genome.fa.s7800.2.7.7.80.10.50.1000.21.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: VEPZ01007800.1 Hibiscus syriacus cultivar Beakdansim tig00110114_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4652821

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   

This is table  21  of  23  ( 2671 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)
4094101--4094127	9	3.0	9	100	0	54	22	11	0	66	1.22
4095211--4095287	31	2.6	28	79	18	86	40	9	11	38	1.73
4095363--4095431	29	2.3	30	85	5	86	43	5	10	40	1.62
4103367--4103463	31	3.2	29	75	10	97	41	17	3	38	1.65
4112346--4112378	16	2.1	16	94	0	57	57	18	15	9	1.63
4112448--4112492	16	2.8	16	93	0	81	55	22	13	8	1.65
4113581--4113628	10	4.4	10	78	19	51	54	25	12	8	1.65
4113588--4113629	14	3.3	14	75	25	56	52	26	14	7	1.67
4113581--4113629	24	2.0	24	100	0	98	53	24	14	8	1.68
4121223--4121278	29	2.0	28	83	10	71	46	3	0	50	1.19
4137975--4138061	35	2.5	34	80	12	97	55	10	8	26	1.61
4138656--4138690	18	1.9	18	94	0	61	28	22	22	25	1.99
4140450--4140474	10	2.5	10	100	0	50	32	0	36	32	1.58
4143715--4143781	35	1.9	35	84	6	91	34	19	19	26	1.96
4147378--4147429	24	2.2	23	96	3	95	34	23	25	17	1.96
4147388--4147512	23	5.4	23	78	17	84	32	28	23	16	1.96
4147425--4147520	46	2.1	46	84	9	126	34	26	21	17	1.96
4147455--4147520	23	2.9	22	80	8	69	31	28	22	16	1.96
4149604--4149673	32	2.3	30	82	5	86	38	8	25	27	1.85
4151716--4151755	21	1.9	21	100	0	80	22	27	25	25	2.00
4154590--4154679	31	2.9	29	76	14	83	31	18	7	42	1.79
4157799--4157963	20	8.3	20	87	3	208	32	10	23	33	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4160785--4160963	23	7.8	23	79	3	155	35	24	23	17	1.95
4160785--4160963	46	3.9	46	82	1	180	35	24	23	17	1.95
4160787--4160940	69	2.2	69	88	2	229	36	23	24	16	1.94
4163115--4163195	31	2.6	30	86	3	108	37	23	17	22	1.94
4163322--4163365	16	2.7	17	82	10	56	38	18	9	34	1.82
4163735--4163772	2	19.0	2	100	0	76	50	0	0	50	1.00
4168482--4168510	2	14.5	2	100	0	58	51	0	0	48	1.00
4168698--4168793	31	3.1	31	83	3	104	33	22	19	23	1.97
4168917--4168960	16	2.7	17	82	10	56	38	18	11	31	1.86
4174393--4174449	24	2.3	26	82	11	75	43	1	1	52	1.21
4175786--4175819	2	17.0	2	100	0	68	50	0	0	50	1.00
4176244--4176279	2	18.5	2	94	5	65	50	0	0	50	1.00
4180086--4180136	26	2.0	26	84	7	68	41	23	0	35	1.55
4180359--4180423	14	5.1	12	74	18	60	60	1	0	38	1.07
4181950--4181984	11	3.2	11	87	0	52	28	25	14	31	1.95
4182717--4182824	31	3.5	31	76	8	87	29	20	15	34	1.94
4182739--4182840	31	3.3	31	75	6	107	33	18	15	32	1.93
4182748--4182834	32	2.8	31	81	8	104	29	21	14	33	1.94
4184286--4184335	26	1.9	26	91	0	82	30	18	22	30	1.97
4186900--4186934	17	2.0	18	88	5	54	42	2	37	17	1.64
4192931--4193022	45	2.0	46	91	2	150	25	17	26	31	1.97
4193039--4193076	20	1.9	20	94	0	67	18	15	34	31	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4194336--4194360	12	2.1	12	100	0	50	40	24	0	36	1.55
4196506--4196550	22	2.0	22	95	0	81	24	35	24	15	1.94
4197281--4197387	31	3.4	32	78	11	114	34	16	17	30	1.93
4198632--4198693	30	2.1	30	93	0	106	38	3	22	35	1.71
4198935--4199020	23	3.7	23	77	14	104	19	25	26	27	1.99
4201459--4201483	12	2.1	12	100	0	50	40	24	0	36	1.55
4201940--4203385	730	2.0	724	91	3	2339	32	14	13	39	1.85
4203366--4203424	24	2.5	24	88	0	82	6	23	25	44	1.78
4204848--4204881	7	4.9	7	85	0	50	44	35	2	17	1.64
4206350--4206395	21	2.2	20	85	11	58	63	0	2	34	1.07
4207935--4207991	28	2.0	28	82	0	69	28	17	22	31	1.97
4209305--4209469	58	2.8	58	80	9	172	33	17	5	43	1.72
4215296--4215386	27	3.6	27	63	24	70	49	4	1	45	1.29
4215664--4215705	2	21.0	2	100	0	84	50	0	0	50	1.00
4218782--4218847	29	2.3	29	84	5	80	50	6	3	40	1.43
4222374--4222411	13	2.7	14	84	12	51	2	21	2	73	1.07
4237266--4237340	35	2.1	35	87	4	107	36	0	20	44	1.52
4244970--4245019	20	2.6	18	84	9	55	32	12	2	54	1.49
4246442--4246498	2	28.5	2	100	0	114	49	0	0	50	1.00
4249689--4249726	16	2.3	16	90	4	58	26	7	26	39	1.83
4259708--4259751	14	2.9	15	86	10	54	84	0	2	13	0.73
4260763--4261141	110	3.5	110	90	1	557	31	15	24	28	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4260763--4261089	55	5.9	55	93	0	548	31	15	24	28	1.96
4260772--4261236	55	8.6	54	86	4	257	32	16	23	27	1.96
4261054--4261229	54	3.3	53	78	7	187	32	19	23	24	1.97
4264929--4265108	84	2.1	84	91	0	288	34	20	11	33	1.89
4264929--4265066	44	3.2	44	70	12	142	32	22	12	32	1.91
4265846--4265873	2	14.0	2	100	0	56	50	0	0	50	1.00
4267292--4267324	16	2.1	16	100	0	66	57	24	12	6	1.57
4267390--4267448	16	3.7	16	93	0	100	59	20	11	8	1.58
4268530--4268566	14	2.6	14	86	0	56	56	21	10	10	1.64
4277752--4277792	21	1.9	22	90	5	66	29	14	24	31	1.95
4278454--4278511	3	19.0	3	79	10	55	62	0	1	36	1.06
4278444--4278511	24	2.8	25	86	4	93	64	0	1	33	1.02
4279115--4279218	42	2.5	43	82	4	115	33	19	21	25	1.97
4278651--4279603	258	3.7	258	88	1	1352	35	16	15	32	1.90
4280673--4280697	13	1.9	13	100	0	50	64	0	8	28	1.22
4288643--4288805	65	2.5	65	88	4	224	31	17	20	30	1.96
4288646--4288847	65	3.1	63	80	11	182	29	17	22	30	1.97
4290772--4290893	43	2.8	45	78	15	121	25	21	22	30	1.99
4290801--4290893	45	2.1	43	83	15	111	26	20	22	30	1.98
4296633--4296688	3	19.0	3	82	10	71	60	0	1	37	1.07
4297533--4297570	18	2.1	19	95	5	69	55	5	5	34	1.45
4298284--4298319	13	2.7	13	91	4	54	58	5	0	36	1.22
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4313046--4313096	12	4.1	12	74	18	50	13	9	9	66	1.44
4316289--4316318	15	1.9	16	93	6	53	23	0	50	26	1.50
4352180--4352235	21	2.7	21	77	0	67	39	8	19	32	1.83
4357560--4357663	45	2.3	45	98	0	199	37	20	20	22	1.94
4357604--4357745	64	2.2	64	81	10	166	32	18	23	25	1.97
4358808--4358881	23	3.2	23	86	0	103	17	24	27	31	1.97
4364802--4364961	52	3.1	52	61	16	125	44	11	16	27	1.82
4364790--4364995	102	2.0	102	100	0	412	43	12	16	27	1.84
4366014--4366044	13	2.3	14	94	5	55	70	0	12	16	1.16
4366847--4366973	39	3.3	39	91	2	202	40	4	20	34	1.73
4374080--4374200	35	3.4	35	76	13	129	39	16	17	26	1.90
4374106--4374223	36	3.3	36	77	9	150	38	17	16	27	1.92
4374080--4374220	72	2.0	72	92	0	237	38	17	17	26	1.92
4375939--4375982	20	2.2	20	84	8	54	18	18	31	31	1.95
4375970--4376019	20	2.5	20	93	0	82	16	24	30	30	1.96
4378591--4378704	36	3.2	36	70	5	95	41	13	17	28	1.87
4381247--4381287	21	1.9	23	85	14	61	53	17	4	24	1.63
4382380--4382471	45	2.0	45	95	0	166	31	1	22	44	1.60
4395675--4395744	30	2.3	29	80	11	79	27	14	28	30	1.95
4395692--4395752	30	2.0	30	90	0	95	31	11	29	27	1.92
4396981--4397013	17	1.9	17	93	0	57	24	39	6	30	1.79
4398533--4398589	18	3.3	18	66	14	57	54	10	0	35	1.35
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4398522--4398590	33	2.1	33	100	0	138	53	8	0	37	1.32
4398890--4399019	59	2.2	61	83	6	169	33	19	3	44	1.66
4400538--4400571	17	1.9	18	94	5	61	55	14	0	29	1.40
4402812--4402837	13	2.0	13	100	0	52	38	0	15	46	1.46
4405981--4406034	20	2.7	20	77	11	74	27	31	14	25	1.95
4407000--4407052	24	2.2	24	90	3	81	20	18	18	41	1.91
4407227--4407251	3	8.3	3	100	0	50	64	0	36	0	0.94
4410049--4410089	7	5.9	7	88	0	64	34	29	21	14	1.93
4410048--4410093	14	3.3	14	100	0	92	34	28	21	15	1.94
4410091--4410147	5	10.6	5	78	14	60	7	22	50	19	1.71

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23