genome.fa.s8319.2.7.7.80.10.50.1000.19.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: VEPZ01008319.1 Hibiscus syriacus cultivar Beakdansim tig00111022_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4819703

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

This is table  19  of  21  ( 2487 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)
4134054--4134103	20	2.4	21	90	3	75	40	22	24	14	1.90
4137997--4138249	125	2.0	125	86	1	346	34	16	24	24	1.95
4139423--4139620	36	5.5	36	85	2	238	36	23	19	20	1.95
4139423--4139620	108	1.8	107	83	4	263	36	23	19	20	1.95
4140003--4140460	51	8.8	51	80	5	479	32	20	24	22	1.97
4140003--4140455	104	4.3	104	87	3	583	32	20	24	22	1.97
4140003--4140460	155	2.9	153	84	6	573	32	20	24	22	1.97
4140003--4140772	55	14.5	54	81	12	381	31	17	26	24	1.97
4140460--4140826	108	3.4	108	92	2	578	29	14	28	27	1.95
4140462--4140826	163	2.2	165	87	5	546	29	14	27	27	1.95
4140460--4140826	55	6.8	55	88	4	525	29	14	28	27	1.95
4148663--4148697	6	5.8	6	100	0	70	51	31	0	17	1.45
4148691--4148789	4	24.2	4	95	4	180	49	24	1	25	1.57
4151380--4151429	18	2.7	19	90	6	84	44	2	4	50	1.32
4151676--4151721	23	2.0	23	100	0	92	34	8	30	26	1.86
4154668--4154698	11	2.8	11	95	0	53	29	22	9	38	1.86
4159262--4159301	18	2.2	18	86	0	53	70	0	2	27	1.01
4162326--4162363	20	1.9	20	88	0	58	36	10	18	34	1.85
4165314--4165373	31	1.9	32	82	3	77	40	10	13	36	1.78
4168702--4168780	37	2.1	37	80	0	86	51	12	5	30	1.61
4169510--4169572	15	3.7	18	73	16	62	66	3	0	30	1.07
4169515--4169561	11	4.4	11	74	15	53	70	2	0	27	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4170004--4170039	18	2.0	18	94	0	63	58	2	5	33	1.36
4172138--4172202	32	2.0	32	96	0	121	33	23	9	33	1.86
4172482--4172557	38	2.1	37	80	7	84	44	0	7	47	1.32
4173224--4173263	21	2.0	21	90	5	64	15	25	40	20	1.90
4175333--4175412	20	3.8	20	75	16	65	20	22	30	27	1.98
4182891--4182960	23	3.1	23	85	2	88	42	22	8	25	1.82
4186506--4186547	21	2.0	21	90	0	66	45	4	35	14	1.66
4192447--4192534	30	2.9	31	86	8	119	43	3	6	46	1.47
4193274--4193331	14	4.2	13	78	12	62	41	6	15	36	1.74
4193280--4193333	28	1.9	28	96	0	99	44	7	14	33	1.73
4193672--4193728	23	2.4	23	77	13	62	42	1	1	54	1.21
4193896--4193954	22	2.6	23	83	5	75	54	0	1	44	1.10
4193916--4193971	17	3.4	17	75	9	71	51	0	3	44	1.18
4193889--4193980	32	2.9	32	93	3	152	52	0	2	45	1.13
4193896--4194006	54	2.1	53	81	11	129	51	0	1	46	1.11
4196265--4196297	15	2.2	15	89	10	50	69	3	0	27	1.03
4197621--4197672	3	17.7	3	88	4	79	61	1	0	36	1.07
4197800--4198094	105	2.7	106	82	5	344	24	18	16	40	1.91
4198022--4198077	16	3.3	16	68	22	51	19	23	8	48	1.77
4198014--4198451	225	2.0	223	87	3	639	26	21	15	36	1.93
4199319--4199409	8	12.5	8	69	25	60	8	13	1	76	1.06
4199319--4199369	19	2.5	20	93	6	86	9	11	0	78	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4199311--4199388	28	2.8	28	84	11	115	8	14	0	76	1.00
4211596--4211628	15	2.2	15	89	10	50	69	3	0	27	1.03
4212949--4213009	3	20.7	3	89	3	97	62	1	0	36	1.05
4216222--4216278	28	2.0	28	86	0	78	29	21	17	31	1.96
4231225--4231351	59	2.2	59	86	0	173	28	25	18	27	1.98
4232806--4232881	38	2.0	38	97	0	143	40	10	15	32	1.82
4233363--4233396	2	17.0	2	100	0	68	0	50	0	50	1.00
4234323--4234386	24	2.7	24	95	0	119	39	17	23	20	1.92
4246040--4246121	29	2.8	29	94	1	137	32	14	12	40	1.83
4247242--4247268	14	1.9	14	100	0	54	59	7	25	7	1.51
4247362--4247434	24	3.0	24	89	2	110	28	10	43	16	1.82
4250818--4250899	29	2.8	29	92	1	137	30	14	13	41	1.84
4253741--4253805	17	3.4	19	75	14	62	66	3	0	30	1.07
4253741--4253805	18	3.4	18	76	16	60	66	3	0	30	1.07
4253902--4253941	18	2.2	18	86	0	53	70	0	2	27	1.01
4253956--4253984	9	3.3	9	95	4	51	79	0	0	20	0.74
4255071--4255397	181	1.8	180	86	4	478	37	13	15	33	1.87
4256241--4256281	3	13.7	3	84	0	55	63	0	7	29	1.21
4258260--4258322	31	2.0	31	93	0	108	28	30	7	33	1.86
4261719--4261776	21	2.8	21	94	0	98	43	8	10	37	1.70
4264604--4264658	24	2.3	25	84	6	69	65	5	5	23	1.35
4264647--4264718	25	2.8	26	77	12	69	73	1	11	13	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4265154--4265261	20	5.4	20	93	0	171	26	29	20	23	1.99
4265273--4265343	20	3.5	20	77	11	90	35	25	8	30	1.86
4265258--4265344	41	2.1	41	95	0	156	36	25	9	28	1.87
4265258--4265344	20	4.2	21	73	12	74	36	25	9	28	1.87
4265459--4265502	22	2.0	22	82	8	54	25	38	6	29	1.81
4266523--4266559	14	2.6	14	95	4	65	48	21	21	8	1.76
4268290--4268327	19	2.0	19	100	0	76	15	10	21	52	1.72
4268339--4268618	20	14.9	20	72	14	202	33	19	20	26	1.97
4268407--4268501	34	2.8	34	79	6	111	37	21	20	21	1.94
4268350--4268601	128	2.0	128	84	0	333	34	19	21	24	1.96
4268341--4268646	148	2.1	147	82	4	366	33	20	20	25	1.97
4268639--4268693	20	2.8	20	82	0	56	16	20	23	40	1.91
4270247--4270319	21	3.5	20	77	3	74	20	24	32	21	1.97
4270247--4270369	42	2.9	42	80	7	133	25	22	31	20	1.98
4270267--4270365	21	4.8	20	76	8	90	25	24	29	21	1.99
4270684--4270731	20	2.4	20	96	0	87	37	27	20	14	1.92
4270757--4270810	20	2.8	19	83	8	74	50	18	18	12	1.78
4270867--4270935	20	3.5	20	87	0	93	18	20	26	34	1.96
4274703--4274775	20	3.8	20	78	5	78	42	23	17	16	1.89
4275179--4275220	22	1.9	22	100	0	84	19	14	42	23	1.87
4275417--4275487	20	3.5	20	90	0	97	25	21	25	28	1.99
4275455--4275537	41	2.0	41	88	0	121	33	16	22	26	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4281471--4281500	13	2.2	14	94	5	53	76	0	0	23	0.78
4282743--4282787	14	3.1	14	87	3	63	75	0	2	22	0.91
4282823--4282962	30	4.5	31	76	14	119	45	6	4	44	1.49
4282886--4283145	36	7.3	35	76	16	205	43	6	4	46	1.49
4282878--4283086	106	2.0	105	83	8	264	41	6	4	47	1.51
4282888--4283144	34	7.2	35	74	15	170	43	6	4	45	1.49
4282992--4283143	71	2.1	73	86	3	209	44	6	3	46	1.46
4283132--4283174	2	22.0	2	90	4	70	46	0	2	51	1.13
4283234--4283271	2	19.0	2	94	0	67	47	0	2	50	1.15
4283139--4283330	97	2.0	97	100	0	384	47	4	12	35	1.61
4286565--4286657	20	4.7	20	89	0	132	25	29	21	23	1.99
4286851--4286901	22	2.3	22	86	0	75	21	43	13	21	1.87
4287238--4287295	19	3.0	19	85	5	80	46	22	18	12	1.82
4287242--4287350	40	2.8	40	87	1	148	39	23	19	17	1.92
4287242--4287349	20	5.4	20	83	5	130	38	24	19	17	1.92
4287396--4287487	32	2.8	34	78	6	98	15	25	18	41	1.89
4287482--4287530	20	2.4	21	90	10	84	14	14	26	44	1.83
4289452--4289500	20	2.5	20	89	0	71	46	22	14	16	1.82
4289596--4289642	20	2.5	19	89	6	69	14	19	27	38	1.91
4290137--4290206	21	3.3	20	73	11	61	24	41	14	20	1.89
4290127--4290218	42	2.2	42	88	0	139	21	42	14	21	1.88
4291798--4291834	19	1.9	19	94	0	65	48	24	16	10	1.77
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4291838--4291942	20	5.7	19	80	14	87	12	21	23	41	1.87
4291894--4291950	20	2.8	20	100	0	114	15	19	24	40	1.90
4292518--4292574	6	9.5	6	80	0	60	52	12	3	31	1.55
4292518--4292582	24	2.7	24	97	0	121	49	15	3	32	1.60
4296054--4296268	20	10.8	20	84	1	234	26	21	25	25	2.00
4296072--4296268	60	3.3	60	84	0	268	27	22	25	24	2.00
4296259--4296301	21	2.0	22	90	4	70	18	13	20	46	1.83
4296308--4296347	21	1.9	21	89	0	62	40	22	27	10	1.86
4309422--4309459	19	2.0	20	94	5	69	15	21	31	31	1.94
4309381--4309538	64	2.5	61	80	11	178	26	16	25	31	1.97

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