genome.fa.s8490.2.7.7.80.10.50.1000.3.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: VEPZ01008490.1 Hibiscus syriacus cultivar Beakdansim tig00111332_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  604809

Tables:   1   2   3   

This is table  3  of  3  ( 345 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)
442763--442815	5	9.8	5	76	15	52	7	22	50	18	1.72
442756--442816	17	3.3	17	79	20	77	11	22	47	18	1.80
442736--442766	7	4.4	7	100	0	62	25	29	29	16	1.96
442749--442815	22	3.0	22	93	4	107	11	23	46	17	1.82
442812--442900	28	3.1	27	85	6	88	30	28	26	14	1.95
442812--442900	9	9.3	9	77	11	88	30	28	26	14	1.95
442818--442900	19	4.3	19	83	8	89	31	28	25	14	1.95
442837--442900	30	2.2	28	94	5	110	31	28	26	14	1.95
442863--442901	21	1.9	21	94	5	71	33	25	25	15	1.95
445423--445452	2	15.0	2	100	0	60	50	0	0	50	1.00
445479--445760	72	3.9	72	76	13	258	46	3	4	45	1.41
445491--445776	35	8.0	34	72	16	150	45	3	4	45	1.41
447154--447186	5	6.4	5	96	3	57	18	0	0	81	0.68
452290--454640	249	9.5	245	82	3	2159	30	25	19	24	1.98
452290--454640	164	14.2	164	83	3	2090	30	25	19	24	1.98
452290--454640	826	2.8	826	89	1	3403	30	25	19	24	1.98
455159--455442	35	7.9	34	75	15	173	46	4	4	45	1.43
455158--455442	37	7.8	36	77	14	230	45	4	4	45	1.43
455144--455442	111	2.7	106	80	11	282	45	4	5	45	1.44
455158--455442	36	7.9	36	75	15	189	45	4	4	45	1.43
455159--455430	147	1.8	147	83	6	363	45	4	4	45	1.43
455313--455459	35	4.1	35	71	15	95	42	3	6	47	1.45
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
455177--455445	73	3.7	73	76	11	201	46	4	4	44	1.41
455762--455856	44	2.2	44	96	0	172	41	28	17	12	1.86
456738--456769	5	6.6	5	92	7	57	15	0	0	84	0.63
456738--456769	14	2.2	15	94	5	57	15	0	0	84	0.63
461832--461907	36	2.1	36	97	0	143	43	14	10	31	1.79
466369--466398	15	2.0	15	100	0	60	13	46	26	13	1.80
466820--466895	36	2.1	36	97	0	143	43	14	10	31	1.79
475205--475265	20	3.0	20	92	0	95	39	22	14	22	1.91
475399--475449	22	2.3	22	96	0	93	19	45	15	19	1.86
475807--475847	14	2.9	14	88	0	55	48	29	14	7	1.71
478082--478152	21	3.4	21	74	1	63	22	40	21	15	1.90
478056--478149	42	2.2	42	84	3	118	22	37	21	19	1.95
479477--479647	65	2.6	65	88	9	213	29	2	15	51	1.58
479508--479647	65	2.2	65	94	3	248	31	1	17	50	1.55
479758--479803	14	3.5	13	73	26	51	15	13	28	43	1.83
480101--480136	18	2.0	18	94	0	63	16	2	25	55	1.55
481512--481561	25	2.0	25	96	0	91	44	22	8	26	1.80
481622--481665	20	2.1	21	87	8	63	40	18	22	18	1.91
481712--481762	14	3.7	14	84	5	50	9	15	25	49	1.75
481815--481852	16	2.5	15	84	12	51	65	0	5	28	1.14
482068--482134	20	3.3	20	82	0	89	16	13	26	43	1.85
482047--482154	40	2.7	41	83	9	134	19	14	25	40	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
482128--482174	20	2.3	20	92	0	76	21	17	25	36	1.94
487205--487252	18	2.7	18	80	9	62	41	0	4	54	1.20
509640--509671	15	2.1	15	94	0	55	9	25	12	53	1.68
518935--519162	57	4.0	56	89	2	339	34	29	20	15	1.94
523735--523962	57	4.0	57	88	1	323	33	29	20	16	1.94
527062--527115	23	2.3	23	90	0	81	24	16	40	18	1.90
528254--528285	2	16.0	2	100	0	64	50	0	0	50	1.00
528361--528424	2	32.0	2	96	0	119	48	0	1	50	1.10
528361--528432	12	6.2	12	95	3	94	45	0	2	51	1.15
536678--536753	20	3.8	20	91	5	109	17	19	27	35	1.94
536678--536753	29	2.6	31	86	12	99	17	19	27	35	1.94
536678--536753	10	7.7	10	78	17	79	17	19	27	35	1.94
536756--536832	17	4.4	18	91	4	131	18	49	22	10	1.77
536758--536832	35	2.1	35	97	0	141	18	49	21	10	1.77
536793--536838	13	3.2	13	78	21	56	17	47	21	13	1.81
536868--536935	29	2.3	29	87	0	100	30	5	23	39	1.78
537641--537709	24	2.9	24	73	0	66	26	13	17	43	1.85
543939--543981	10	4.3	10	82	11	61	16	23	25	34	1.95
543938--543976	19	2.0	20	95	5	71	17	20	25	35	1.95
543938--543979	11	4.1	11	82	17	63	19	19	26	35	1.95
543997--544059	17	3.6	17	91	4	108	19	49	22	9	1.76
544020--544065	13	3.2	13	78	21	56	17	47	21	13	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
544095--544162	29	2.3	29	87	0	100	30	5	23	39	1.78
544860--544924	24	2.7	24	78	0	67	26	12	13	47	1.78
552110--552144	18	1.9	18	94	0	61	20	22	34	22	1.97
557346--557391	19	2.5	19	96	3	85	30	10	36	21	1.88
557734--557805	35	2.0	37	91	5	121	41	16	13	27	1.87
558496--558529	16	2.1	16	88	0	50	32	5	0	61	1.20
558510--558560	21	2.4	22	80	3	59	27	3	1	66	1.20
562805--563113	155	2.0	155	95	0	555	28	19	21	30	1.98
564410--564496	37	2.4	37	88	1	122	25	20	13	40	1.89
564323--564903	102	5.7	102	94	1	988	29	20	13	36	1.90
564614--564903	36	8.4	37	67	22	157	29	20	12	37	1.90
564614--564700	37	2.4	37	84	5	106	27	19	12	40	1.88
564730--564802	37	2.0	37	88	0	110	26	21	13	38	1.91
564845--565003	67	2.4	67	88	4	232	32	21	11	34	1.90
565584--566104	109	4.9	104	82	7	491	33	25	19	22	1.97
565584--566104	206	2.5	211	80	5	511	33	25	19	22	1.97
566565--566664	35	2.7	35	84	6	110	38	15	15	32	1.88
567304--567337	16	2.1	16	88	0	50	32	5	0	61	1.20
570904--570959	18	2.9	20	84	7	71	26	28	21	23	1.99
571679--571730	19	2.7	19	96	0	95	21	36	17	25	1.94
582799--583005	46	4.3	48	91	6	316	50	3	5	40	1.43
586923--586962	21	1.9	21	85	10	55	40	0	0	60	0.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
589411--589479	30	2.3	29	87	9	95	31	23	13	31	1.92
589428--589487	30	2.0	30	96	0	111	31	20	15	33	1.93
589678--589735	24	2.4	24	88	0	80	53	25	3	17	1.59
593171--593206	13	2.6	14	91	8	65	11	0	27	61	1.30
593171--593206	7	5.3	7	93	6	65	11	0	27	61	1.30
593317--593393	37	2.1	37	83	9	95	45	1	2	50	1.23
595612--595710	44	2.3	43	87	5	144	69	5	6	19	1.28
595601--595709	44	2.6	40	81	12	112	70	5	7	16	1.29
595619--595709	45	2.0	44	91	2	146	70	5	6	17	1.29
595647--595720	22	3.4	22	70	18	64	68	4	6	20	1.29
595632--595727	44	2.2	44	87	9	133	67	3	7	21	1.29
597947--599041	106	10.6	106	87	5	1526	23	18	24	33	1.96
598619--599011	193	2.0	192	96	0	723	23	17	24	34	1.96
598655--599031	99	3.9	99	85	4	460	23	17	24	34	1.96
601124--601177	27	2.0	26	82	13	65	64	5	14	14	1.45
602311--602355	21	2.1	21	87	0	63	31	28	24	15	1.96
604029--604094	22	3.0	22	97	0	123	19	27	27	25	1.99

Tables:   1   2   3

The End!