genome.fa.s2890.2.7.7.80.10.50.1000.18.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: VEPZ01002890.1 Hibiscus syriacus cultivar Beakdansim tig00005974_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5046466

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  18  of  21  ( 2516 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)
4185114--4185140	14	1.9	14	100	0	54	44	22	14	18	1.86
4185577--4185656	24	3.5	24	69	20	73	22	25	22	30	1.99
4190524--4190554	14	2.2	14	100	0	62	35	35	0	29	1.58
4199482--4199521	6	6.5	6	82	5	53	15	7	0	77	0.98
4201933--4201971	20	2.0	20	89	0	60	33	17	10	38	1.84
4209946--4209983	20	1.9	20	88	0	58	34	18	10	36	1.85
4220365--4220716	45	7.8	45	90	0	515	30	18	8	42	1.80
4221193--4221243	19	2.7	19	90	0	75	19	19	27	33	1.96
4222043--4222098	28	2.0	28	100	0	112	32	14	7	46	1.71
4226014--4226124	44	2.4	47	86	5	156	39	8	20	31	1.82
4226014--4226132	48	2.6	44	83	8	157	39	7	21	31	1.81
4226514--4226538	12	2.1	12	100	0	50	36	16	16	32	1.90
4230331--4230368	20	1.9	20	94	0	67	44	10	23	21	1.83
4230331--4230374	20	2.3	19	88	7	63	45	9	25	20	1.80
4230519--4230553	15	2.4	15	90	4	54	60	0	0	40	0.97
4236241--4236292	15	3.8	13	82	12	52	26	5	1	65	1.26
4236666--4237262	139	4.3	138	84	4	691	31	14	12	41	1.82
4238527--4238552	3	8.7	3	100	0	52	34	0	0	65	0.93
4239454--4239528	9	8.4	8	72	19	51	76	1	4	18	1.02
4239456--4239524	16	4.4	16	67	12	54	76	1	4	17	1.02
4239451--4239548	29	3.4	29	75	17	105	73	1	6	19	1.10
4239548--4239572	2	12.5	2	100	0	50	52	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4239562--4239652	40	2.3	41	84	9	125	65	4	1	28	1.18
4239642--4239667	2	13.0	2	100	0	52	50	0	0	50	1.00
4239674--4239728	23	2.3	24	81	6	58	72	3	7	16	1.21
4240854--4240969	33	3.4	33	84	3	151	32	7	17	42	1.78
4241023--4241314	37	8.1	37	79	11	320	38	13	20	27	1.90
4241023--4241314	73	4.1	72	79	11	332	38	13	20	27	1.90
4241196--4241339	37	3.9	37	83	8	159	35	12	21	30	1.91
4240959--4241309	177	2.0	175	87	6	503	39	12	21	27	1.89
4241932--4242015	32	2.6	32	86	0	114	33	21	15	29	1.94
4243077--4243125	14	3.5	13	84	13	55	2	12	4	81	0.91
4246054--4246164	22	5.1	20	72	22	73	73	0	4	20	1.06
4246059--4246157	12	8.7	12	71	10	66	75	1	4	19	1.01
4246058--4246166	10	11.2	10	73	14	59	74	0	3	21	1.03
4246081--4246142	9	7.2	8	75	17	54	79	1	3	16	0.95
4246113--4246262	38	4.1	37	75	18	95	64	2	2	30	1.18
4246823--4246963	37	3.8	37	94	0	237	30	14	14	41	1.85
4246825--4246982	74	2.1	74	86	1	208	30	13	13	41	1.84
4247661--4247695	15	2.3	15	90	5	52	25	8	0	65	1.21
4248898--4248985	10	8.0	12	68	28	54	47	0	1	51	1.08
4248937--4248965	14	2.0	15	93	6	51	41	0	0	58	0.98
4251661--4251802	70	2.0	70	100	0	284	38	12	15	33	1.85
4255303--4255422	63	1.9	63	84	6	163	42	9	7	40	1.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4265408--4265571	82	2.0	82	93	0	283	35	18	18	26	1.94
4273896--4274209	157	2.0	157	100	0	628	29	14	27	28	1.95
4281817--4281864	12	4.2	12	81	10	55	0	14	0	85	0.60
4281817--4281853	18	2.1	18	94	0	65	0	13	0	86	0.57
4284522--4284589	34	2.0	34	100	0	136	20	29	14	35	1.93
4285598--4285762	90	1.8	89	94	1	294	41	9	4	44	1.59
4285724--4285793	20	3.3	21	70	16	63	51	4	1	42	1.30
4292431--4292886	228	2.0	228	96	0	842	32	13	14	39	1.85
4293617--4293865	21	12.0	21	71	14	203	35	24	19	20	1.96
4293624--4293859	42	5.7	42	92	1	395	36	24	19	20	1.95
4293853--4293904	20	2.6	20	100	0	104	38	17	21	23	1.93
4294189--4294276	2	45.0	2	95	4	162	48	0	0	51	1.00
4298452--4298503	22	2.3	23	87	9	72	32	26	23	17	1.96
4302169--4302211	18	2.4	18	88	3	61	23	13	13	48	1.79
4302169--4302218	18	2.8	18	81	6	57	24	12	16	48	1.79
4303041--4303067	12	2.2	12	100	0	54	14	22	29	33	1.94
4306546--4306679	58	2.3	60	76	7	141	25	29	26	18	1.98
4307098--4307124	13	2.1	13	100	0	54	48	14	7	29	1.71
4308845--4308888	20	2.2	20	91	0	70	27	11	27	34	1.91
4312323--4312401	21	3.7	21	66	21	56	21	17	26	34	1.96
4312323--4312407	44	1.9	44	92	0	143	23	17	25	32	1.97
4314146--4314222	24	3.2	24	98	0	145	24	35	15	24	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4317147--4317218	20	3.6	20	96	0	135	30	18	23	27	1.97
4317872--4317930	23	2.6	23	88	0	91	20	20	25	33	1.97
4323249--4323343	21	4.5	21	74	10	77	25	12	21	41	1.88
4323368--4323408	21	2.0	21	90	0	64	24	21	21	31	1.98
4324928--4324972	21	2.2	20	84	8	54	51	0	2	46	1.13
4328016--4328102	44	2.0	44	90	0	138	22	17	25	34	1.96
4328017--4328089	21	3.4	21	68	20	60	20	15	27	36	1.92
4333839--4333998	73	2.2	73	89	0	248	25	25	25	23	2.00
4336030--4336073	23	1.9	23	90	0	70	22	20	27	29	1.99
4344749--4344791	16	2.7	16	96	0	77	60	6	13	18	1.55
4357102--4357148	19	2.6	18	83	12	60	65	0	14	19	1.26
4361412--4361444	8	4.1	8	85	14	50	0	24	0	75	0.80
4361407--4361461	19	2.9	19	81	10	67	1	21	1	74	1.01
4361407--4361437	16	1.9	16	93	0	53	0	22	0	77	0.77
4361403--4361444	16	2.6	16	79	20	52	0	26	0	73	0.83
4361715--4361761	19	2.6	18	83	12	60	65	0	14	19	1.26
4369624--4369653	15	2.0	15	93	0	51	33	3	0	63	1.11
4374159--4374200	22	1.9	22	85	9	59	19	21	26	33	1.97
4383640--4383698	24	2.5	24	88	2	93	35	23	22	18	1.96
4383695--4383775	21	3.9	21	88	6	128	35	27	27	9	1.88
4383695--4383775	42	1.9	42	95	5	146	35	27	27	9	1.88
4387274--4387332	24	2.5	24	88	2	93	35	23	22	18	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4387323--4387444	21	5.4	23	73	11	92	34	25	22	17	1.96
4388877--4388901	7	3.6	7	100	0	50	28	0	12	60	1.32
4388977--4389006	13	2.3	13	94	0	51	30	6	3	60	1.39
4391935--4391988	20	2.7	19	76	20	56	20	27	18	33	1.96
4400090--4400547	204	2.2	205	91	0	738	22	16	24	36	1.94
4400087--4400539	100	4.4	104	81	6	530	22	16	23	36	1.94
4400654--4400781	54	2.4	54	95	0	229	24	17	25	32	1.97
4401667--4401725	6	9.8	6	75	14	59	0	20	1	77	0.85
4401667--4401726	24	2.5	23	86	7	84	0	20	1	78	0.84
4401764--4401809	15	3.0	16	78	9	51	0	19	2	78	0.86
4401782--4401807	7	3.7	7	100	0	52	0	23	0	76	0.78
4401764--4401809	7	5.9	8	82	7	51	0	19	2	78	0.86
4405941--4406398	204	2.2	205	93	0	765	22	17	24	36	1.95
4405938--4406390	100	4.4	104	82	7	559	22	17	23	35	1.95
4406399--4406526	66	1.9	66	84	7	168	20	24	25	29	1.99
4407460--4407497	14	2.8	14	85	14	53	0	18	2	78	0.86
4407469--4407515	24	2.0	23	91	4	76	0	23	2	74	0.93
4407559--4407604	8	5.9	8	77	12	51	0	17	2	80	0.81
4407576--4407602	14	1.9	14	100	0	54	0	18	0	81	0.69
4407559--4407604	15	3.0	15	84	12	58	0	17	2	80	0.81
4407484--4407637	81	1.9	82	81	4	186	12	23	7	56	1.61
4410971--4411029	25	2.2	29	79	11	72	47	1	5	45	1.34
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4411768--4412225	204	2.2	205	92	1	749	22	17	24	36	1.94
4411765--4412216	100	4.4	102	80	6	511	21	17	24	36	1.94
4413287--4413347	6	9.8	6	73	19	54	0	19	1	78	0.83
4413287--4413348	15	4.3	14	79	18	65	0	19	1	79	0.82
4413296--4413348	24	2.3	24	90	6	83	0	20	1	77	0.87
4413405--4413430	7	3.7	7	100	0	52	0	23	0	76	0.78
4417569--4418026	204	2.2	205	93	0	765	22	17	24	36	1.94
4417566--4418018	100	4.4	104	81	6	539	22	17	24	36	1.95
4418026--4418154	69	1.9	67	84	4	170	22	24	23	29	1.99
4419086--4419146	6	9.8	6	73	19	54	0	19	1	78	0.83

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