genome.fa.s8755.2.7.7.80.10.50.1000.3.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: VEPZ01008755.1 Hibiscus syriacus cultivar Beakdansim tig00111847_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3030620

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   

This is table  3  of  14  ( 1657 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)
442195--442242	23	2.1	23	100	0	96	52	8	8	31	1.61
443449--443478	15	2.0	15	93	0	51	23	20	23	33	1.97
454323--454370	23	2.0	24	92	8	80	25	20	20	33	1.97
456429--456478	23	2.2	23	88	0	73	28	26	24	22	1.99
456439--456494	23	2.4	23	84	0	67	26	26	25	21	1.99
464769--465584	417	2.0	415	85	5	1121	38	9	8	43	1.67
465881--465921	17	2.4	17	91	4	64	48	0	4	46	1.23
466098--466123	3	8.7	3	100	0	52	34	65	0	0	0.93
467828--467882	3	19.3	3	89	10	89	30	0	0	69	0.89
467828--467882	17	3.2	17	87	10	85	30	0	0	69	0.89
467830--467886	14	4.1	14	93	6	91	28	0	0	71	0.86
470102--470154	23	2.4	22	81	9	63	20	3	1	73	1.08
470114--470192	23	3.6	21	77	12	72	22	3	1	72	1.08
474201--474857	253	2.6	250	89	2	967	33	22	17	26	1.96
474761--475084	116	2.8	116	90	2	492	34	23	17	24	1.96
475192--475235	21	2.0	22	91	4	72	31	18	9	40	1.81
475210--475290	36	2.2	36	95	0	144	28	20	11	39	1.87
475343--475432	33	2.7	34	82	5	121	43	15	8	32	1.78
475895--475934	3	13.3	3	89	10	64	30	0	0	70	0.88
478792--479036	77	3.2	77	82	6	293	12	25	14	47	1.79
481811--481843	15	2.1	16	94	5	59	51	18	24	6	1.68
485642--485717	38	2.0	38	97	0	143	27	23	15	32	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
486956--486985	15	2.0	15	100	0	60	33	13	26	26	1.93
491153--491236	30	2.8	30	85	3	98	64	8	9	17	1.48
491461--491487	2	13.5	2	100	0	54	51	0	0	48	1.00
493128--493335	43	4.9	43	73	8	192	24	18	28	29	1.98
493126--493335	84	2.5	85	88	3	307	23	18	28	29	1.98
493533--493659	36	3.6	36	69	14	102	43	11	16	28	1.83
493548--493802	70	3.6	71	79	5	261	38	11	19	30	1.88
493816--493944	71	1.9	71	84	7	178	46	13	10	29	1.76
494156--494222	34	2.0	34	88	5	100	34	11	20	32	1.90
495316--495368	3	16.7	3	81	11	61	58	0	0	41	0.98
495306--495368	26	2.7	23	77	15	74	57	0	0	42	0.99
495316--495365	26	1.9	26	91	0	82	58	0	0	42	0.98
497240--497279	2	20.0	2	100	0	80	50	0	0	50	1.00
503622--503664	20	2.2	20	83	8	52	55	4	13	25	1.58
506363--506406	20	2.2	20	87	0	61	54	13	9	22	1.67
509082--509118	2	18.5	2	100	0	74	51	0	0	48	1.00
509817--509873	2	29.5	2	83	13	75	45	0	3	50	1.18
510900--510927	3	9.3	3	100	0	56	32	0	67	0	0.91
518313--518577	45	6.0	45	91	3	387	27	20	11	40	1.87
525237--525579	45	7.6	45	85	4	428	30	20	9	39	1.85
525237--525579	135	2.5	133	87	5	485	30	20	9	39	1.85
536387--539694	6	562.2	6	93	6	5490	49	32	0	17	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
536386--539702	10	352.2	10	66	17	904	49	32	0	17	1.49
540863--540912	5	9.8	5	79	12	57	20	52	22	6	1.68
540861--540912	19	2.9	18	88	8	79	19	51	21	7	1.71
540862--540919	17	3.3	17	92	4	89	18	48	22	10	1.78
540909--540939	7	4.4	7	100	0	62	16	29	29	25	1.96
547957--548008	17	3.4	15	80	20	54	21	50	19	9	1.76
547963--548015	17	3.3	17	80	17	60	20	47	20	11	1.81
551102--551357	141	1.8	141	86	0	377	37	15	14	33	1.87
551874--551925	24	2.2	24	86	3	70	69	1	11	17	1.27
554000--554087	44	2.0	44	82	4	106	31	17	22	28	1.96
556970--557044	35	2.1	35	87	4	107	33	0	21	45	1.52
558096--558172	35	2.2	35	83	0	100	40	0	18	41	1.50
560862--560909	21	2.2	22	85	10	64	20	6	4	68	1.28
560852--560907	10	5.4	10	77	12	51	21	5	5	67	1.31
561513--561543	16	1.9	16	100	0	62	25	0	32	41	1.56
564033--564090	22	2.6	23	76	15	68	36	0	20	43	1.52
564402--564429	2	14.0	2	100	0	56	50	0	0	50	1.00
566943--567065	39	3.2	39	79	0	138	24	32	7	35	1.83
571238--571285	20	2.5	18	75	15	51	54	10	18	16	1.70
573167--573426	140	1.9	140	85	3	362	38	15	12	33	1.86
578107--578141	2	17.5	2	100	0	70	51	0	0	48	1.00
578189--578496	85	3.6	85	89	0	438	33	17	19	29	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
580881--581126	34	6.7	36	72	16	120	45	6	3	44	1.47
580905--580966	12	5.0	12	72	20	56	46	8	1	43	1.42
580840--581142	38	8.1	37	74	15	164	46	6	3	43	1.47
580964--581110	77	1.9	78	83	9	194	45	6	3	44	1.45
581725--581982	80	3.2	81	78	6	270	25	22	22	29	1.99
588229--588300	36	2.0	36	100	0	144	55	13	5	25	1.60
590327--590356	3	10.0	3	100	0	60	33	0	0	66	0.92
596950--597032	34	2.4	34	100	0	166	18	12	18	51	1.75
597714--597754	21	1.9	22	90	5	66	78	2	4	14	1.03
597690--597771	26	3.2	25	69	20	71	70	4	9	14	1.30
597837--597903	13	4.5	15	71	22	61	76	0	4	19	0.96
597817--597897	8	9.9	8	72	15	51	77	1	4	16	1.00
597812--597906	18	5.0	18	68	15	66	77	2	4	15	1.01
599305--599768	37	12.5	37	82	11	478	43	8	3	44	1.51
599305--599768	75	6.3	73	77	14	411	43	8	3	44	1.51
599349--599768	114	3.8	113	82	14	518	44	8	3	43	1.52
599540--599757	66	3.2	66	76	22	198	44	8	3	43	1.53
599467--599744	142	2.0	138	92	5	470	44	8	3	43	1.51
600358--600459	54	1.9	53	88	6	152	27	11	21	39	1.88
606052--606216	5	31.8	5	70	23	62	72	1	3	23	1.08
606052--606216	15	11.3	14	71	18	74	72	1	3	23	1.08
606071--606096	7	3.7	7	100	0	52	57	0	0	42	0.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
606109--606151	22	2.0	22	81	9	52	76	2	4	16	1.05
606109--606216	27	4.1	25	73	13	76	75	0	4	18	1.02
606182--606225	13	3.3	13	84	6	61	77	0	4	18	0.94
606131--606218	14	6.1	14	76	15	74	77	0	3	19	0.91
606135--606225	27	3.4	27	75	14	89	74	0	4	20	0.98
606235--606269	15	2.4	15	90	4	54	65	0	8	25	1.21
606929--606971	11	3.9	11	81	0	50	0	0	32	67	0.91
607449--607511	28	2.3	28	84	10	78	74	1	1	22	0.99
607446--607524	31	2.5	32	82	8	83	72	1	1	25	1.00
607535--608015	38	12.9	38	78	14	347	44	7	3	44	1.51
607535--607822	39	7.5	39	86	9	334	44	7	4	44	1.51
607787--607848	25	2.4	26	94	5	117	45	8	4	41	1.55
607634--607988	176	2.0	179	95	3	646	44	7	3	43	1.50
607813--608015	77	2.7	76	87	8	290	43	8	3	43	1.53
609086--609118	16	2.1	16	94	0	57	21	6	33	39	1.78
609689--609729	21	2.0	21	85	0	55	39	2	7	51	1.43
610653--610708	2	28.0	2	100	0	112	50	0	0	50	1.00
610708--610737	2	15.0	2	100	0	60	0	0	50	50	1.00
611720--611785	19	3.3	20	75	12	57	59	4	1	34	1.27
611781--612060	37	6.9	38	76	15	253	43	7	2	46	1.46
611764--611934	93	1.9	91	91	4	281	46	7	2	43	1.44
611854--612065	37	5.6	37	88	6	304	43	6	2	46	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
612596--612673	32	2.4	32	82	4	86	15	15	29	39	1.88
613133--613412	153	1.8	152	81	7	352	41	17	6	34	1.76
613993--614027	2	17.5	2	100	0	70	51	0	0	48	1.00
615431--615490	11	5.1	11	80	11	57	73	1	1	23	1.01
615528--615580	26	2.0	26	85	0	70	26	7	24	41	1.81
616786--616867	26	3.2	26	98	0	155	30	30	19	19	1.96
617128--617222	43	2.2	43	83	3	111	25	16	9	48	1.76
620952--621834	440	2.0	440	96	0	1640	27	22	15	34	1.95
624682--624743	28	2.2	28	97	0	115	29	4	27	38	1.77
627258--627594	79	4.3	79	92	0	559	29	24	9	36	1.88

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14