genome.fa.s9643.2.7.7.80.10.50.1000.20.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: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8859806

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   40   41   

This is table  20  of  41  ( 4862 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)
4168352--4168475	31	3.9	32	73	11	103	31	20	16	31	1.95
4172754--4172791	19	2.0	20	94	5	69	28	15	26	28	1.96
4172759--4172915	63	2.5	62	86	4	199	31	19	22	26	1.98
4174141--4174176	18	2.0	18	100	0	72	11	22	33	33	1.89
4174159--4174485	103	3.2	103	96	0	618	26	14	23	34	1.94
4174468--4174539	18	4.0	18	100	0	144	11	22	33	33	1.89
4174625--4174660	18	2.0	18	94	0	63	11	19	33	36	1.87
4174365--4174660	157	1.9	157	99	0	583	22	16	26	34	1.95
4174504--4174752	121	2.1	121	96	0	462	23	14	25	36	1.93
4174771--4174831	23	2.7	23	89	0	95	19	26	27	26	1.99
4178639--4178676	19	2.0	20	94	5	69	28	15	26	28	1.96
4178644--4178802	63	2.5	62	86	4	203	32	19	22	26	1.97
4180016--4180051	18	2.0	18	100	0	72	11	22	33	33	1.89
4180137--4180172	18	2.0	18	100	0	72	11	22	33	33	1.89
4180014--4180639	121	5.2	121	97	0	1180	24	15	24	35	1.94
4180258--4180293	18	2.0	18	94	0	63	11	19	33	36	1.87
4180379--4180414	18	2.0	18	100	0	72	11	22	33	33	1.89
4180500--4180535	18	2.0	18	88	0	54	11	19	30	38	1.86
4180646--4180706	23	2.7	23	89	0	95	19	26	27	26	1.99
4183659--4183717	2	29.5	2	100	0	118	49	0	0	50	1.00
4184120--4184146	2	13.5	2	100	0	54	51	0	0	48	1.00
4189712--4189780	20	3.7	20	66	18	58	33	10	14	42	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4189701--4189776	35	2.2	36	90	4	120	35	9	11	43	1.73
4190659--4190708	22	2.3	22	96	0	91	30	22	20	28	1.98
4201536--4201561	13	2.0	13	100	0	52	38	23	30	7	1.83
4202865--4202929	16	4.1	16	87	0	103	58	21	10	9	1.59
4203727--4203760	8	4.2	8	84	0	50	55	0	5	38	1.24
4205451--4205475	2	12.5	2	100	0	50	48	0	0	52	1.00
4213629--4213656	8	3.5	8	100	0	56	39	0	10	50	1.37
4217169--4217211	8	5.2	8	81	15	52	81	0	6	11	0.87
4217175--4217211	18	2.1	17	90	10	56	83	0	5	10	0.79
4218132--4218506	54	6.9	54	85	4	359	31	20	24	23	1.98
4218778--4218811	8	4.2	8	84	0	50	55	0	5	38	1.24
4220506--4220538	2	16.5	2	100	0	66	48	0	0	51	1.00
4221862--4221917	14	4.3	14	78	17	66	51	25	12	10	1.71
4221855--4221916	24	2.6	24	89	0	97	53	24	11	11	1.69
4222050--4222080	12	2.6	12	100	0	62	29	16	32	22	1.95
4223149--4223180	14	2.3	14	94	0	55	43	9	12	34	1.75
4222558--4224838	764	3.0	764	99	0	4525	45	16	9	28	1.79
4224673--4224704	14	2.3	14	94	0	55	43	9	12	34	1.75
4232557--4232651	47	2.0	47	100	0	190	31	14	10	43	1.80
4239665--4239714	12	4.3	12	72	10	50	54	0	0	46	1.00
4239679--4240093	44	9.4	44	89	3	602	44	0	8	47	1.35
4239701--4240106	22	18.5	22	86	2	519	42	0	8	48	1.36
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4245244--4245299	27	2.1	27	83	6	69	42	3	8	44	1.53
4251189--4251231	20	2.2	20	86	0	59	18	4	18	58	1.56
4252415--4252458	20	2.0	23	83	12	58	40	9	6	43	1.63
4262389--4262470	30	2.7	31	83	7	89	46	10	2	40	1.52
4263267--4263327	22	2.7	22	79	2	59	39	3	0	57	1.15
4268764--4268797	17	2.0	17	94	0	59	61	0	0	38	0.96
4268751--4268852	31	3.4	28	73	16	80	52	1	0	44	1.18
4269660--4269694	4	9.0	4	93	6	63	0	22	0	77	0.78
4281716--4281779	23	2.8	23	90	0	101	26	26	28	18	1.98
4281795--4282012	103	2.1	103	93	0	373	36	22	13	27	1.92
4296068--4296102	17	2.0	18	88	5	54	60	2	2	34	1.26
4296654--4296724	35	2.0	36	91	2	117	39	8	11	40	1.71
4298715--4298790	3	25.7	3	76	12	59	28	1	0	69	0.96
4298733--4298792	12	5.1	12	78	9	70	23	1	0	75	0.90
4298719--4298789	23	2.8	26	77	14	76	29	1	0	69	0.98
4298715--4298792	32	2.4	32	82	2	93	28	1	0	70	0.95
4298712--4298791	15	5.3	15	76	7	72	28	1	0	70	0.96
4299483--4299537	21	2.7	21	94	2	94	29	16	34	20	1.94
4299600--4299657	21	2.8	21	100	0	116	24	18	36	20	1.95
4299738--4299797	30	2.0	30	93	0	102	45	20	6	28	1.76
4299957--4300031	37	2.0	37	94	0	132	32	25	5	37	1.78
4302009--4302078	34	2.1	34	86	5	99	22	30	15	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4302657--4302716	30	2.0	30	96	0	111	45	20	5	30	1.72
4307017--4307109	28	3.3	28	85	7	98	41	1	13	43	1.52
4307062--4307196	29	4.7	27	81	9	135	38	5	8	46	1.60
4307066--4307196	58	2.3	58	80	5	149	38	6	9	45	1.61
4312410--4312495	41	2.1	41	91	0	136	10	3	38	47	1.55
4313381--4313460	31	2.5	31	79	2	97	41	15	7	36	1.75
4324591--4324669	31	2.5	31	83	0	95	35	11	2	50	1.52
4324723--4324800	31	2.5	31	70	15	88	47	5	2	44	1.38
4328228--4328393	57	2.9	57	95	0	287	33	22	21	21	1.97
4332767--4332846	40	2.0	40	88	7	119	50	10	21	18	1.76
4335358--4335392	15	2.3	15	90	0	52	57	2	0	40	1.14
4338883--4338908	11	2.4	11	100	0	52	69	0	15	15	1.20
4339008--4339046	20	2.0	20	84	0	51	76	0	7	15	0.99
4340640--4340835	84	2.3	84	81	0	248	23	21	27	27	1.99
4340840--4340996	67	2.3	67	83	4	183	37	13	17	31	1.89
4340938--4341011	37	2.0	36	89	2	112	40	16	18	24	1.90
4341384--4341858	106	4.5	106	91	0	761	22	18	24	34	1.96
4346785--4346810	2	13.0	2	100	0	52	50	0	0	50	1.00
4347298--4347359	27	2.3	27	80	2	70	67	0	3	29	1.06
4347305--4347362	21	2.7	22	76	10	57	67	0	1	31	1.01
4347537--4347589	19	2.7	20	75	16	65	28	26	15	30	1.96
4347597--4347705	21	5.2	21	96	0	173	21	24	16	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4347533--4347807	21	13.6	21	81	8	135	31	23	15	29	1.95
4347568--4347766	42	4.8	41	82	4	161	28	23	16	31	1.96
4347569--4347713	63	2.3	62	80	1	173	24	24	16	34	1.95
4347697--4347807	20	5.6	20	83	1	134	39	23	15	21	1.91
4347697--4347788	40	2.3	40	90	0	148	40	23	16	19	1.91
4348553--4348586	12	2.8	12	90	0	50	55	29	0	14	1.40
4351000--4351035	18	2.0	18	88	0	54	55	22	2	19	1.56
4351357--4351395	20	2.0	20	94	0	69	38	23	20	17	1.93
4351480--4351621	61	2.2	63	82	8	173	50	16	1	31	1.55
4355291--4355322	13	2.5	13	100	0	64	78	15	6	0	0.95
4355536--4355606	22	3.3	22	88	5	110	22	12	43	21	1.86
4355544--4355606	20	3.0	20	90	4	90	22	12	44	20	1.85
4355734--4355787	20	2.7	20	91	0	81	20	18	22	38	1.93
4355827--4355877	20	2.5	20	84	6	68	25	13	33	27	1.94
4379510--4379613	36	2.9	36	95	1	181	45	3	0	50	1.19
4383214--4383276	23	2.7	24	85	2	92	41	14	15	28	1.87
4383209--4383312	47	2.2	46	79	5	118	44	17	13	25	1.85
4383290--4383334	23	2.0	23	86	0	63	44	15	15	24	1.85
4383365--4383424	30	2.0	31	83	9	79	53	18	8	20	1.70
4388389--4388414	2	13.0	2	100	0	52	50	0	0	50	1.00
4392704--4392753	22	2.2	23	85	3	75	56	20	12	12	1.67
4394302--4394556	85	3.2	75	78	14	235	50	13	6	29	1.67
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4394332--4394505	85	2.1	85	92	1	287	48	13	7	31	1.70
4399483--4399519	19	1.9	19	88	0	56	62	0	0	37	0.96
4399490--4399540	22	2.3	22	80	9	59	56	0	1	41	1.10
4402721--4403054	116	2.9	116	97	0	614	22	25	20	31	1.98
4403213--4403334	23	5.6	23	70	16	98	43	0	18	36	1.56
4403227--4403356	63	2.0	64	92	1	217	38	0	22	38	1.60
4403422--4403452	14	2.2	14	100	0	62	25	0	16	58	1.38
4404114--4404173	21	2.9	21	89	0	84	26	15	36	21	1.93
4405945--4405995	25	2.1	24	85	3	66	56	1	1	39	1.22
4406976--4407017	16	2.6	16	82	17	59	40	19	0	40	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   39   40   41