genome.fa.s8192.2.7.7.80.10.50.1000.4.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: VEPZ01008192.1 Hibiscus syriacus cultivar Beakdansim tig00110809_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1702141

Tables:   1   2   3   4   5   6   7   8   9   

This is table  4  of  9  ( 1079 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)
461087--461166	36	2.2	36	93	2	135	45	18	5	31	1.71
465701--465757	15	3.0	21	61	28	54	45	15	5	33	1.69
465692--465762	36	2.0	35	94	2	124	47	15	5	30	1.68
468633--468666	2	17.0	2	100	0	68	50	0	0	50	1.00
469310--469397	28	3.1	28	66	15	81	39	12	6	40	1.70
472388--472434	18	2.5	20	86	13	80	34	17	4	44	1.68
474132--474187	19	2.9	20	72	17	55	0	19	14	66	1.26
474612--474701	3	30.0	3	95	0	162	64	0	2	33	1.06
474945--475043	40	2.5	40	100	0	198	18	24	9	48	1.76
474846--475156	153	2.0	155	89	3	475	26	20	12	40	1.88
474985--475634	113	5.8	113	97	0	1203	28	19	13	38	1.89
476442--477117	83	8.2	83	91	3	1053	36	22	13	27	1.92
477879--477925	16	2.7	18	90	9	71	53	8	6	31	1.57
478256--478303	20	2.4	20	89	6	71	2	14	0	83	0.74
488905--488950	15	3.6	13	81	18	53	71	2	4	21	1.14
490659--490714	19	2.9	18	73	21	51	0	19	14	66	1.26
491121--491204	3	28.0	3	95	0	150	64	0	1	34	1.02
494773--494828	23	2.4	23	94	5	96	8	16	17	57	1.64
508683--508743	23	2.8	23	75	7	65	22	34	24	18	1.96
514057--514094	20	1.9	19	89	5	58	23	26	31	18	1.97
519257--519549	148	2.0	148	91	1	480	36	6	9	47	1.61
520049--520129	35	2.3	35	84	2	108	35	0	22	41	1.54
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
526777--526811	13	2.8	13	95	4	63	0	28	0	71	0.86
531701--531752	23	2.2	25	86	10	74	67	7	13	11	1.42
534175--534223	24	2.0	24	100	0	98	42	12	12	32	1.79
547380--547440	20	2.9	21	78	9	70	52	19	11	16	1.74
549309--549379	25	3.0	23	80	19	83	45	4	0	50	1.21
549320--549379	22	2.6	23	84	10	86	43	5	0	51	1.23
549552--549626	31	2.4	31	93	0	123	48	16	10	25	1.78
554167--554231	23	2.8	23	85	0	85	33	24	23	18	1.96
554465--554523	30	2.0	29	83	3	73	33	22	6	37	1.80
557815--557982	46	3.7	46	86	7	227	41	11	2	44	1.55
559567--560372	113	7.4	111	78	11	659	31	2	12	53	1.52
559815--560372	99	5.3	98	76	14	495	31	2	12	54	1.51
559679--560372	322	2.2	324	91	2	1114	30	2	12	53	1.52
562496--562539	23	1.9	23	95	0	79	45	9	6	38	1.63
562569--562668	27	3.7	27	100	0	200	41	16	3	40	1.63
565415--565453	16	2.4	16	91	4	60	46	2	7	43	1.46
570726--570759	12	3.1	11	91	8	52	0	17	52	29	1.45
570844--570890	19	2.5	19	100	0	94	40	19	21	19	1.92
570862--571125	41	6.7	40	70	19	159	38	24	20	17	1.93
570900--571016	20	5.7	21	77	7	80	37	26	19	16	1.93
571017--571084	19	3.4	19	71	11	64	41	20	20	17	1.91
571034--571105	22	3.4	22	69	11	78	38	23	19	18	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
570924--571148	20	10.6	20	69	19	109	40	23	21	14	1.91
571137--571186	21	2.4	21	93	0	82	30	26	14	30	1.94
585509--585647	36	3.9	36	90	0	199	32	20	25	21	1.98
593665--593694	15	1.9	16	93	6	53	20	26	30	23	1.98
597205--597254	26	2.0	25	84	11	66	42	26	0	32	1.56
601479--601534	21	2.7	19	81	10	58	16	8	7	67	1.39
603157--603219	31	2.0	31	96	0	117	28	28	7	34	1.85
605845--605873	13	2.2	13	100	0	58	24	17	13	44	1.85
609405--609440	18	2.0	18	100	0	72	44	5	11	38	1.63
609495--609634	70	2.0	70	98	0	271	29	17	14	38	1.89
612254--612297	18	2.2	21	84	11	58	65	4	2	27	1.23
613687--613724	19	2.0	19	100	0	76	31	21	0	47	1.51
616188--616225	3	12.0	3	89	10	58	63	0	0	36	0.95
616452--616800	55	6.6	51	89	4	405	30	26	14	28	1.95
616787--616970	54	3.4	53	90	4	253	25	26	17	30	1.98
618115--618190	19	3.9	19	77	14	68	3	13	1	81	0.89
618114--618178	9	7.1	9	87	1	76	3	12	1	83	0.84
618125--618177	1	53.0	1	80	0	52	3	5	1	88	0.67
632529--632553	4	6.2	4	100	0	50	72	0	0	28	0.86
633229--633265	19	1.9	19	88	0	56	56	8	2	32	1.43
637994--638043	20	2.5	20	83	6	57	46	24	2	28	1.64
640262--640435	87	2.0	87	94	2	305	35	14	14	34	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
641378--641410	14	2.4	14	94	0	57	54	3	6	36	1.41
641816--641865	21	2.4	21	86	6	66	40	28	10	22	1.86
642333--642370	20	1.9	20	94	0	67	39	18	15	26	1.91
642414--642488	20	3.8	20	71	13	64	44	24	13	18	1.85
642476--642565	39	2.3	40	84	5	114	34	23	10	32	1.88
642476--642565	19	4.7	19	84	2	110	34	23	10	32	1.88
642462--642565	39	2.7	38	77	8	111	35	24	11	28	1.90
642722--642759	16	2.5	15	84	12	51	28	5	0	65	1.14
643501--643554	24	2.2	24	93	0	90	20	18	20	40	1.91
646151--646198	20	2.4	20	85	0	60	22	16	22	37	1.94
646253--646395	65	2.2	65	91	1	225	51	16	2	30	1.56
647781--647854	21	3.5	20	80	7	85	25	17	32	24	1.97
648124--648173	21	2.4	21	75	0	55	34	28	16	22	1.95
648175--648296	63	1.9	63	81	6	149	29	36	14	18	1.91
648200--648299	42	2.4	41	75	8	103	30	38	14	18	1.89
650497--650554	22	2.6	22	83	0	80	18	17	43	20	1.89
650706--651053	20	17.4	20	76	10	173	21	15	21	40	1.90
650706--650948	40	6.1	40	74	16	216	21	14	22	41	1.90
650717--650952	60	3.9	62	82	9	283	20	14	22	41	1.89
650706--650914	80	2.6	82	83	9	261	22	14	22	40	1.90
650942--651068	60	2.1	60	82	2	148	23	16	22	37	1.94
661880--661948	23	3.0	23	78	0	84	33	24	23	18	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
662374--662409	2	18.0	2	100	0	72	50	0	0	50	1.00
665487--665532	24	1.9	24	82	8	58	39	23	4	32	1.75
666996--667059	23	2.8	23	75	0	74	32	25	25	17	1.96
667450--667487	2	19.0	2	100	0	76	50	0	0	50	1.00
668235--668280	22	2.2	20	84	7	56	41	13	0	45	1.43
671578--671642	29	2.1	31	91	8	107	46	4	6	43	1.49
675221--675255	2	17.5	2	100	0	70	48	0	0	51	1.00
678360--678399	21	1.9	21	89	0	62	25	22	25	27	2.00
678359--678414	21	2.7	20	78	10	58	23	21	21	33	1.97
683910--683962	26	2.0	26	85	0	70	41	20	9	28	1.83
684460--684500	20	2.1	19	86	4	55	48	2	2	46	1.28
685843--685877	16	2.1	18	89	10	56	65	0	8	25	1.21
685995--686019	2	12.5	2	100	0	50	52	0	0	48	1.00
686429--686566	37	3.8	36	84	6	172	29	14	13	42	1.84
686463--686563	34	2.9	35	91	8	161	27	14	13	43	1.84
687111--687969	105	8.3	104	88	5	1201	21	18	26	33	1.96
687111--687969	205	4.2	205	92	2	1321	21	18	26	33	1.96
688800--688958	67	2.4	67	89	4	241	36	11	20	32	1.88
688833--689105	36	7.9	35	70	17	187	37	13	21	28	1.91
689548--689583	18	2.0	18	88	0	54	41	30	8	19	1.81
689999--690069	22	3.2	22	87	0	106	29	12	22	35	1.91
690726--690794	8	9.1	7	73	20	59	0	15	7	76	0.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
690720--690773	16	3.4	17	78	9	53	0	16	9	74	1.07
690767--690800	16	2.1	16	89	10	52	0	14	8	76	1.01
691332--691380	26	2.0	24	84	8	62	44	6	18	30	1.74
693950--693984	16	2.1	18	89	10	56	65	0	8	25	1.21
694524--694661	37	3.8	36	84	6	172	29	14	13	42	1.84
694558--694658	34	2.9	35	91	8	161	27	14	13	43	1.84
696979--697026	24	2.0	23	88	11	71	54	0	4	41	1.20
702419--702509	45	2.0	46	89	2	139	27	18	25	28	1.98
710028--710118	45	2.0	46	91	2	148	27	19	25	27	1.99
710138--710176	20	2.0	20	89	0	60	20	15	33	30	1.94

Tables:   1   2   3   4   5   6   7   8   9