genome.fa.s8488.2.7.7.80.10.50.1000.48.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  48  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)
11401030--11401059	15	2.0	15	100	0	60	33	13	6	46	1.69
11403822--11403873	21	2.5	21	96	0	95	32	9	30	26	1.89
11404624--11404676	23	2.3	23	83	9	72	18	22	28	30	1.98
11404616--11404684	23	3.0	23	80	4	59	20	21	26	31	1.98
11406022--11406203	83	2.2	83	85	0	238	35	20	14	29	1.92
11409173--11409228	2	28.5	2	96	3	105	50	0	0	50	1.00
11413451--11413606	20	7.7	20	70	9	91	26	23	19	29	1.98
11413466--11413524	21	2.7	22	76	5	75	22	25	20	32	1.98
11413780--11413822	22	2.0	22	100	0	86	30	41	9	18	1.82
11414220--11414272	20	2.7	20	84	0	70	16	16	26	39	1.91
11414255--11414295	20	2.0	20	100	0	82	9	14	19	56	1.66
11414259--11414302	20	2.2	20	91	0	70	11	13	20	54	1.69
11414443--11414501	25	2.4	25	94	0	100	23	10	16	49	1.77
11416055--11416104	18	2.8	18	96	0	91	32	18	8	42	1.79
11416254--11416299	20	2.3	20	88	0	65	36	26	19	17	1.94
11416342--11416388	20	2.5	19	86	6	60	17	19	25	38	1.92
11416868--11416978	42	2.6	42	70	8	100	19	36	18	25	1.95
11418367--11418428	14	4.3	14	77	6	61	40	0	12	46	1.42
11418527--11418579	20	2.7	20	84	0	70	45	26	16	11	1.82
11418623--11418947	20	16.9	20	82	8	379	25	19	23	31	1.98
11418583--11418885	94	3.2	94	89	3	410	24	19	23	32	1.97
11418623--11418947	94	3.4	94	79	9	325	25	19	23	31	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11418918--11419187	140	1.9	140	98	0	522	42	15	12	29	1.84
11419247--11419281	18	1.9	18	94	0	61	17	2	25	54	1.57
11421318--11421354	14	2.5	15	91	4	58	5	18	21	54	1.64
11421551--11421597	24	2.0	24	95	0	85	36	21	21	21	1.96
11422419--11422489	20	3.5	20	83	7	90	26	21	21	30	1.98
11424242--11424281	18	2.3	18	91	4	64	40	7	22	30	1.81
11424856--11424930	37	2.0	38	89	2	116	40	37	9	13	1.77
11428646--11428703	25	2.3	25	84	3	71	60	3	3	32	1.30
11431069--11431444	41	9.1	40	73	10	222	33	18	19	28	1.95
11431069--11431550	81	5.9	82	77	5	312	34	17	18	29	1.94
11431169--11431550	41	9.3	41	76	4	225	35	17	17	29	1.93
11431287--11431550	40	6.4	41	76	4	183	35	16	16	30	1.92
11431122--11431550	123	3.5	124	77	7	365	35	17	17	29	1.93
11434034--11434087	15	3.5	15	72	18	56	50	7	0	42	1.30
11434030--11434094	32	2.0	32	100	0	130	49	9	0	41	1.35
11434368--11434406	20	2.0	20	84	0	51	41	2	10	46	1.51
11435732--11435937	42	4.8	42	85	3	259	33	17	20	28	1.95
11435732--11435975	87	2.8	86	80	7	280	33	16	20	28	1.95
11435735--11435975	42	5.6	42	79	10	175	33	17	20	28	1.95
11440333--11440364	14	2.3	14	94	0	55	68	0	12	18	1.20
11449250--11449274	8	3.1	8	100	0	50	48	52	0	0	1.00
11454905--11454973	23	3.0	23	86	0	93	27	26	26	20	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11454989--11455196	103	2.0	100	93	2	353	37	21	14	26	1.92
11460641--11460686	16	3.0	16	79	17	53	43	0	0	56	0.99
11463649--11463683	4	8.8	4	93	0	61	71	0	0	28	0.86
11464360--11464398	15	2.6	15	87	0	60	61	5	12	20	1.50
11464375--11464431	25	2.2	26	81	9	64	66	5	12	15	1.41
11464823--11464861	10	3.7	10	86	10	51	64	0	5	30	1.15
11465433--11465534	34	2.8	37	89	10	167	43	14	14	27	1.85
11465925--11465967	18	2.5	17	85	7	61	25	4	2	67	1.22
11466222--11466276	20	2.7	20	75	13	58	21	3	1	72	1.09
11466206--11466278	25	3.0	24	71	16	60	24	2	1	71	1.07
11466221--11466279	28	2.1	27	84	12	75	20	3	1	74	1.05
11466552--11466603	21	2.3	25	75	21	60	13	13	3	69	1.33
11467650--11467682	5	6.6	5	100	0	66	18	0	0	81	0.68
11469062--11469100	8	5.0	8	84	6	53	10	17	12	58	1.61
11470991--11471061	22	3.2	22	91	0	115	35	23	12	28	1.92
11471652--11472558	202	4.5	201	91	4	1348	32	26	18	22	1.97
11471652--11472558	100	8.9	102	90	5	1335	32	26	18	22	1.97
11473105--11473203	34	2.9	35	89	10	168	43	14	15	27	1.85
11473785--11473915	57	2.3	55	72	22	121	30	4	3	61	1.31
11473871--11473931	31	2.0	31	84	9	81	24	3	1	70	1.11
11474199--11474252	24	2.3	24	75	21	60	11	14	5	68	1.37
11479811--11479967	65	2.4	64	77	14	169	26	17	24	32	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11481006--11481049	21	2.1	21	86	0	61	34	15	40	9	1.79
11482603--11482682	22	3.6	22	79	5	99	23	25	26	25	2.00
11482607--11482701	44	2.2	42	87	7	129	24	22	26	27	2.00
11482607--11482701	21	4.4	21	77	9	86	24	22	26	27	2.00
11489098--11489173	39	1.9	39	97	0	143	27	31	22	18	1.97
11494089--11494137	19	2.7	17	84	9	53	26	20	28	24	1.99
11494085--11494268	65	2.8	64	79	7	203	26	19	23	29	1.98
11494481--11494522	21	1.9	23	85	9	61	38	11	4	45	1.62
11494667--11494714	24	2.0	24	95	0	87	33	10	12	43	1.77
11502347--11502393	24	2.0	24	91	0	76	34	10	10	44	1.74
11508742--11508787	24	1.9	24	82	8	58	43	23	10	21	1.84
11508752--11508840	24	3.7	24	83	7	110	33	21	19	25	1.97
11513548--11513584	15	2.5	15	86	0	56	59	5	13	21	1.54
11515619--11515657	15	2.6	15	87	0	60	61	5	12	20	1.50
11515918--11515948	11	2.8	11	100	0	62	54	9	16	19	1.68
11517904--11517943	12	3.4	12	89	6	64	20	2	0	77	0.88
11517905--11517944	11	3.5	11	89	3	62	22	2	0	75	0.93
11519115--11519167	3	17.7	3	100	0	106	67	0	0	32	0.91
11528425--11528471	21	2.2	21	84	3	58	44	2	17	36	1.60
11528758--11528793	16	2.3	16	90	4	56	30	0	0	69	0.89
11533597--11533622	2	13.0	2	100	0	52	50	0	0	50	1.00
11536997--11537034	16	2.3	16	95	4	67	26	7	28	36	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11543482--11543509	8	3.5	8	100	0	56	39	0	10	50	1.37
11547008--11547072	8	7.9	8	83	11	69	75	1	10	12	1.12
11547020--11547064	15	2.9	16	86	3	65	80	2	4	13	0.97
11547996--11548313	55	5.9	55	86	3	378	30	15	26	27	1.96
11547996--11548370	54	6.9	53	84	6	346	30	16	26	26	1.96
11548221--11548541	54	5.9	55	86	4	336	31	20	24	23	1.98
11548283--11548541	109	2.4	109	86	4	344	30	22	23	23	1.99
11548796--11548833	2	19.0	2	100	0	76	50	0	0	50	1.00
11551622--11551658	19	1.9	19	88	0	56	16	24	59	0	1.37
11551820--11551873	19	2.7	20	75	18	58	35	3	9	51	1.52
11558223--11558258	14	2.6	14	90	0	54	25	13	2	58	1.49
11559323--11559384	21	3.0	21	68	17	58	29	17	22	30	1.97
11559326--11559384	20	2.9	19	70	20	57	28	18	22	30	1.97
11559614--11559669	18	2.8	20	87	12	89	46	10	14	28	1.78
11567028--11567693	53	12.5	53	93	3	1076	24	25	18	31	1.98
11567028--11567693	160	4.2	160	93	3	1114	24	25	18	31	1.98
11567028--11567693	213	3.1	212	92	3	1108	24	25	18	31	1.98
11569019--11569099	22	3.9	22	81	15	100	9	8	1	80	0.97
11569005--11569099	30	3.1	30	81	17	106	9	7	3	80	1.01
11569024--11569105	40	2.1	39	90	6	130	9	9	0	80	0.91
11569041--11569090	18	3.0	16	86	11	73	10	8	0	82	0.86
11569024--11569084	9	6.3	9	88	9	77	9	8	0	81	0.86
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11569024--11569105	31	2.7	29	87	12	105	9	9	0	80	0.91
11569024--11569105	9	8.2	9	74	16	56	9	9	0	80	0.91
11569025--11569105	21	4.0	21	79	14	89	9	9	0	80	0.91
11575245--11575618	187	2.0	187	100	0	748	22	21	18	37	1.94
11580857--11580891	18	1.9	18	88	0	52	37	17	20	25	1.94
11582560--11583050	139	3.5	138	87	3	664	37	16	20	25	1.93
11583006--11583040	17	2.0	18	94	5	63	45	5	31	17	1.71
11584610--11584640	4	7.8	4	92	0	53	22	0	3	74	0.96
11587477--11587559	39	2.2	39	88	2	123	45	3	0	50	1.19
11587580--11587660	36	2.3	35	78	19	98	44	0	0	55	0.99

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