genome.fa.s8719.2.7.7.80.10.50.1000.16.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: VEPZ01008719.1 Hibiscus syriacus cultivar Beakdansim tig00111774_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4817204

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

This is table  16  of  18  ( 2140 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)
4131437--4131487	17	2.9	18	83	11	54	72	0	1	25	0.95
4131446--4131543	9	11.2	9	74	16	50	73	3	4	19	1.13
4131494--4131543	8	6.0	8	80	15	57	80	4	2	14	0.95
4131411--4131563	26	6.1	24	69	15	80	71	1	5	20	1.16
4131586--4131612	4	6.8	4	100	0	54	77	0	0	22	0.76
4132868--4133040	47	3.9	44	78	11	156	28	17	27	26	1.97
4133721--4133910	83	2.3	83	83	3	229	26	20	17	35	1.95
4139076--4139119	9	5.1	8	79	15	52	81	2	0	15	0.78
4140206--4140256	7	7.6	7	84	4	61	52	0	0	47	1.00
4141630--4141672	2	21.5	2	100	0	86	51	0	0	48	1.00
4152564--4152607	21	2.1	21	83	8	54	25	15	18	40	1.90
4163640--4163683	20	2.2	20	91	0	70	25	13	4	56	1.56
4165668--4165710	22	2.0	22	90	0	68	37	9	4	48	1.56
4169946--4170047	33	3.1	32	77	4	87	24	13	14	47	1.81
4170268--4170309	21	2.0	21	85	4	57	16	19	9	54	1.69
4175764--4175789	13	2.0	13	100	0	52	23	15	15	46	1.83
4177599--4177641	15	2.9	15	85	0	59	27	2	32	37	1.70
4178632--4178679	13	3.6	13	77	5	51	60	4	6	29	1.40
4180109--4180142	17	2.0	17	88	0	50	73	2	0	23	0.97
4180453--4180493	20	2.0	20	85	0	55	34	24	14	26	1.94
4183478--4183580	54	1.9	54	88	4	154	18	21	14	45	1.85
4186985--4187065	21	3.8	21	75	18	60	16	24	35	23	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4187005--4187067	21	2.9	21	85	4	72	17	25	34	22	1.95
4193013--4193050	14	2.5	15	87	12	60	68	2	7	21	1.28
4195995--4196019	5	5.0	5	100	0	50	80	0	0	20	0.72
4196634--4196663	12	2.5	12	88	0	51	66	3	23	6	1.30
4209941--4209972	3	11.3	3	87	12	50	34	0	0	65	0.93
4210642--4210696	20	2.8	20	86	5	58	27	30	9	32	1.88
4211045--4211319	146	1.9	146	82	3	347	32	20	26	21	1.97
4218750--4218826	9	9.8	8	78	17	74	75	0	12	11	1.05
4218749--4218837	9	9.8	9	73	18	69	77	0	12	10	0.99
4218753--4218827	39	1.9	38	89	7	116	74	0	13	12	1.07
4218749--4218851	48	2.1	48	80	7	120	77	0	13	8	0.98
4220146--4220425	55	5.1	55	90	1	465	28	14	28	27	1.95
4220146--4220428	108	2.6	110	92	2	489	28	14	28	28	1.95
4220421--4220817	52	7.6	52	94	0	695	28	16	25	29	1.97
4220686--4220888	52	3.8	53	85	5	166	32	18	24	25	1.97
4221075--4221106	3	11.3	3	87	12	50	34	0	0	65	0.93
4221776--4221830	20	2.8	20	88	5	58	27	30	10	30	1.91
4225438--4225470	15	2.2	15	94	0	57	33	39	6	21	1.78
4227002--4227051	20	2.5	20	83	0	64	46	18	20	16	1.85
4227067--4227096	14	2.1	14	93	0	51	50	0	0	50	1.00
4229554--4229603	19	2.4	21	80	9	59	34	14	22	30	1.93
4229946--4230282	54	6.3	54	89	2	516	27	19	20	31	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4230552--4230932	204	1.9	205	86	3	554	32	13	22	32	1.93
4230543--4230947	68	5.9	68	85	1	490	32	13	21	32	1.92
4230993--4231203	46	4.6	46	84	2	264	46	6	24	22	1.75
4230988--4231203	91	2.3	90	83	8	256	47	6	24	21	1.74
4232604--4232634	15	2.0	16	93	6	55	58	0	6	35	1.24
4234890--4234941	20	2.5	21	84	6	70	30	15	32	21	1.94
4235359--4235678	54	5.9	54	89	0	415	30	17	19	32	1.95
4236051--4236230	90	2.0	91	95	1	326	37	12	6	43	1.68
4238291--4238317	2	13.5	2	100	0	54	48	0	0	51	1.00
4245099--4245273	90	1.9	90	94	0	305	36	12	6	45	1.67
4246519--4246836	68	4.7	68	87	0	447	30	14	22	31	1.94
4246901--4247073	46	3.8	45	84	6	186	49	7	20	21	1.73
4246901--4247073	92	1.9	92	84	2	231	49	7	20	21	1.73
4247989--4248029	20	2.0	20	100	0	82	19	0	46	34	1.50
4254651--4254698	22	2.2	22	81	7	53	60	8	2	29	1.37
4256768--4256844	36	2.1	36	85	7	102	48	1	3	46	1.28
4256820--4256867	18	2.7	18	80	9	62	54	4	0	41	1.20
4267451--4267544	42	2.3	41	86	1	125	24	21	23	30	1.99
4267345--4267814	237	2.0	238	88	1	710	32	15	18	33	1.93
4267903--4268005	41	2.5	42	83	1	118	28	20	20	31	1.97
4267833--4268582	260	2.9	257	81	4	855	33	17	15	33	1.91
4271276--4271312	18	2.0	20	89	10	60	64	0	2	32	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4292055--4292179	47	2.8	45	85	7	164	30	22	8	39	1.83
4294759--4294797	21	1.9	20	89	5	60	28	12	20	38	1.89
4299508--4299553	24	1.9	24	100	0	92	30	13	15	41	1.85
4304514--4304548	13	2.6	13	95	4	61	80	8	11	0	0.92
4304513--4304548	14	2.6	14	86	13	56	80	8	11	0	0.90
4304501--4304556	22	2.6	22	77	2	60	83	8	7	0	0.80
4304530--4304576	11	4.4	11	84	15	62	76	12	10	0	1.02
4304501--4304576	32	2.5	31	82	8	93	78	11	9	0	0.95
4320526--4320743	46	4.7	46	87	1	285	22	18	16	42	1.89
4321022--4321414	46	8.6	45	85	3	482	23	18	15	43	1.87
4320257--4321239	496	2.0	496	94	1	1711	28	18	13	39	1.88
4321032--4321410	138	2.8	137	86	1	542	23	18	14	43	1.87
4345107--4345152	23	2.0	24	82	4	58	19	4	10	65	1.41
4345293--4345336	20	2.2	20	84	8	54	47	4	0	47	1.22
4345345--4345395	14	3.7	14	84	5	77	47	0	9	43	1.36
4345335--4345399	27	2.4	27	100	0	130	50	0	10	38	1.37
4346136--4346328	60	3.2	60	97	0	359	29	15	13	40	1.86
4349767--4349943	43	4.2	43	78	4	162	22	20	15	41	1.89
4353856--4353909	23	2.3	23	96	0	99	46	14	16	22	1.84
4357397--4357436	12	3.5	12	75	25	50	5	20	2	72	1.15
4357397--4357458	22	2.7	23	90	7	83	4	22	4	67	1.29
4357397--4357449	22	2.4	22	96	0	97	3	20	5	69	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4356660--4358457	473	3.9	471	77	9	1463	30	22	13	34	1.92
4359350--4359386	12	3.2	12	88	3	58	21	13	16	48	1.80
4359088--4360860	475	3.7	474	79	7	1750	30	22	12	35	1.91
4368419--4368464	23	2.0	23	87	8	67	43	0	4	52	1.21
4369089--4369132	21	2.1	21	83	8	54	61	11	0	27	1.30
4369279--4369337	28	2.1	27	84	12	75	57	0	3	38	1.15
4370732--4370783	26	2.0	26	82	14	63	61	0	9	28	1.27
4371316--4371355	2	21.5	2	85	14	59	47	0	0	52	1.00
4372475--4372538	23	2.7	23	85	7	76	14	3	3	79	0.97
4372441--4372528	8	10.9	8	75	11	54	22	2	3	71	1.12
4372471--4372537	8	7.8	9	75	11	52	14	2	2	79	0.98
4372628--4372654	2	13.5	2	100	0	54	48	0	0	51	1.00
4379238--4379371	47	3.0	45	84	7	164	39	6	20	32	1.79
4384521--4384559	3	13.0	3	100	0	78	33	0	0	66	0.92
4386551--4386696	72	2.1	71	87	5	206	36	8	10	44	1.70
4387418--4387517	46	2.1	49	85	9	136	27	11	19	43	1.84
4397134--4397172	18	2.1	19	85	4	53	74	0	17	7	1.05
4397184--4397243	25	2.5	24	78	8	59	71	1	21	5	1.14
4397226--4397260	7	4.7	7	86	13	52	74	0	14	11	1.08
4397224--4397261	16	2.5	15	95	4	67	73	0	15	10	1.09
4397224--4397261	8	4.9	8	81	18	53	73	0	15	10	1.09
4398512--4398837	51	6.3	51	90	2	427	30	15	26	27	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4398527--4398874	51	6.6	54	91	2	281	31	16	26	26	1.96
4398681--4398874	55	3.6	54	88	4	168	31	17	23	27	1.96
4399516--4399556	3	14.0	3	94	5	75	34	0	0	65	0.93
4401538--4401684	72	2.0	72	86	2	206	36	8	9	45	1.67
4403435--4403472	6	6.7	6	91	8	62	73	0	15	10	1.09
4403435--4403472	11	3.4	11	92	7	67	73	0	15	10	1.09
4405209--4405255	17	2.8	17	77	9	51	40	4	2	53	1.32
4406358--4406387	16	1.9	16	93	6	53	20	0	6	73	1.05
4406523--4406553	2	15.5	2	93	0	53	48	3	0	48	1.17
4411577--4411620	20	2.2	20	84	8	54	38	13	15	31	1.87

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