genome.fa.s9330.2.7.7.80.10.50.1000.3.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: VEPZ01009330.1 Hibiscus syriacus cultivar Beakdansim tig00113096_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1820295

Tables:   1   2   3   4   5   6   7   8   

This is table  3  of  8  ( 950 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)
425084--425459	185	2.0	187	98	1	738	30	13	23	32	1.93
425027--425527	253	2.0	255	87	1	738	31	13	23	31	1.94
425719--425829	45	2.4	45	84	1	150	44	6	23	26	1.77
430853--430926	30	2.4	30	76	14	80	29	21	33	14	1.94
431201--431242	20	2.1	20	90	0	66	33	21	11	33	1.90
432743--432839	46	2.1	46	90	0	149	24	15	11	48	1.78
433068--433406	55	6.2	55	94	0	570	34	18	12	33	1.89
435336--435479	34	3.9	34	76	18	144	27	25	11	36	1.90
435370--435946	45	14.3	44	69	22	403	27	25	11	35	1.90
435327--435919	79	7.5	79	94	0	979	27	25	11	35	1.90
436337--436442	46	2.3	46	87	8	135	25	22	7	44	1.79
436392--437046	79	8.3	79	93	0	1094	27	24	12	36	1.91
437550--437609	22	2.7	22	89	0	93	33	15	13	38	1.86
449685--449730	21	2.2	21	96	0	83	30	41	17	10	1.84
452382--452437	29	1.9	29	81	0	67	37	7	19	35	1.79
453645--453680	17	2.1	17	89	0	54	36	0	2	61	1.11
460173--460223	16	2.9	18	75	16	52	49	21	3	25	1.67
460227--460311	40	2.1	40	82	4	100	42	8	17	31	1.79
460297--460389	46	2.0	48	83	8	120	56	1	4	37	1.26
460353--460420	29	2.4	29	76	11	70	47	2	4	45	1.38
467360--467474	61	1.9	61	92	0	194	23	19	27	29	1.98
468058--468110	22	2.4	22	87	0	70	20	26	16	35	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
470323--470390	29	2.3	29	84	0	82	41	23	7	27	1.81
470463--470505	18	2.4	18	96	0	77	11	20	51	16	1.75
470438--470486	13	3.8	13	100	0	98	12	22	48	16	1.79
472006--472332	166	2.0	161	96	3	609	35	22	15	26	1.94
477813--477880	29	2.3	29	84	0	82	41	23	7	27	1.81
477833--477938	29	3.7	29	90	0	158	42	24	9	23	1.83
477969--478011	18	2.4	18	88	0	68	13	20	48	16	1.80
477956--477992	13	2.8	13	95	0	65	13	24	45	16	1.83
482821--482869	24	2.0	24	100	0	98	34	8	20	36	1.82
490291--490393	30	3.4	29	77	10	100	27	0	17	54	1.49
490290--490388	31	3.3	30	76	11	94	24	1	17	57	1.46
494187--494262	2	38.0	2	100	0	152	50	0	0	50	1.00
496234--496307	23	3.3	22	77	7	69	27	21	24	27	1.99
496244--496312	23	3.1	23	72	8	70	28	21	23	26	1.99
500118--500157	21	1.9	21	89	0	62	30	7	7	55	1.56
506462--506507	18	2.5	18	78	3	56	58	0	4	36	1.18
508968--509030	16	4.1	16	70	15	60	63	1	1	33	1.13
510790--510824	15	2.3	15	90	0	52	28	0	31	40	1.57
511034--511108	25	3.0	23	81	9	78	24	26	20	29	1.99
511113--511159	24	2.0	24	87	8	69	23	17	25	34	1.96
512517--512565	20	2.5	20	96	0	89	40	16	20	22	1.91
512664--512719	18	2.9	19	76	19	62	35	12	26	25	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
513232--513266	15	2.3	15	90	0	52	28	0	31	40	1.57
513336--513405	30	2.3	30	92	0	113	30	5	24	40	1.78
513505--513602	24	4.1	24	79	10	103	22	23	22	31	1.98
513513--513578	25	2.7	25	85	2	98	24	22	22	30	1.99
541651--541842	93	2.1	93	90	0	303	32	21	13	32	1.92
545147--545290	72	2.0	72	97	0	270	18	13	18	50	1.78
550938--550970	2	16.5	2	100	0	66	51	0	0	48	1.00
551112--551156	23	2.0	23	82	8	56	42	6	2	48	1.41
551396--551452	27	2.2	26	90	3	87	61	0	0	38	0.96
551513--551546	15	2.4	14	90	5	50	50	2	0	47	1.16
551507--551570	22	2.9	22	77	9	67	57	1	0	40	1.08
552863--552898	16	2.2	17	95	5	65	41	5	19	33	1.75
553122--553317	107	1.8	108	90	3	315	36	12	13	37	1.83
553127--553392	107	2.5	107	82	5	293	39	12	11	36	1.80
554229--554392	75	2.2	75	86	0	220	32	13	11	42	1.80
555169--555244	30	2.5	30	91	0	125	25	22	28	23	1.99
558827--558965	31	4.6	31	82	9	171	38	5	8	47	1.58
558827--558944	62	1.9	62	94	3	211	38	5	9	46	1.60
558927--559051	14	8.9	14	72	11	87	43	4	4	48	1.43
558920--559007	42	2.1	42	89	4	133	39	5	5	48	1.50
558803--558965	31	5.4	28	71	15	103	38	5	7	47	1.56
558955--559049	28	3.4	28	88	0	145	43	4	5	47	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
558889--559035	70	2.1	73	89	3	228	40	5	5	48	1.49
558920--559021	42	2.4	42	83	6	118	42	4	4	48	1.46
561525--561591	33	2.2	29	85	15	84	41	23	17	16	1.89
561535--561606	33	2.2	33	89	0	108	38	25	12	23	1.90
561759--561846	39	2.3	39	97	0	167	37	25	18	19	1.94
562167--562345	81	2.2	82	95	1	324	17	20	24	37	1.94
562167--562345	41	4.4	41	95	1	324	17	20	24	37	1.94
562376--562431	6	9.5	6	98	1	105	32	51	16	0	1.44
563323--563398	20	3.8	20	74	5	82	39	18	22	19	1.92
568747--568792	13	3.5	13	84	0	65	41	10	8	39	1.71
570182--570297	48	2.4	48	91	0	178	41	18	12	27	1.86
570179--570297	24	5.0	24	85	4	159	41	19	11	27	1.86
570179--570315	72	1.9	72	82	5	170	42	18	11	27	1.85
571900--571933	17	1.9	17	88	5	50	35	14	8	41	1.77
571900--571946	18	2.6	18	83	12	53	31	12	10	44	1.77
573752--573789	19	2.0	19	89	0	58	31	5	10	52	1.58
583989--584016	8	3.5	8	100	0	56	39	0	10	50	1.37
587525--587581	7	7.9	8	75	25	56	75	0	10	14	1.05
587525--587577	20	2.5	20	81	6	61	77	0	9	13	0.99
587525--587581	21	2.7	22	86	8	82	75	0	10	14	1.05
588580--589170	55	10.7	55	90	3	836	30	15	25	28	1.96
595121--595152	14	2.4	14	94	5	57	53	0	0	46	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
595066--595128	3	21.0	3	93	6	110	33	1	0	65	1.03
596438--596514	11	6.7	11	72	19	59	27	0	5	67	1.12
599058--599089	15	2.1	15	94	0	55	15	15	12	56	1.68
599037--599090	14	3.8	14	82	4	54	22	14	9	53	1.69
602586--602624	9	4.3	9	90	9	62	79	0	20	0	0.73
602587--602624	17	2.2	17	95	4	67	78	0	21	0	0.74
606741--606798	22	2.6	22	83	0	71	32	15	12	39	1.84
607171--607943	113	6.9	113	93	1	1234	36	14	20	28	1.92
607993--608087	40	2.4	40	100	0	190	44	9	27	18	1.81
607869--608208	160	2.1	161	92	2	569	40	13	21	24	1.89
608584--608626	3	14.0	3	85	4	59	32	2	0	65	1.06
608584--608636	22	2.5	22	81	3	63	37	1	0	60	1.08
609928--610004	11	6.7	11	72	19	59	27	0	5	67	1.12
610877--610965	3	29.7	3	95	0	160	34	1	0	64	1.01
611442--611500	21	2.8	21	81	0	73	71	10	18	0	1.14
611426--611499	21	3.5	21	77	15	71	70	9	20	0	1.15
612312--612350	19	2.1	19	85	0	51	25	7	2	64	1.33
624111--624150	16	2.5	16	88	8	55	30	7	10	52	1.62
624920--625635	83	8.7	83	90	4	1110	27	13	22	36	1.92
624920--625635	165	4.3	165	92	3	1142	27	13	22	36	1.92
624904--625635	248	3.0	248	91	3	1190	28	13	22	35	1.92
626264--627048	113	7.0	113	96	0	1338	37	14	18	29	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
627367--627464	3	32.7	3	93	0	169	33	3	0	63	1.10
627929--628001	22	3.5	22	82	12	75	69	8	20	1	1.21
629920--629970	25	2.0	25	96	0	93	33	19	25	21	1.97
632091--632128	15	2.4	16	83	16	53	55	10	5	28	1.56
638775--638834	30	2.0	30	86	0	84	38	20	5	36	1.74
645088--645193	29	3.7	28	86	6	140	36	22	6	33	1.80
652485--652589	29	3.6	29	87	2	140	40	22	2	34	1.69
652584--652634	18	2.9	18	88	2	59	11	21	47	19	1.81
652596--652634	17	2.2	18	95	4	71	10	20	51	17	1.74
654268--654587	165	1.9	165	92	0	541	27	23	18	30	1.98

Tables:   1   2   3   4   5   6   7   8