genome.fa.s9643.2.7.7.80.10.50.1000.29.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: VEPZ01009643.1 Hibiscus syriacus cultivar Beakdansim tig00117056_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  8859806

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   

This is table  29  of  41  ( 4862 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)
6170130--6170228	33	3.0	33	94	1	164	32	7	15	45	1.73
6170214--6170268	13	4.2	13	75	13	58	34	3	12	49	1.59
6170464--6170516	21	2.5	22	90	6	83	22	20	28	28	1.99
6171719--6171759	10	4.2	10	82	11	50	39	0	0	60	0.96
6172232--6172336	36	2.9	35	85	1	129	21	22	21	33	1.97
6174046--6174086	21	1.9	22	85	5	57	34	4	7	53	1.50
6184527--6184910	165	2.4	165	86	6	523	30	25	17	26	1.97
6184527--6184887	55	6.6	55	86	3	431	29	24	18	26	1.98
6184917--6185023	37	2.9	37	85	2	117	24	20	16	38	1.93
6186212--6186296	45	1.9	44	82	2	107	15	25	17	41	1.89
6186294--6186345	20	2.7	20	77	19	56	7	13	0	78	0.94
6186345--6186374	7	4.3	7	95	0	51	13	23	0	63	1.29
6186373--6186434	7	8.9	7	83	5	81	0	16	0	83	0.64
6186294--6186435	21	7.2	19	71	19	76	5	16	0	77	0.95
6186373--6186419	15	3.2	15	93	6	87	0	12	0	87	0.55
6196088--6196198	45	2.4	48	86	10	158	40	19	10	28	1.86
6201337--6201401	3	22.0	3	87	9	98	64	0	1	33	1.03
6201392--6201428	17	2.0	20	85	15	53	75	0	5	18	0.99
6201759--6201870	37	3.0	37	86	0	161	33	12	10	43	1.77
6208444--6208509	3	22.3	3	76	14	66	57	0	0	42	0.98
6208444--6208497	22	2.4	24	76	20	71	59	0	0	40	0.98
6208667--6209732	76	14.1	76	96	1	1908	35	21	21	21	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6210411--6210465	22	2.5	22	93	0	101	40	14	10	34	1.81
6211810--6211981	74	2.3	73	84	5	211	29	20	15	34	1.94
6213274--6213696	92	4.6	92	93	0	675	36	22	13	27	1.91
6220574--6220624	26	2.1	23	85	10	66	70	0	1	27	0.98
6222797--6222852	3	19.0	3	79	17	64	60	0	0	39	0.97
6222799--6222850	22	2.3	24	78	18	67	59	0	0	40	0.97
6222792--6222856	19	3.4	19	82	16	80	58	0	0	41	0.98
6222797--6222852	20	2.7	22	86	10	82	60	0	0	39	0.97
6224350--6224406	16	3.7	16	90	4	73	52	1	0	45	1.11
6224366--6224406	2	20.5	2	100	0	82	51	0	0	48	1.00
6225180--6225222	21	2.0	21	81	0	50	27	27	25	18	1.98
6226137--6226161	4	6.2	4	100	0	50	28	0	24	48	1.52
6226413--6226575	30	5.4	30	97	0	308	23	19	24	32	1.97
6229914--6229956	21	2.0	21	81	0	50	27	27	25	18	1.98
6231063--6231158	31	3.1	30	71	12	79	27	19	20	32	1.97
6231141--6231333	30	6.4	30	98	0	359	24	20	23	32	1.98
6233670--6233730	30	2.0	31	84	9	81	45	0	1	52	1.10
6234158--6234188	13	2.4	13	100	0	62	25	0	29	45	1.54
6235026--6235069	23	1.9	23	81	9	54	36	2	2	59	1.23
6235483--6235508	3	8.7	3	100	0	52	69	0	0	30	0.89
6238874--6238921	17	2.8	17	84	6	53	72	2	4	20	1.11
6239662--6239737	28	2.6	28	81	18	86	42	1	1	55	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6241560--6241586	14	1.9	14	100	0	54	18	0	14	66	1.25
6246850--6246936	35	2.5	34	80	12	97	54	10	8	27	1.62
6265081--6265112	2	15.5	2	93	6	55	46	3	0	50	1.17
6274114--6274213	2	50.0	2	100	0	200	50	0	0	50	1.00
6279756--6279877	31	3.9	31	89	4	176	21	17	22	38	1.93
6281013--6281050	19	2.0	19	94	0	67	39	26	21	13	1.89
6281723--6281760	17	2.2	17	100	0	76	21	0	23	55	1.44
6285456--6285500	24	2.0	24	91	8	76	57	0	28	13	1.36
6301814--6301841	2	14.0	2	100	0	56	50	0	0	50	1.00
6306564--6306609	24	1.9	24	100	0	92	41	15	13	30	1.85
6308008--6308032	3	8.3	3	100	0	50	36	0	0	64	0.94
6311838--6311950	55	2.1	55	89	0	172	42	13	23	21	1.87
6311846--6311968	55	2.2	55	85	0	156	44	16	21	17	1.86
6312630--6312779	72	2.1	72	93	2	257	37	12	26	24	1.90
6316061--6316286	125	1.8	125	91	0	371	31	15	26	26	1.95
6317503--6317634	36	3.6	36	91	1	201	37	21	18	21	1.94
6317503--6317652	73	2.1	73	85	2	203	35	22	17	24	1.95
6317503--6317652	36	4.1	36	88	1	192	35	22	17	24	1.95
6318035--6318326	54	5.5	54	92	2	470	36	19	25	18	1.95
6318321--6318501	51	3.5	51	82	2	220	32	16	23	28	1.96
6318321--6318497	52	3.5	51	82	2	221	31	15	23	28	1.96
6318312--6318498	103	1.8	102	87	3	277	31	16	23	29	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6320137--6320188	27	1.9	27	92	0	86	26	9	13	50	1.72
6320146--6320201	27	2.2	27	78	18	66	26	12	12	48	1.77
6323600--6323637	15	2.6	14	91	4	58	81	0	0	18	0.69
6323557--6323628	35	2.1	34	82	14	87	73	1	9	15	1.15
6324785--6324820	3	12.3	3	94	5	65	69	0	0	30	0.89
6324891--6324960	26	2.7	26	91	2	106	47	5	4	42	1.47
6324923--6325132	72	2.8	73	78	18	222	42	8	7	42	1.62
6324923--6325091	36	4.7	36	82	10	186	43	7	6	42	1.57
6332026--6332072	16	2.8	17	90	6	69	36	6	27	29	1.82
6332600--6332704	39	2.9	36	83	12	135	42	32	9	15	1.79
6332600--6332757	72	2.1	72	83	6	192	40	32	10	15	1.82
6332607--6332739	39	3.6	38	82	9	134	42	30	9	17	1.81
6332600--6332757	38	4.3	38	82	9	175	40	32	10	15	1.82
6336151--6336256	3	35.7	3	96	1	196	34	0	0	65	0.93
6336736--6336785	26	2.0	25	84	11	66	74	8	16	2	1.15
6337042--6338152	561	2.0	563	99	0	2181	30	15	16	37	1.90
6338223--6338263	20	2.0	21	85	4	57	36	2	2	58	1.24
6340413--6340454	7	6.0	7	81	8	50	14	16	14	54	1.71
6340413--6340454	15	3.0	14	83	10	50	14	16	14	54	1.71
6340508--6340567	27	2.3	26	82	2	75	21	11	8	58	1.59
6342513--6342542	10	3.0	10	90	0	51	86	0	13	0	0.57
6342518--6342548	9	3.4	9	90	0	53	83	0	16	0	0.64
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6342517--6342548	10	3.4	10	83	16	50	84	0	15	0	0.63
6344780--6345005	114	2.0	114	91	0	371	32	15	21	30	1.95
6347574--6347628	22	2.5	22	87	0	83	34	14	14	36	1.87
6348028--6348312	113	2.5	112	89	4	412	38	14	18	28	1.90
6348214--6348385	73	2.4	73	88	3	240	35	13	18	33	1.89
6348287--6348762	113	4.2	114	91	2	712	38	12	19	29	1.88
6348101--6348498	186	2.1	186	97	0	744	36	13	19	31	1.90
6348028--6348611	299	2.0	299	88	2	888	37	13	18	30	1.89
6349012--6349124	3	37.7	3	92	0	190	35	1	0	62	1.05
6349602--6349651	26	2.0	25	84	11	66	74	8	16	2	1.15
6349907--6349933	13	2.1	13	100	0	54	0	33	59	7	1.25
6350536--6350576	20	2.0	21	85	4	57	36	2	2	58	1.24
6353444--6353468	7	3.6	7	100	0	50	44	12	0	44	1.41
6353464--6353493	15	2.0	15	100	0	60	33	0	0	66	0.92
6353462--6353595	70	1.9	69	82	8	166	36	3	8	51	1.50
6353466--6353621	69	2.2	69	80	6	172	34	5	7	53	1.50
6356985--6357059	6	12.5	6	100	0	150	0	16	50	33	1.45
6361912--6361967	28	2.1	27	83	6	69	37	0	3	58	1.15
6362548--6362601	25	2.2	25	96	0	99	37	22	11	29	1.89
6364130--6364201	35	2.0	37	91	5	121	18	31	30	19	1.95
6364608--6364649	20	2.0	20	86	9	57	50	4	14	30	1.63
6364809--6364842	15	2.3	15	94	0	59	17	23	29	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6370167--6370266	20	5.6	18	65	29	54	17	33	28	22	1.96
6370160--6370264	35	3.0	35	94	0	192	19	31	29	20	1.96
6370606--6370638	5	6.8	5	86	6	50	42	3	15	39	1.62
6370606--6370645	19	2.1	19	100	0	80	42	5	15	37	1.68
6370890--6370969	15	5.3	15	100	0	160	13	25	33	27	1.93
6379026--6379094	30	2.3	30	89	0	102	20	28	27	23	1.99
6379048--6379151	30	3.5	30	73	15	81	18	30	30	20	1.96
6380109--6380139	15	2.1	15	93	0	53	61	3	0	35	1.12
6380111--6380149	15	2.6	15	87	0	51	61	7	0	30	1.24
6380236--6380278	8	4.8	9	81	18	54	62	0	0	37	0.95

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