genome.fa.s8428.2.7.7.80.10.50.1000.19.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: VEPZ01008428.1 Hibiscus syriacus cultivar Beakdansim tig00111213_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6915314

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   

This is table  19  of  30  ( 3508 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)
4355667--4355737	33	2.2	33	92	0	115	9	22	23	43	1.83
4355678--4355759	33	2.5	33	87	2	110	10	25	20	42	1.85
4355858--4355928	33	2.2	33	92	0	115	47	18	22	11	1.80
4356110--4356163	22	2.5	21	78	3	63	20	16	38	24	1.92
4356309--4356501	20	9.6	20	82	5	219	19	19	25	35	1.95
4356309--4356501	60	3.2	60	83	0	251	19	19	25	35	1.95
4356557--4356608	20	2.6	20	96	0	95	21	13	26	38	1.90
4358432--4358460	13	2.1	14	93	6	51	48	27	0	24	1.51
4361866--4361912	18	2.5	19	75	6	51	63	2	6	27	1.30
4369675--4369842	55	3.0	55	82	6	214	35	11	19	33	1.89
4370018--4370274	68	3.8	68	89	3	372	31	14	22	31	1.93
4370018--4370274	137	1.9	136	87	2	381	31	14	22	31	1.93
4370224--4370461	81	2.9	81	83	0	296	36	10	22	31	1.88
4370430--4370519	29	3.1	28	85	6	117	47	5	20	26	1.71
4370349--4370629	139	2.0	139	88	0	418	39	9	22	28	1.85
4370569--4370629	29	2.1	29	96	0	113	42	8	24	24	1.82
4370459--4370795	110	3.1	110	89	1	489	39	9	22	28	1.86
4370679--4370739	29	2.1	29	96	0	113	44	9	22	22	1.82
4373478--4373506	12	2.4	12	100	0	58	13	6	0	79	0.93
4380316--4380354	20	2.0	20	89	0	60	33	10	23	33	1.88
4385577--4385744	55	3.0	54	84	6	212	33	11	22	32	1.90
4385919--4386242	68	4.8	68	92	0	531	29	14	24	31	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4386192--4386429	81	2.9	80	88	2	334	34	10	23	30	1.90
4386398--4386487	29	3.1	29	93	3	146	45	7	21	25	1.78
4386537--4386597	29	2.1	29	90	0	95	44	6	22	26	1.77
4386317--4386597	139	2.0	139	90	0	445	37	9	23	29	1.87
4386427--4386707	110	2.6	110	90	0	445	38	9	22	29	1.86
4386647--4386736	29	3.1	29	83	0	117	47	7	18	25	1.75
4389159--4389183	8	3.1	8	100	0	50	64	0	0	36	0.94
4390217--4390254	18	2.1	19	90	5	60	34	31	10	23	1.89
4390238--4390289	25	2.1	25	100	0	104	23	23	15	38	1.92
4390217--4390267	19	2.7	19	87	3	68	29	27	13	29	1.94
4394434--4394477	11	3.7	11	87	9	52	13	0	27	59	1.35
4398105--4398149	23	1.9	23	86	4	63	40	2	2	55	1.24
4400857--4401023	78	2.1	78	91	2	273	29	17	20	31	1.96
4407268--4407317	17	3.0	16	85	8	64	40	2	0	58	1.10
4409419--4409464	14	3.1	14	93	6	74	52	17	15	15	1.76
4422285--4422388	29	3.5	28	81	13	102	44	2	6	46	1.44
4424868--4424926	24	2.6	22	78	19	68	28	18	20	32	1.96
4426357--4426622	36	7.5	36	74	19	231	43	3	6	46	1.46
4426493--4426552	25	2.4	25	88	0	93	41	8	8	41	1.65
4426419--4426621	100	2.0	98	82	8	241	42	4	6	46	1.49
4426466--4426587	63	1.9	65	84	5	167	40	4	6	48	1.51
4426543--4426570	14	2.0	14	100	0	56	35	7	7	50	1.57
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4427390--4427469	32	2.5	32	89	2	126	17	32	40	10	1.83
4427968--4428014	22	2.1	22	84	7	60	12	12	0	74	1.07
4428023--4428054	15	2.1	15	94	0	55	28	0	0	71	0.86
4428047--4428072	3	8.7	3	100	0	52	30	0	0	69	0.89
4432576--4432623	21	2.2	21	77	3	51	33	31	20	14	1.93
4437903--4437942	12	3.5	12	83	13	57	42	17	22	17	1.89
4438630--4438739	31	3.5	31	91	0	166	40	20	17	20	1.91
4444264--4444296	17	1.9	17	88	11	50	39	3	15	42	1.62
4446093--4446212	60	2.0	60	95	0	213	34	23	11	30	1.90
4446265--4446290	2	13.0	2	100	0	52	50	0	0	50	1.00
4456281--4456410	60	2.2	60	80	8	149	43	4	20	31	1.72
4456575--4456605	16	1.9	16	93	0	53	19	6	25	48	1.72
4456817--4456848	17	1.9	17	93	6	57	59	0	0	40	0.97
4458019--4458047	13	2.2	13	100	0	58	24	13	48	13	1.79
4468099--4468158	21	2.8	21	97	2	111	21	5	23	50	1.68
4469771--4469827	3	18.7	3	82	10	71	70	0	1	28	0.98
4469771--4469827	22	2.6	22	88	2	89	70	0	1	28	0.98
4469770--4469829	19	3.2	19	84	9	79	70	0	1	28	0.97
4470644--4470688	21	2.1	21	87	0	63	31	28	24	15	1.96
4470717--4470761	22	2.0	22	86	4	63	31	33	26	8	1.87
4472058--4472186	32	4.1	31	77	10	136	27	18	20	33	1.96
4472058--4472166	31	3.5	31	81	7	130	28	18	18	34	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4472060--4472189	63	2.1	62	84	8	174	27	20	20	32	1.97
4472172--4472244	30	2.4	30	95	0	128	24	20	24	30	1.99
4472962--4473049	37	2.4	36	83	5	115	48	4	4	42	1.44
4473001--4473126	66	1.9	65	85	7	175	47	7	3	41	1.48
4473072--4473200	40	3.4	37	75	15	122	44	8	3	44	1.50
4474056--4474089	17	2.1	16	88	5	50	76	0	8	14	1.01
4483840--4483869	15	2.1	14	93	6	51	66	13	6	13	1.43
4485664--4486732	84	12.9	84	80	5	992	25	19	23	31	1.98
4485668--4486732	249	4.3	249	85	3	1290	25	19	23	31	1.98
4485652--4486732	333	3.3	330	79	5	1110	25	19	23	31	1.98
4491866--4491964	20	4.9	20	70	10	69	70	2	5	22	1.17
4491922--4491964	10	4.4	10	80	13	54	79	2	2	16	0.95
4492028--4492058	2	16.0	2	93	6	55	51	0	0	48	1.00
4492709--4492773	3	21.0	3	84	6	85	67	0	1	30	1.00
4492709--4492773	25	2.6	25	90	0	94	67	0	1	30	1.00
4492824--4493033	38	5.8	38	76	14	185	45	5	4	44	1.47
4492819--4493007	71	2.5	78	81	9	225	42	6	4	46	1.48
4502102--4502178	3	25.7	3	94	0	136	64	0	2	32	1.07
4502239--4502378	58	2.3	60	76	8	142	38	6	5	49	1.52
4502559--4502604	2	22.5	2	95	4	83	47	0	2	50	1.13
4507394--4507420	10	2.7	10	100	0	54	88	0	0	11	0.50
4512659--4512712	22	2.5	22	78	0	63	40	24	7	27	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4512987--4513053	6	11.2	6	96	0	125	34	47	16	1	1.56
4513051--4513134	5	16.8	5	83	4	98	20	34	39	5	1.77
4518999--4519053	6	9.2	6	95	0	92	30	49	16	3	1.63
4519051--4519099	5	9.8	5	93	0	71	22	34	40	2	1.66
4521991--4522047	28	2.0	28	96	0	105	29	19	17	33	1.95
4524938--4524980	21	2.0	21	86	0	59	69	2	4	23	1.18
4524976--4525007	14	2.4	14	94	5	57	68	0	0	31	0.90
4525473--4525519	23	2.0	23	95	0	85	65	0	6	27	1.16
4526818--4526879	3	20.3	3	86	3	88	59	0	0	40	0.97
4527135--4527861	45	15.8	45	89	4	988	31	19	22	26	1.98
4528461--4529052	45	12.8	46	86	4	714	32	19	21	26	1.97
4528461--4529052	92	6.4	92	85	5	737	32	19	21	26	1.97
4538328--4538415	46	1.9	46	90	4	142	29	18	12	39	1.87
4539682--4539724	21	2.0	21	86	0	59	69	2	4	23	1.18
4539720--4539751	14	2.4	14	94	5	57	68	0	0	31	0.90
4540216--4540262	23	2.0	23	95	0	85	65	0	6	27	1.16
4541561--4541616	3	18.3	3	88	3	85	60	0	0	39	0.97
4541871--4542502	45	13.8	45	88	5	817	31	19	22	26	1.98
4541871--4542502	137	4.6	136	86	6	814	31	19	22	26	1.98
4541871--4542486	92	6.7	90	88	5	769	31	19	21	26	1.98
4543173--4543251	22	3.6	22	89	0	113	39	12	15	32	1.85
4551746--4551833	46	1.9	46	90	4	142	30	18	11	39	1.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
4553812--4553853	15	2.7	16	78	14	52	45	14	4	35	1.66
4556073--4556128	25	2.4	23	85	11	78	41	10	7	41	1.67
4556081--4556130	25	2.0	25	100	0	100	40	12	8	40	1.72
4561613--4561689	32	2.4	32	91	6	122	31	9	15	44	1.78
4561692--4561866	67	2.5	67	81	10	176	38	12	21	26	1.89
4561760--4562212	36	12.8	36	77	14	451	40	13	19	27	1.88
4561760--4561917	73	2.2	72	86	4	212	41	13	18	25	1.88
4561948--4562017	21	3.7	20	65	21	51	40	11	20	28	1.87
4561829--4562019	101	1.9	102	85	3	269	42	12	17	27	1.85
4561693--4562231	178	3.0	178	89	3	811	39	12	19	28	1.88

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30