genome.fa.s7733.2.7.7.80.10.50.1000.2.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: VEPZ01007733.1 Hibiscus syriacus cultivar Beakdansim tig00109987_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  1979160

Tables:   1   2   3   4   5   6   7   8   9   

This is table  2  of  9  ( 996 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)
283906--283948	22	2.0	22	85	0	59	46	2	9	41	1.48
285035--285066	14	2.3	14	94	0	55	9	15	25	50	1.74
285056--285086	10	3.1	10	95	0	53	16	9	12	61	1.56
285012--285096	34	2.5	34	80	0	98	15	14	18	51	1.76
297199--297244	19	2.4	19	96	0	83	32	23	19	23	1.97
300265--300289	2	12.5	2	100	0	50	48	0	0	52	1.00
302312--302339	2	14.0	2	100	0	56	50	0	0	50	1.00
303496--303561	28	2.5	27	73	7	64	56	15	4	24	1.58
304125--304205	30	2.8	28	75	12	74	53	7	12	27	1.65
304414--304445	3	10.7	3	100	0	64	68	0	0	31	0.90
305102--305128	14	1.9	14	100	0	54	22	51	22	3	1.63
305090--305168	19	4.1	19	83	13	99	18	49	21	10	1.77
305102--305175	17	4.2	17	91	3	103	18	45	22	12	1.83
305097--305133	5	7.6	5	87	6	58	21	54	21	2	1.58
306057--306180	63	2.0	63	82	9	155	16	27	29	26	1.97
306057--306180	31	4.0	32	72	12	80	16	27	29	26	1.97
312367--312421	17	3.2	17	97	0	101	18	43	23	14	1.87
312361--312414	17	2.7	22	72	27	73	18	46	22	12	1.83
313304--313427	63	2.0	63	82	9	155	16	27	29	26	1.97
313304--313427	31	4.0	32	72	12	80	16	27	29	26	1.97
315903--315952	10	5.2	10	71	9	50	58	16	16	10	1.63
326283--326334	23	2.3	23	80	6	61	50	11	26	11	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
328781--329228	182	2.5	182	92	1	722	42	13	16	27	1.85
329353--329377	11	2.3	11	100	0	50	28	8	16	48	1.74
329786--329833	23	2.1	23	92	0	78	39	14	8	37	1.76
330235--330700	5	91.6	5	82	14	541	40	0	2	56	1.17
330234--330697	8	52.8	10	70	27	262	40	0	2	56	1.17
332907--333111	103	2.0	103	92	1	340	28	12	22	36	1.90
333131--333198	23	3.0	23	84	0	82	20	25	27	26	1.99
333528--333580	16	3.2	16	72	5	52	30	1	26	41	1.66
335564--335591	2	14.0	2	100	0	56	50	0	0	50	1.00
336511--336556	22	2.2	21	84	7	58	15	10	0	73	1.08
336511--336563	21	2.5	20	82	8	61	15	11	0	73	1.09
339502--339799	99	3.0	99	97	1	564	32	8	8	50	1.63
341858--342007	82	1.8	81	91	1	246	45	9	8	37	1.66
344114--344250	59	2.3	59	82	5	161	29	15	21	32	1.94
347013--347037	13	1.9	13	100	0	50	16	24	24	36	1.94
347203--347237	17	2.2	17	90	10	56	45	14	0	40	1.45
347249--347293	20	2.1	22	84	12	58	60	11	0	28	1.31
348894--348947	21	2.7	21	83	8	69	74	0	3	22	0.98
348890--348948	28	2.1	28	84	6	75	72	0	3	23	0.99
350102--350130	14	2.1	14	100	0	58	79	0	6	13	0.93
350170--350340	31	5.2	32	72	20	104	45	5	3	46	1.43
350174--350467	38	8.4	35	79	13	249	43	5	4	46	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
350195--350467	109	2.6	104	80	11	288	43	5	4	46	1.48
351155--351900	165	4.5	165	97	0	1375	22	21	26	29	1.99
355211--355253	19	2.2	20	95	4	79	65	9	13	11	1.48
358154--358182	14	2.1	14	100	0	58	79	0	6	13	0.93
358221--358492	33	8.0	33	71	19	163	45	5	4	44	1.45
367879--368637	391	1.9	391	89	2	1175	35	16	13	33	1.88
370907--370932	10	2.6	10	100	0	52	76	0	7	15	0.99
372726--372764	20	2.0	20	85	5	53	17	2	12	66	1.35
372885--372941	29	1.9	30	85	3	80	50	14	17	17	1.77
373814--373845	15	2.1	16	94	5	57	0	21	0	78	0.76
374924--374948	9	2.8	9	100	0	50	72	0	8	20	1.10
376759--376796	19	2.0	20	89	5	60	18	0	15	65	1.27
376892--376948	29	1.9	30	85	3	80	50	14	17	17	1.77
377818--377857	15	2.6	16	84	15	57	0	22	0	77	0.77
378714--378842	61	2.1	61	80	4	145	36	14	15	33	1.88
388611--388660	10	5.2	10	80	9	50	26	0	4	70	1.05
400473--400505	10	3.4	10	95	4	59	57	6	0	36	1.23
403897--403937	21	1.9	21	85	5	55	9	7	31	51	1.62
404102--404145	18	2.4	18	84	0	61	13	22	25	38	1.91
404929--404997	23	3.0	23	79	8	86	31	24	24	18	1.98
405496--405547	2	26.0	2	100	0	104	50	0	0	50	1.00
407340--407404	31	2.1	31	85	5	87	21	20	23	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
407390--407491	30	3.4	30	90	1	152	21	20	25	32	1.98
410571--410618	21	2.2	23	85	7	64	29	2	10	58	1.43
410582--410628	23	2.1	22	84	11	60	29	0	10	59	1.31
412460--412640	90	2.0	90	91	2	292	43	13	19	23	1.87
418700--418757	21	2.8	21	78	0	62	25	10	24	39	1.87
418744--418833	21	4.1	22	74	7	67	31	11	22	35	1.89
418708--418833	65	1.9	65	82	6	157	28	11	21	38	1.89
424043--424067	13	1.9	13	100	0	50	52	8	0	40	1.31
434433--434472	3	13.7	3	94	5	73	67	0	0	32	0.91
456514--456615	51	2.0	51	90	0	159	16	17	22	43	1.88
465511--465549	17	2.4	17	86	4	53	51	0	0	48	1.00
469162--469285	60	2.1	59	80	4	133	31	17	14	36	1.90
470254--470282	3	9.7	3	100	0	58	34	0	0	65	0.93
471196--471226	14	2.2	14	100	0	62	74	0	0	25	0.82
478183--478228	17	2.8	17	93	3	76	43	6	2	47	1.41
478755--478842	31	2.9	31	82	1	106	31	20	20	27	1.97
480294--480351	20	2.7	20	84	10	71	32	20	20	25	1.97
488898--488944	22	2.1	22	100	0	94	29	4	17	48	1.65
504121--504178	27	2.1	28	93	3	100	37	1	18	41	1.61
509845--510274	213	2.0	213	93	0	727	31	16	16	34	1.92
526708--526772	17	3.6	17	72	22	60	20	24	30	24	1.98
526679--526774	38	2.5	38	93	0	165	25	23	28	22	2.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
526687--526755	21	3.5	21	70	22	67	24	27	26	21	1.99
532919--532983	17	3.6	17	72	22	60	20	24	30	24	1.98
532890--532985	38	2.5	38	93	0	165	25	23	28	22	2.00
532898--532966	21	3.5	21	70	22	67	24	27	26	21	1.99
535452--535521	15	4.9	15	79	10	67	38	1	0	60	1.06
535472--535542	28	2.7	26	77	12	72	42	0	0	57	0.98
535472--535541	10	7.5	10	76	15	60	42	0	0	57	0.99
535472--535541	6	12.5	6	78	14	60	42	0	0	57	0.99
537297--537325	4	7.2	4	100	0	58	75	0	0	24	0.80
539325--539356	4	8.0	4	100	0	64	25	0	25	50	1.50
550923--550949	3	9.0	3	100	0	54	33	0	33	33	1.58
556510--557007	239	2.1	236	93	1	852	29	17	25	27	1.97
557537--557928	102	3.8	102	91	1	624	26	15	34	24	1.95
562429--562515	40	2.2	40	80	13	99	49	9	13	27	1.73
562490--562531	18	2.4	18	92	4	68	64	7	4	23	1.38
562497--562533	18	2.1	18	100	0	74	59	5	5	29	1.42
565473--565522	2	25.0	2	100	0	100	50	0	0	50	1.00
569169--569219	12	4.3	12	76	18	54	31	0	1	66	1.03
569202--569279	26	3.0	27	82	12	94	44	0	1	53	1.08
569177--569283	12	8.7	12	71	19	78	39	0	1	58	1.09
569181--569312	65	2.1	63	92	5	223	40	0	1	57	1.08
569272--569337	24	2.7	25	95	4	116	46	0	1	51	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
569343--569427	19	4.3	19	73	18	59	38	1	0	60	1.05
569891--569950	31	1.9	31	93	0	102	43	10	6	40	1.64
573474--573547	12	6.9	12	76	23	85	51	10	37	0	1.37
573459--573589	42	3.1	42	86	6	160	49	8	38	3	1.49
573459--573588	63	2.1	63	82	8	158	50	7	39	3	1.47
573459--573556	21	4.7	21	94	0	160	48	9	39	2	1.46
573720--573791	28	2.6	28	80	4	74	33	15	8	43	1.76
574356--574427	23	3.1	22	80	20	69	44	4	0	51	1.20
574360--574442	22	3.2	24	76	21	80	43	3	0	53	1.18
574372--574471	52	1.9	52	81	4	121	41	4	0	55	1.19

Tables:   1   2   3   4   5   6   7   8   9