genome.fa.s9387.2.7.7.80.10.50.1000.3.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: VEPZ01009387.1 Hibiscus syriacus cultivar Beakdansim tig00113279_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  929501

Tables:   1   2   3   4   5   

This is table  3  of  5  ( 593 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)
379962--380020	21	2.7	22	75	15	59	28	20	22	28	1.98
387892--387928	18	2.1	18	94	0	65	54	0	0	45	1.00
388335--388423	21	4.2	21	83	0	106	31	13	17	37	1.89
394613--394683	21	3.5	20	78	5	79	33	12	19	33	1.90
394621--394683	20	3.1	20	81	2	63	31	12	17	38	1.87
394613--394696	21	4.1	20	78	6	78	32	13	17	36	1.88
398964--399002	17	2.3	17	86	0	51	66	2	7	23	1.30
399182--399254	22	3.3	22	83	12	78	53	0	9	36	1.34
399174--399344	36	4.7	38	76	16	116	52	2	9	35	1.46
399210--399452	14	17.4	14	69	24	126	54	2	7	35	1.43
399211--399446	21	11.3	21	71	20	117	55	2	7	35	1.41
399220--399352	22	6.0	22	77	13	98	52	2	9	36	1.45
399234--399414	43	4.4	42	77	16	173	54	3	7	35	1.45
399226--399452	30	7.9	28	72	18	168	54	2	7	35	1.43
399217--399452	101	2.3	100	85	8	311	54	2	7	35	1.42
399281--399450	22	7.9	22	77	17	146	55	2	8	34	1.43
399680--399782	16	6.4	16	82	0	125	38	16	22	22	1.92
399680--399782	32	3.2	32	92	0	161	38	16	22	22	1.92
404981--405031	26	2.0	26	84	7	68	29	29	15	25	1.96
409372--409408	18	2.1	18	94	0	65	29	21	13	35	1.92
412814--412849	12	3.0	12	91	0	54	41	33	8	16	1.78
424792--424834	21	2.0	22	86	4	61	23	0	34	41	1.55
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
429044--429221	90	2.0	89	93	1	302	40	8	19	31	1.82
432080--432211	66	2.0	66	92	0	219	40	12	15	31	1.86
435389--435431	2	21.5	2	100	0	86	48	0	0	51	1.00
436255--436299	20	2.4	19	85	7	56	26	22	2	48	1.62
441031--441091	14	4.4	14	76	10	63	50	0	0	49	1.00
441038--441086	17	3.2	17	68	31	56	42	0	0	57	0.99
443128--443162	18	1.9	18	94	0	61	22	8	45	22	1.79
444203--444239	3	13.0	3	83	11	51	29	2	0	67	1.04
445369--445439	35	2.0	36	94	2	126	40	0	11	47	1.39
449240--449266	12	2.2	12	100	0	54	44	0	40	14	1.46
456764--456816	7	7.4	7	82	4	52	81	0	16	1	0.79
457707--458161	123	3.7	123	88	2	668	39	16	19	24	1.91
458074--458432	140	2.6	136	83	6	428	38	15	18	27	1.91
458363--458419	17	3.4	17	69	13	55	45	8	26	19	1.79
458678--458710	16	2.1	15	94	5	57	24	3	0	72	0.98
460131--460184	24	2.3	23	81	9	56	50	3	0	46	1.19
461219--461670	123	3.7	123	86	5	618	40	14	18	26	1.90
461588--461936	138	2.6	134	85	5	438	38	14	19	28	1.90
461870--461926	17	3.4	17	74	13	64	47	8	24	19	1.77
463504--463562	31	1.9	31	89	6	93	42	0	13	44	1.44
463595--463637	22	1.9	23	85	4	61	51	4	0	44	1.22
466316--466375	22	2.7	22	84	0	75	48	3	0	48	1.18
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
470892--470938	22	2.1	22	96	0	85	38	6	8	46	1.60
472747--472814	29	2.3	30	87	2	93	51	17	1	29	1.54
472765--472850	29	3.1	28	80	6	70	48	10	1	39	1.45
477381--478912	769	2.0	774	94	1	2668	37	20	13	28	1.90
479783--479864	29	2.9	28	81	1	92	54	12	2	30	1.50
479892--479961	29	2.4	29	92	0	95	42	25	5	25	1.77
482898--482962	12	5.6	12	73	14	64	72	9	1	16	1.18
482901--482986	36	2.5	34	88	5	120	66	12	3	17	1.38
483432--483473	20	2.1	20	90	0	66	33	11	21	33	1.90
491871--491912	20	2.1	20	90	0	66	33	11	21	33	1.90
520354--520393	20	2.0	20	90	4	64	25	17	22	35	1.95
521261--521314	24	2.2	24	93	0	90	20	18	20	40	1.91
523787--523830	20	2.2	20	88	4	63	36	15	22	25	1.94
523794--523905	19	6.4	19	67	20	64	46	16	20	16	1.84
523814--523940	33	3.8	33	86	2	166	47	16	22	14	1.82
523814--523940	66	1.9	66	87	3	184	47	16	22	14	1.82
523950--524029	33	2.4	33	85	0	115	10	18	22	48	1.77
525545--525624	42	1.9	42	84	0	106	22	17	36	23	1.95
526079--526140	19	3.6	18	68	20	51	48	20	20	9	1.78
526064--526152	14	5.6	14	67	23	52	47	20	23	8	1.78
526053--526166	33	3.5	33	92	2	187	47	19	22	10	1.80
526173--526235	19	3.3	19	88	4	65	12	17	25	44	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
526185--526291	19	5.8	19	75	12	107	11	19	21	47	1.80
526358--526737	94	4.1	94	93	1	620	47	18	11	22	1.80
526587--526619	17	1.9	17	88	11	50	45	15	15	24	1.84
528433--528470	20	1.9	20	88	0	58	42	21	23	13	1.88
528453--528534	33	2.5	33	91	0	128	47	20	20	10	1.80
528433--528539	19	6.1	18	68	21	59	45	20	22	11	1.82
528565--528644	21	4.0	20	76	7	81	11	17	18	52	1.74
528562--528642	42	2.0	40	87	4	117	11	17	18	53	1.73
528566--528657	21	4.6	20	75	11	80	13	15	18	53	1.73
529210--529287	20	3.8	21	84	3	97	21	21	17	38	1.93
529215--529326	21	5.4	20	77	6	80	25	20	22	31	1.98
529215--529298	41	2.0	41	81	0	96	23	21	20	34	1.97
529726--529774	12	4.2	12	75	15	50	55	0	0	44	0.99
531504--531575	22	3.2	22	74	14	74	54	11	5	29	1.58
532638--532672	17	2.1	17	100	0	70	17	0	28	54	1.43
532641--532678	17	2.2	17	90	4	58	23	2	26	47	1.65
536812--536850	20	2.0	20	84	0	51	23	7	23	46	1.78
537031--537088	23	2.8	21	84	12	75	18	25	34	20	1.96
551728--551899	60	2.9	60	83	1	202	40	5	20	33	1.75
554345--554397	20	2.7	20	100	0	106	20	16	32	30	1.95
554990--555046	23	2.5	23	88	0	87	19	28	28	24	1.98
561095--561214	63	1.9	64	83	8	156	35	20	20	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
567948--568088	63	2.2	64	81	6	153	33	19	19	27	1.96
568059--568149	20	4.6	20	100	0	182	20	16	32	29	1.95
568742--568787	23	2.0	23	91	0	74	21	23	26	28	1.99
570844--570876	16	2.1	16	100	0	66	60	18	0	21	1.36
576178--576236	10	5.7	10	81	15	75	40	8	1	49	1.43
576178--576253	10	7.0	11	80	12	70	40	7	3	47	1.51
576182--576219	2	19.0	2	84	10	51	47	5	0	47	1.24
576572--576621	16	3.2	16	94	2	84	42	0	8	50	1.32
576576--576628	16	3.3	16	92	5	81	39	0	9	50	1.35
592049--592128	40	2.0	40	97	0	151	38	3	25	32	1.73
593382--593493	53	2.1	53	98	0	215	36	17	16	28	1.93
594898--595203	151	2.0	151	95	1	551	29	14	19	36	1.91
596986--597032	23	2.0	23	95	0	85	31	19	21	27	1.97
601824--602129	151	2.0	150	96	1	560	28	14	20	35	1.93
602107--602152	23	2.0	23	91	0	74	21	23	26	28	1.99
602910--603075	83	2.0	83	97	0	314	24	23	13	38	1.91
607587--607614	2	14.0	2	100	0	56	50	0	0	50	1.00
607614--607644	2	15.5	2	100	0	62	0	0	48	51	1.00
608077--608143	2	33.5	2	91	5	109	49	0	1	49	1.10
619857--619924	23	3.0	23	82	0	82	44	11	10	33	1.75
623289--623458	83	2.0	84	85	3	227	23	19	26	30	1.98
623636--625058	210	6.7	211	93	1	2343	23	18	25	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
623636--625058	106	13.5	106	94	1	2349	23	18	25	32	1.97
623636--625058	421	3.4	422	95	1	2413	23	18	25	32	1.97
631992--632024	2	16.5	2	100	0	66	51	0	0	48	1.00
632457--632507	20	2.5	20	100	0	102	27	3	39	29	1.74
632457--632535	20	3.8	20	88	3	86	26	11	36	25	1.90
633086--633132	24	2.0	23	92	8	78	23	4	0	72	1.02
633300--633326	12	2.2	12	100	0	54	37	7	0	55	1.28
633448--633489	15	2.6	16	81	7	50	30	4	4	59	1.39
634780--634815	18	2.0	18	94	0	63	52	0	0	47	1.00
636057--636293	109	2.2	109	79	8	250	48	13	13	24	1.79

Tables:   1   2   3   4   5