genome.fa.s8488.2.7.7.80.10.50.1000.25.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: VEPZ01008488.1 Hibiscus syriacus cultivar Beakdansim tig00111330_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12876159

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54   

This is table  25  of  54  ( 6450 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)
6197090--6197209	43	2.8	43	84	0	141	34	30	15	19	1.93
6197605--6197693	37	2.4	36	81	7	99	28	20	15	35	1.93
6197635--6197773	36	3.9	36	85	4	149	28	20	11	39	1.87
6197796--6197988	37	5.1	37	82	9	230	25	19	16	38	1.92
6197937--6198089	67	2.2	67	82	8	173	32	19	11	36	1.88
6198427--6198467	18	2.2	20	86	8	59	26	0	2	70	0.99
6199878--6200005	9	14.9	8	66	16	51	14	7	2	75	1.11
6199942--6199989	5	9.2	5	78	17	53	16	4	0	79	0.89
6199873--6200015	17	8.6	16	69	20	64	15	6	2	75	1.11
6199963--6199994	15	2.1	15	94	0	55	15	3	0	81	0.82
6199942--6200017	35	2.1	35	83	9	91	18	5	0	76	0.97
6199942--6200017	37	2.1	35	85	9	100	18	5	0	76	0.97
6199957--6200027	20	3.5	20	79	12	65	19	5	0	74	1.01
6199978--6200027	22	2.3	21	86	10	66	20	6	0	74	1.03
6201269--6201321	24	2.2	24	83	6	63	60	1	1	35	1.19
6201292--6201329	15	2.5	16	83	12	53	65	0	0	34	0.93
6201290--6201350	21	2.7	23	77	12	63	65	1	0	32	1.02
6208863--6208905	17	2.5	17	80	0	50	39	4	13	41	1.66
6212569--6212669	17	5.9	17	75	2	76	40	8	15	34	1.79
6212596--6212639	18	2.5	18	85	10	56	43	11	9	36	1.72
6212698--6212743	18	2.6	17	75	24	51	39	15	15	30	1.88
6220935--6220982	11	4.5	11	78	5	62	62	16	2	18	1.42
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6222452--6222497	11	4.3	11	83	5	67	60	19	2	17	1.46
6222444--6222497	21	2.5	22	82	5	67	61	22	1	14	1.43
6226936--6226966	16	1.9	16	93	0	53	35	12	0	51	1.40
6226994--6227050	2	28.5	2	100	0	114	49	0	0	50	1.00
6229015--6229064	20	2.5	20	100	0	100	24	28	14	34	1.93
6229510--6229547	19	2.0	20	89	5	60	50	10	13	26	1.73
6233589--6233627	20	2.0	20	85	5	53	30	12	0	56	1.37
6243379--6243448	21	3.3	21	73	0	68	38	12	17	31	1.87
6246858--6246907	24	2.1	24	88	7	75	26	2	14	58	1.47
6254858--6254935	16	4.4	18	84	11	90	0	7	10	82	0.86
6254869--6254937	9	7.9	9	79	7	72	0	5	10	84	0.78
6255703--6255736	14	2.4	14	90	0	50	47	20	0	32	1.51
6258109--6258158	24	2.1	24	88	7	75	26	2	14	58	1.47
6261390--6261449	27	2.2	27	81	0	66	31	15	33	20	1.93
6272702--6272771	26	2.7	26	75	14	65	48	12	8	30	1.71
6275825--6275960	69	2.0	69	83	11	172	26	20	30	22	1.98
6276759--6276783	2	12.5	2	100	0	50	48	0	0	52	1.00
6277794--6277853	31	1.9	31	96	0	111	43	15	23	18	1.87
6279096--6279141	22	2.1	22	83	0	56	67	4	10	17	1.37
6280394--6280452	21	2.9	21	89	2	84	52	8	1	37	1.42
6280394--6280459	21	3.2	21	82	6	73	54	7	1	36	1.38
6280559--6281306	5	150.6	5	95	3	1329	59	0	0	39	1.01
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6293354--6293412	21	2.8	21	82	5	66	55	3	1	38	1.26
6293366--6293422	5	10.8	5	82	14	62	56	3	0	40	1.17
6293343--6293436	32	2.8	34	75	15	90	55	5	3	36	1.39
6293492--6293544	27	2.0	27	85	7	72	60	5	1	32	1.31
6297208--6297257	21	2.5	19	77	6	55	54	0	2	44	1.11
6299165--6299234	29	2.4	30	87	2	97	32	18	5	42	1.74
6313687--6313763	31	2.6	29	76	10	75	36	19	3	40	1.70
6320103--6320152	25	2.0	25	84	11	66	52	0	4	44	1.20
6324554--6324627	35	2.1	36	85	12	100	27	14	27	31	1.95
6325389--6325430	22	1.9	22	90	0	66	28	21	21	28	1.99
6333132--6333180	25	2.0	25	87	0	71	30	20	2	46	1.62
6334985--6335058	3	24.7	3	94	5	132	33	1	0	64	1.02
6334994--6335080	6	15.4	5	86	5	57	29	1	1	67	1.05
6336381--6336429	2	24.5	2	100	0	98	48	0	0	51	1.00
6337230--6337281	27	2.0	26	96	3	95	53	7	3	34	1.48
6340083--6340160	25	3.0	25	77	14	77	43	2	0	53	1.14
6340105--6340149	23	2.0	23	82	4	56	46	2	0	51	1.13
6340117--6340167	25	2.1	23	89	7	75	47	0	1	50	1.12
6340193--6340270	22	3.2	24	75	14	70	56	0	3	39	1.18
6340204--6340268	24	2.7	24	75	13	71	55	0	4	40	1.21
6340177--6340370	26	6.7	30	73	15	117	55	0	4	39	1.24
6340164--6340373	29	7.4	27	70	17	104	54	0	4	40	1.25
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6340246--6340370	63	2.0	60	80	13	139	54	0	4	40	1.25
6340164--6340373	27	7.4	27	72	17	115	54	0	4	40	1.25
6344379--6344436	20	2.9	20	84	0	62	37	10	20	31	1.86
6346154--6346223	20	3.5	21	77	14	58	28	25	15	30	1.96
6347613--6347642	11	2.7	11	94	0	51	60	10	3	26	1.45
6348189--6348233	20	2.2	20	100	0	90	37	8	15	37	1.79
6348429--6348486	24	2.4	24	91	0	98	22	24	22	31	1.99
6349677--6349714	19	2.0	19	94	0	67	36	10	18	34	1.85
6349997--6350048	21	2.5	21	81	3	61	38	19	25	17	1.93
6350037--6350090	20	2.7	20	97	0	99	31	24	18	25	1.97
6350112--6350151	20	2.0	20	95	0	71	20	27	20	32	1.97
6350668--6350734	19	3.5	20	79	6	75	49	23	16	10	1.77
6350660--6350734	39	2.0	38	82	10	91	48	22	18	10	1.79
6350730--6350913	19	10.1	19	75	15	156	11	21	22	44	1.84
6350730--6350913	33	5.1	38	77	12	156	11	21	22	44	1.84
6350853--6350911	20	3.0	20	84	0	73	13	22	18	45	1.84
6352909--6353031	42	2.9	42	80	2	122	22	36	17	22	1.95
6352965--6353031	21	3.2	21	66	6	55	23	35	20	19	1.95
6354517--6354666	19	8.7	19	65	20	87	15	22	20	42	1.89
6354521--6354647	33	3.9	32	87	8	193	14	22	19	42	1.88
6354514--6354646	66	2.0	66	97	0	248	16	22	19	41	1.90
6356932--6356956	12	2.1	12	100	0	50	0	28	0	72	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6357131--6357184	24	2.2	24	90	0	81	38	20	16	24	1.92
6358246--6358303	20	2.9	20	94	0	98	37	22	22	17	1.93
6358327--6358380	14	3.5	14	77	22	63	11	20	20	48	1.80
6358309--6358379	33	2.2	33	84	0	88	19	19	21	39	1.93
6358322--6358399	33	2.4	33	91	0	120	14	23	20	42	1.88
6358487--6358523	14	2.6	14	86	0	56	48	21	0	29	1.50
6359284--6359311	9	3.1	9	100	0	56	64	0	0	35	0.94
6360400--6360485	19	4.5	19	82	4	102	40	23	22	13	1.89
6360401--6360474	39	1.9	38	86	2	103	39	22	22	14	1.91
6360511--6360592	18	4.6	19	79	14	95	13	20	20	45	1.85
6360514--6360619	51	2.1	50	82	7	124	15	20	20	43	1.88
6360579--6360631	20	2.7	20	90	0	79	15	20	24	39	1.91
6361113--6361157	18	2.5	18	88	0	72	13	15	44	26	1.83
6362476--6362513	20	1.9	20	88	0	58	50	21	15	13	1.78
6363008--6363071	20	3.2	21	82	8	80	25	15	26	32	1.95
6363070--6363162	20	4.5	21	74	4	82	18	24	16	40	1.90
6363089--6363162	20	3.7	20	76	3	85	17	22	17	41	1.89
6363070--6363162	41	2.3	41	96	0	168	18	24	16	40	1.90
6363436--6363476	18	2.3	18	82	0	55	46	7	7	39	1.60
6364733--6364798	26	2.4	28	80	15	82	24	7	10	57	1.58
6366057--6366131	29	2.6	29	80	4	89	41	17	21	20	1.90
6367216--6367504	111	2.6	112	87	2	422	30	11	13	44	1.79
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6367751--6367800	23	2.2	23	88	0	73	34	18	10	38	1.84
6367735--6367941	87	2.4	87	95	0	360	32	15	10	42	1.80
6368256--6368728	112	4.2	112	91	1	745	32	12	11	43	1.78
6369040--6369090	23	2.2	23	85	0	66	37	19	5	37	1.76
6368985--6369144	87	1.8	87	93	0	275	33	12	10	44	1.76
6369469--6369941	112	4.2	113	91	1	756	32	12	12	42	1.80
6369914--6369954	21	2.1	19	86	9	55	39	9	9	41	1.71
6370197--6370241	23	2.0	23	86	0	63	40	17	6	35	1.76
6370275--6370325	23	2.2	23	89	0	75	35	19	7	37	1.81
6370182--6370440	87	3.0	87	94	1	448	32	14	10	42	1.80

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   23   24   25   26   27   28   29   30   31   32   
          33   34   35   36   37   38   39   40   41   42   43   44   45   46   47   48   
          49   50   51   52   53   54