1.89
4065648--4065672	8	3.1	8	100	0	50	36	24	24	16	1.94
4069708--4069746	15	2.5	16	83	4	53	35	28	23	12	1.91
4071221--4071267	18	2.6	18	89	0	76	25	8	10	55	1.62
4078276--4078302	6	4.5	6	100	0	54	14	51	14	18	1.76
4087262--4087299	20	1.9	20	94	0	67	36	5	31	26	1.79
4087543--4087728	81	2.3	82	89	2	286	38	7	9	44	1.65
4088387--4088429	20	2.3	19	84	11	61	20	30	9	39	1.84
4088392--4088429	20	1.9	20	94	0	67	21	28	10	39	1.86
4091059--4091222	79	2.1	78	80	10	176	46	6	7	39	1.58
4091507--4091581	32	2.3	32	80	8	82	38	9	2	49	1.49
4092227--4092251	2	12.5	2	100	0	50	48	0	0	52	1.00
4092691--4092724	9	3.8	9	92	7	52	20	2	0	76	0.92
4092691--4092725	13	2.6	14	90	4	54	20	2	0	77	0.90
4092691--4092734	22	2.0	22	82	8	54	20	6	0	72	1.07
4094505--4094540	8	4.6	8	89	6	56	13	16	13	55	1.69
4094505--4094540	15	2.3	16	90	4	56	13	16	13	55	1.69
4094532--4094574	22	2.0	21	81	4	50	25	18	4	51	1.66
4095690--4095751	23	2.7	22	80	9	72	79	6	14	0	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4095690--4095758	20	3.2	20	82	10	66	79	5	13	1	0.97
4097250--4097353	36	2.9	36	94	0	172	25	24	13	37	1.91
4097268--4097722	101	4.5	101	88	4	614	29	21	12	36	1.90
4097469--4097555	37	2.4	37	86	5	115	25	21	13	39	1.90
4097268--4097722	201	2.2	201	87	3	655	29	21	12	36	1.90
4097595--4097755	67	2.4	66	85	8	218	31	22	11	34	1.89
4097862--4097931	37	1.9	37	85	8	99	25	20	14	40	1.90
4098582--4099553	105	9.3	105	91	3	1432	33	26	18	21	1.96
4098582--4099553	205	4.6	209	91	3	1437	33	26	18	21	1.96
4098582--4099553	310	3.1	309	91	3	1498	33	26	18	21	1.96
4100574--4100616	2	23.5	2	82	17	58	44	0	0	55	0.99
4100574--4100624	23	2.2	24	83	13	72	43	0	0	56	0.99
4100700--4100734	17	2.1	17	88	0	52	42	5	0	51	1.25
4101053--4101086	9	3.8	9	92	7	52	20	2	0	76	0.92
4101053--4101087	13	2.6	14	90	4	54	20	2	0	77	0.90
4101053--4101096	22	2.0	22	82	8	54	20	6	0	72	1.07
4101649--4101683	16	2.2	16	90	5	54	45	0	2	51	1.16
4103525--4103597	19	3.8	20	78	10	71	64	2	2	30	1.21
4115150--4115510	180	2.0	178	97	2	679	24	24	29	20	1.99
4119195--4119226	16	1.9	17	93	6	57	65	3	0	31	1.08
4121337--4121388	25	2.1	24	85	3	68	63	0	1	34	1.06
4132301--4132339	16	2.4	16	95	0	69	35	30	0	33	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4134769--4134825	28	2.0	28	83	6	71	49	1	0	49	1.11
4134728--4134825	44	2.3	43	82	7	117	51	2	3	43	1.29
4138140--4138173	16	2.1	16	88	0	50	29	8	26	35	1.87
4146193--4146228	17	2.1	17	100	0	72	27	38	11	22	1.88
4158375--4158429	20	2.8	20	73	15	60	32	29	18	20	1.96
4158373--4158512	21	6.8	21	70	11	67	37	24	17	21	1.94
4158519--4158688	20	8.4	20	77	4	171	37	23	18	20	1.94
4158524--4158688	81	2.0	80	89	2	249	38	23	18	20	1.93
4158519--4158684	40	4.1	41	88	4	248	37	22	18	21	1.94
4159249--4159327	20	3.9	21	83	5	85	51	16	18	12	1.75
4159352--4159484	52	2.5	53	88	2	187	11	21	18	48	1.80
4159352--4159492	19	7.8	19	75	17	149	11	21	17	48	1.78
4161373--4161439	21	3.2	21	65	21	50	23	34	20	20	1.97
4161321--4161439	42	2.8	42	78	12	102	22	35	18	23	1.96
4162780--4162815	14	2.6	14	95	0	63	33	0	22	44	1.53
4162922--4163015	33	2.8	33	88	3	136	45	20	18	15	1.85
4162922--4163020	19	5.7	19	67	24	58	46	20	18	15	1.84
4162954--4163030	19	4.3	19	75	18	67	45	23	15	15	1.84
4163049--4163105	14	3.7	14	72	20	51	10	26	21	42	1.85
4163026--4163188	19	9.3	19	65	21	95	14	23	19	42	1.87
4163028--4163237	106	2.0	106	86	1	296	15	22	20	41	1.90
4163030--4163210	33	5.3	33	81	9	209	14	23	19	43	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4170828--4170862	18	1.9	18	94	0	61	20	22	31	25	1.98
4172932--4172976	21	2.1	21	91	0	72	33	28	22	15	1.95
4174308--4174435	31	4.1	31	75	13	127	27	17	20	34	1.95
4174421--4174523	30	3.4	30	91	0	161	27	20	21	31	1.98
4177474--4177518	21	2.1	21	87	0	63	31	28	24	15	1.96
4178850--4178958	31	3.5	31	79	14	134	28	18	18	34	1.94
4178870--4178977	31	3.5	31	77	8	112	27	18	20	33	1.96
4178938--4179062	30	4.1	30	91	1	169	23	20	23	32	1.98
4178962--4179065	30	3.5	30	95	0	181	25	20	23	31	1.98
4179893--4179946	20	2.6	21	82	2	74	27	37	12	22	1.91

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