genome.fa.s6094.2.7.7.80.10.50.1000.4.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: VEPZ01006094.1 Hibiscus syriacus cultivar Beakdansim tig00014445_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  761529

Tables:   1   2   3   4   5   

This is table  4  of  5  ( 552 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)
503297--503710	190	2.2	191	90	0	643	36	14	21	28	1.92
506608--506644	19	1.9	19	88	0	56	37	16	27	18	1.92
506816--506865	18	2.8	18	90	3	75	44	12	30	14	1.81
508421--508445	13	1.9	13	100	0	50	68	8	16	8	1.38
511453--511593	64	2.2	63	82	7	169	33	18	22	25	1.97
511581--511638	20	2.7	20	84	10	71	31	18	22	27	1.97
515939--516078	64	2.2	63	85	7	185	33	17	21	27	1.96
516066--516123	20	2.7	20	84	10	71	31	18	22	27	1.97
516643--516667	12	2.1	12	100	0	50	36	0	24	40	1.55
516997--517073	31	2.5	31	85	10	97	22	19	20	37	1.94
517060--517118	29	2.0	30	93	3	102	15	16	28	38	1.89
517388--517427	2	20.5	2	94	5	73	52	0	0	47	1.00
518886--518921	18	2.0	18	89	10	56	36	0	0	63	0.94
519627--519662	15	2.4	15	95	0	63	25	16	47	11	1.79
521255--521293	19	2.1	19	85	9	53	61	5	0	33	1.18
523122--523413	9	32.9	9	68	19	100	74	1	9	15	1.12
523126--523251	34	3.6	34	76	12	98	77	1	9	11	1.05
523165--523248	10	7.8	10	77	13	53	80	0	9	9	0.89
523169--523237	20	3.5	19	75	16	61	81	0	8	10	0.89
523215--523284	7	9.4	7	76	14	52	77	0	2	20	0.90
523165--523415	26	9.5	25	67	23	74	74	0	8	16	1.08
523123--523405	16	17.1	16	68	21	101	74	1	8	15	1.11
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
523223--523396	4	42.8	4	71	23	75	72	0	7	19	1.12
523191--523394	81	2.7	73	74	21	190	72	0	8	18	1.12
523215--523413	81	2.5	79	76	13	203	73	0	8	17	1.09
523163--523415	75	3.4	72	72	20	205	74	0	8	16	1.09
523417--523448	2	16.0	2	93	0	55	46	0	3	50	1.17
523458--523514	21	2.7	21	75	10	53	70	8	7	14	1.33
540537--540652	58	2.0	58	91	0	187	25	18	18	37	1.93
544694--544896	5	39.8	5	69	20	61	73	0	8	16	1.13
544694--544909	20	10.7	20	70	20	87	74	0	9	15	1.12
544745--544788	12	3.8	12	85	11	56	70	0	2	27	0.99
544779--544840	26	2.6	22	79	18	63	72	3	6	17	1.19
544744--544864	11	11.2	10	71	15	73	71	1	6	20	1.18
544858--544917	7	8.2	8	72	20	51	80	0	15	5	0.88
544836--544911	37	2.1	34	86	13	109	78	0	13	7	0.94
544863--544922	13	4.5	13	83	10	77	80	0	16	3	0.85
544842--544909	5	13.6	5	73	17	52	77	0	14	7	0.96
547378--547414	18	2.1	18	94	0	65	40	8	18	32	1.80
547635--547686	2	26.0	2	100	0	104	50	0	0	50	1.00
547980--548056	35	2.2	36	83	4	102	42	6	12	37	1.69
550732--550781	21	2.5	21	83	6	59	30	28	14	28	1.95
557393--557563	22	7.9	22	95	1	292	23	26	25	24	2.00
572337--572416	21	3.7	21	72	21	76	18	20	28	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
572336--572422	44	2.0	44	97	0	165	20	20	27	31	1.98
578163--578198	13	2.8	13	95	0	63	33	0	27	38	1.57
579246--579369	21	5.7	21	67	19	67	21	19	25	33	1.97
579267--579371	21	4.8	22	67	22	69	20	19	26	33	1.96
579245--579371	44	2.9	43	89	4	200	21	19	25	33	1.97
579822--579883	12	4.6	14	83	16	78	43	0	0	56	0.99
579838--579876	2	20.5	2	84	10	55	48	0	0	51	1.00
580970--581010	2	20.5	2	100	0	82	48	0	0	51	1.00
581289--581322	11	3.0	11	91	4	50	29	2	0	67	1.05
581453--581524	35	2.0	35	82	12	85	36	0	1	62	1.04
581612--581643	2	17.0	2	87	12	50	50	0	0	50	1.00
586652--586898	125	2.0	124	91	2	406	34	13	19	33	1.90
590153--590215	22	2.9	22	95	0	108	34	15	11	38	1.83
590894--591033	76	1.9	75	86	4	201	27	18	18	35	1.95
590970--591081	46	2.4	46	85	2	136	29	22	16	32	1.95
591094--591195	45	2.3	45	86	3	134	26	23	16	33	1.96
590884--591270	121	3.2	120	86	2	531	27	20	19	33	1.96
591137--591355	76	2.9	76	89	1	334	25	19	21	34	1.96
591045--591659	197	3.0	197	85	5	745	27	20	19	32	1.97
591289--591392	45	2.3	45	89	0	154	28	20	18	32	1.96
591213--591520	121	2.5	121	90	0	481	27	20	18	33	1.96
591410--591616	45	4.5	46	83	5	249	28	22	19	28	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
591420--591616	92	2.1	92	93	0	331	29	22	20	27	1.98
591979--592020	12	3.7	12	87	9	61	45	0	0	54	0.99
593090--593118	2	14.5	2	100	0	58	48	0	0	51	1.00
593654--593687	11	3.0	11	91	4	50	29	2	0	67	1.05
593976--594024	2	26.0	2	84	12	68	51	0	0	48	1.00
609689--609714	2	13.0	2	100	0	52	0	0	50	50	1.00
611644--612064	2	213.5	2	67	18	197	45	3	4	46	1.40
611684--612058	11	34.8	11	69	16	98	45	3	4	47	1.37
611643--612064	109	4.2	100	75	16	297	45	3	4	46	1.40
612071--612406	4	84.0	4	99	0	663	25	0	25	49	1.53
618480--618575	32	3.1	31	78	14	108	28	18	22	30	1.98
621829--621948	42	2.7	46	79	12	135	35	0	1	62	1.05
621986--622046	25	2.6	24	78	14	65	32	1	0	65	1.02
621963--622079	16	7.9	16	70	21	69	38	1	0	59	1.07
621963--622065	43	2.4	43	79	14	113	37	0	0	61	1.03
622011--622077	13	5.0	14	75	21	56	37	1	0	61	1.05
621968--622075	34	3.2	34	76	7	98	37	1	0	61	1.07
622547--622583	19	1.9	19	94	0	65	32	29	16	21	1.95
622609--622696	20	4.3	20	69	13	63	34	23	18	23	1.96
623762--623799	14	2.9	13	85	11	51	50	23	18	7	1.73
625830--625864	18	1.9	18	94	0	61	54	25	2	17	1.57
626035--626111	20	3.8	20	89	5	120	32	20	19	27	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
626183--626240	20	2.9	20	84	0	80	12	17	25	44	1.83
626897--626934	20	1.9	20	84	10	51	55	2	13	28	1.51
626911--626972	25	2.4	25	78	5	61	62	3	4	29	1.31
627020--627066	20	2.3	20	85	7	60	74	0	10	14	1.07
628251--628454	85	2.4	85	91	0	336	26	16	20	36	1.94
628555--628793	84	2.8	85	84	8	285	25	19	20	34	1.96
629049--629223	65	2.7	67	83	8	224	26	14	19	38	1.91
634581--634618	20	1.9	20	89	10	60	55	0	15	28	1.41
634577--634624	20	2.5	20	78	21	57	60	4	12	22	1.49
634620--634683	29	2.3	28	81	10	69	56	0	6	37	1.25
634700--634746	20	2.3	20	85	7	60	74	2	8	14	1.15
636501--636541	2	20.5	2	100	0	82	51	0	0	48	1.00
637833--637864	12	2.6	13	90	9	50	25	0	0	75	0.81
649118--649194	29	2.5	32	76	18	92	31	5	5	58	1.42
649859--649917	23	2.5	23	80	2	64	54	10	6	28	1.59
649906--649938	16	2.0	17	88	5	50	63	0	0	36	0.95
653655--653704	5	10.0	5	100	0	100	40	40	0	20	1.52
657477--657514	18	2.1	18	95	0	67	36	10	13	39	1.79
661283--661369	40	2.2	39	89	4	131	29	12	20	36	1.90
662385--662502	20	5.8	20	85	5	148	22	20	22	34	1.96
662488--662528	21	2.0	21	90	0	64	29	12	26	31	1.92
663091--663117	3	9.0	3	100	0	54	66	33	0	0	0.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
664528--664560	7	4.7	7	96	0	57	57	12	0	30	1.35
669655--669742	45	1.9	46	88	2	133	30	19	22	27	1.98
690598--690623	7	3.7	7	100	0	52	61	0	11	26	1.30
695173--695233	20	2.9	21	87	7	79	18	26	34	21	1.96
702784--702841	19	2.9	19	74	18	55	68	3	3	24	1.20
704112--704166	22	2.5	22	84	0	83	45	5	1	47	1.36
704085--704139	29	2.0	27	85	7	74	50	5	0	43	1.25
704193--704217	2	12.5	2	100	0	50	48	0	0	52	1.00
704138--704249	45	2.7	43	74	19	112	44	8	3	43	1.51
704234--704308	36	2.1	36	82	5	89	41	10	5	42	1.62

Tables:   1   2   3   4   5