genome.fa.s8824.2.7.7.80.10.50.1000.18.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: VEPZ01008824.1 Hibiscus syriacus cultivar Beakdansim tig00111996_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4603428

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

This is table  18  of  19  ( 2203 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)
4111568--4111631	21	3.0	21	88	0	92	34	20	7	37	1.81
4112418--4112594	90	2.0	89	90	1	282	37	11	6	44	1.67
4114594--4114621	14	2.0	14	100	0	56	35	0	42	21	1.53
4115744--4115785	22	1.9	22	85	9	59	40	19	0	40	1.51
4119317--4119379	19	3.3	19	66	16	58	31	0	30	38	1.58
4119302--4119383	38	2.2	38	100	0	164	34	0	29	36	1.58
4130639--4130677	10	3.7	10	86	6	51	20	41	12	25	1.88
4137646--4137696	19	2.6	20	90	3	77	43	5	15	35	1.71
4138585--4138644	30	2.0	31	86	3	86	53	10	8	28	1.63
4140543--4140664	40	3.0	40	100	0	244	32	27	17	22	1.96
4146171--4146227	27	2.1	27	100	0	114	42	21	10	26	1.85
4147322--4147500	53	3.8	47	78	14	172	32	22	7	37	1.83
4147605--4147726	40	3.0	40	96	0	217	32	26	17	23	1.96
4152652--4152681	6	5.0	6	95	0	51	30	33	20	16	1.94
4153273--4153329	27	2.1	27	100	0	114	42	21	10	26	1.85
4154429--4154606	52	3.8	47	79	13	170	32	21	7	38	1.81
4154711--4154833	40	3.0	40	96	1	219	32	26	16	25	1.96
4165113--4165184	30	2.4	30	90	0	108	31	15	27	25	1.95
4166436--4166494	21	2.8	21	97	2	109	38	5	11	44	1.63
4175552--4175594	18	2.6	16	88	7	59	9	18	2	69	1.26
4180907--4180949	20	2.2	20	87	4	61	48	9	9	32	1.67
4184963--4185019	28	2.0	28	100	0	114	40	14	21	24	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4186232--4186271	16	2.4	17	87	4	55	70	2	17	10	1.27
4186380--4186808	111	3.9	110	86	4	574	31	15	21	31	1.95
4186858--4186932	34	2.2	34	80	4	89	30	14	21	33	1.93
4186810--4187045	113	2.1	113	88	0	346	29	16	20	33	1.95
4186971--4187243	34	8.0	34	88	4	399	29	17	20	32	1.95
4188663--4188692	5	6.0	5	100	0	60	60	20	0	20	1.37
4192703--4192744	14	2.9	14	85	3	57	26	21	30	21	1.98
4195464--4195494	2	15.5	2	100	0	62	51	0	0	48	1.00
4195843--4196049	105	2.0	105	100	0	414	11	25	11	51	1.71
4196360--4196386	3	9.0	3	100	0	54	66	0	0	33	0.92
4198803--4198865	2	31.5	2	96	0	117	49	0	1	49	1.10
4200964--4201013	20	2.4	21	80	12	59	58	6	8	28	1.51
4204151--4204200	19	2.5	20	90	6	75	46	6	12	36	1.66
4212841--4212905	27	2.3	29	82	12	82	10	15	13	60	1.60
4219713--4219758	21	2.2	21	85	11	60	19	36	17	26	1.94
4223361--4223413	24	2.3	22	81	9	61	60	15	16	7	1.57
4224629--4224676	23	2.1	24	81	14	57	33	18	16	31	1.94
4235468--4235519	24	2.2	24	85	0	68	19	19	17	44	1.87
4244888--4244932	16	3.0	15	87	9	65	75	0	22	2	0.91
4244888--4244944	21	2.7	21	81	13	71	73	0	24	1	0.92
4244899--4244940	16	2.6	16	81	11	50	78	0	19	2	0.86
4248751--4248807	19	3.0	18	75	14	53	15	19	0	64	1.28
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4251277--4251319	23	1.9	21	81	13	50	37	11	18	32	1.87
4252635--4252688	23	2.2	25	87	6	76	9	16	12	61	1.56
4259676--4259707	15	2.1	16	88	11	50	62	0	3	34	1.11
4263042--4263071	14	2.1	14	100	0	60	36	0	43	20	1.52
4264192--4264233	22	1.9	22	85	9	59	40	19	0	40	1.51
4265064--4265107	11	4.1	12	75	24	53	20	15	0	63	1.31
4265067--4265105	20	2.0	19	95	5	69	15	17	0	66	1.25
4268567--4268594	14	2.0	14	100	0	56	35	0	42	21	1.53
4271450--4271492	21	2.0	21	100	0	86	13	18	34	32	1.90
4284115--4284156	5	8.6	5	84	5	59	2	16	2	78	0.96
4284115--4284153	14	2.7	15	88	4	53	2	17	2	76	1.01
4301014--4301067	19	2.8	19	83	8	74	3	12	1	81	0.91
4303192--4303229	20	1.9	19	89	5	58	28	31	0	39	1.57
4305229--4305272	21	2.1	21	83	8	54	20	18	20	40	1.91
4305310--4305352	21	2.0	21	86	0	59	25	16	20	37	1.93
4308148--4308191	22	2.0	22	90	0	70	27	18	20	34	1.96
4315142--4315216	16	5.1	15	76	15	54	42	4	2	50	1.35
4315143--4315194	2	28.0	2	75	21	51	46	3	0	50	1.20
4319949--4319974	5	5.2	5	100	0	52	0	19	0	80	0.71
4324557--4324610	11	5.1	10	76	12	54	1	14	3	79	0.95
4324557--4324608	19	2.7	19	80	14	63	1	15	3	78	0.98
4330784--4330846	28	2.2	28	78	10	74	60	14	17	7	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4330839--4330867	15	2.0	15	93	6	51	75	3	20	0	0.94
4333566--4333595	13	2.4	13	94	5	53	43	0	30	26	1.55
4335398--4335570	91	1.9	91	91	0	283	21	26	22	29	1.99
4340704--4340777	34	2.2	32	79	13	78	5	14	5	74	1.18
4341044--4341094	19	2.7	19	85	14	70	60	0	15	23	1.35
4342537--4342575	20	2.0	19	85	5	51	46	10	12	30	1.75
4348549--4348597	19	2.5	20	78	21	59	24	8	0	67	1.18
4348867--4348899	8	4.1	8	100	0	66	75	0	24	0	0.80
4348859--4348906	13	3.7	13	82	15	55	77	0	22	0	0.78
4348859--4348909	16	3.1	16	75	16	50	76	0	23	0	0.79
4352983--4353032	13	3.8	13	78	5	55	76	4	18	2	1.04
4352986--4353032	18	2.6	18	86	10	60	74	4	19	2	1.09
4356867--4356915	19	2.5	20	78	21	59	24	8	0	67	1.18
4357077--4357124	23	2.1	23	92	0	78	31	22	20	25	1.98
4358950--4358981	13	2.5	13	95	5	57	34	0	40	25	1.56
4365652--4365823	91	1.9	91	81	4	213	23	26	20	29	1.99
4369412--4369436	13	1.9	13	100	0	50	40	0	32	28	1.57
4376212--4376251	9	4.4	9	83	0	53	0	10	15	75	1.05
4376212--4376265	11	5.5	10	79	16	60	0	11	16	72	1.12
4376212--4376272	19	3.2	19	75	13	63	0	9	14	75	1.04
4376236--4376264	12	2.5	12	94	5	51	0	13	10	75	1.04
4376212--4376289	37	2.1	37	85	7	104	1	7	12	78	1.02
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4376258--4376289	15	2.1	16	94	5	57	3	0	6	90	0.53
4396270--4396312	20	2.2	20	87	4	61	34	9	6	48	1.62
4397294--4397351	15	3.6	16	79	9	57	17	18	0	63	1.31
4400424--4400466	20	2.2	20	87	4	61	34	9	6	48	1.62
4405601--4405668	35	1.9	36	93	3	120	29	2	36	30	1.72
4410771--4410808	18	2.1	18	85	9	51	5	15	2	76	1.08
4411257--4411324	35	1.9	36	91	8	113	30	2	36	29	1.72
4418754--4418821	35	1.9	36	93	3	120	29	2	36	30	1.72
4419161--4419216	20	2.8	20	94	0	103	39	5	16	39	1.71
4421785--4421820	9	4.1	9	89	7	56	86	0	0	13	0.58
4421785--4421820	8	4.4	8	92	3	54	86	0	0	13	0.58
4421785--4421820	17	2.1	17	94	0	63	86	0	0	13	0.58
4422784--4422856	35	2.0	37	89	5	114	30	5	34	30	1.80
4425000--4425047	23	2.0	24	84	11	64	27	25	12	35	1.92
4428688--4428722	5	7.2	5	90	3	54	0	20	2	77	0.90
4432255--4432297	20	2.2	20	87	4	61	34	9	6	48	1.62
4432636--4432743	35	3.1	35	82	9	130	25	34	3	36	1.74
4432771--4432797	11	2.5	11	100	0	54	25	37	0	37	1.57
4440341--4440389	19	2.5	20	78	21	59	24	8	0	67	1.18
4440668--4440700	8	4.1	8	96	0	57	75	0	21	3	0.93
4440675--4440714	13	3.1	12	86	13	53	77	0	22	0	0.77
4441271--4441319	19	2.5	20	78	21	59	24	8	0	67	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4443345--4443372	14	2.0	14	100	0	56	35	0	42	21	1.53
4452711--4452753	21	2.0	21	86	8	61	0	20	2	76	0.89
4459922--4459967	3	14.7	3	86	8	65	36	0	0	63	0.95
4468959--4468995	16	2.3	17	81	13	51	18	16	0	64	1.29
4468972--4469010	15	2.5	16	87	4	53	17	15	0	66	1.25
4475626--4475655	13	2.4	13	94	5	53	26	30	0	43	1.55
4478692--4478726	2	17.5	2	100	0	70	51	0	0	48	1.00
4480029--4480068	19	2.0	20	86	13	57	22	10	0	67	1.20
4480025--4480071	19	2.5	19	81	18	55	21	10	0	68	1.20
4480334--4480382	13	3.8	12	80	19	55	75	2	20	2	1.00

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