genome.fa.s1465.2.7.7.80.10.50.1000.33.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: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

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   55   

This is table  33  of  55  ( 6520 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)
6535568--6535650	21	3.9	21	76	9	60	57	14	1	26	1.44
6537111--6537213	36	2.9	36	89	0	161	35	11	25	27	1.90
6537152--6537261	51	2.2	51	89	0	166	36	13	26	23	1.92
6537190--6537228	15	2.6	15	95	0	69	33	17	33	15	1.92
6537203--6537320	36	3.3	36	90	0	182	37	11	27	23	1.90
6537165--6537263	51	1.9	51	93	0	171	35	14	27	23	1.93
6537116--6537299	87	2.1	87	89	2	280	36	12	26	24	1.91
6537272--6537510	67	3.6	66	89	1	361	40	10	20	28	1.86
6537372--6537485	30	3.6	29	68	23	77	39	10	19	30	1.85
6537394--6537544	37	4.2	38	70	22	112	41	11	18	28	1.86
6545697--6545727	15	2.0	16	93	6	55	58	3	6	32	1.40
6553783--6553830	23	2.1	23	84	0	60	37	12	16	33	1.86
6554261--6554319	23	2.6	23	91	0	91	38	15	5	40	1.69
6553897--6554954	431	2.5	430	96	1	1922	38	11	7	41	1.70
6554688--6554750	23	2.7	23	92	0	99	38	20	4	36	1.74
6555172--6555257	39	2.2	39	93	0	145	18	13	18	48	1.80
6555971--6556033	23	2.7	23	92	0	99	38	20	4	36	1.74
6556049--6556098	22	2.3	22	80	16	68	40	10	12	38	1.76
6559793--6559835	20	2.3	18	85	14	61	20	16	11	51	1.75
6559798--6559844	20	2.4	19	82	10	67	19	17	10	53	1.72
6559979--6560025	20	2.3	20	89	10	78	17	17	10	55	1.69
6559765--6560237	181	2.6	182	89	1	680	26	17	14	42	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6560304--6560790	229	2.1	228	94	0	866	40	7	7	44	1.61
6566679--6566726	23	2.1	23	84	0	60	37	12	16	33	1.86
6567157--6567215	23	2.6	23	88	0	82	38	16	5	38	1.71
6566793--6567849	431	2.5	430	96	0	1929	39	11	7	41	1.70
6567584--6567646	23	2.7	23	92	0	99	38	20	4	36	1.74
6568069--6568154	39	2.2	39	93	0	145	18	13	18	48	1.80
6580201--6580288	33	2.7	30	77	17	88	43	0	0	56	0.99
6580204--6580297	30	3.1	30	77	8	77	42	0	0	57	0.98
6590627--6590651	11	2.3	11	100	0	50	52	8	8	32	1.60
6596693--6596734	18	2.3	19	84	12	52	52	4	2	40	1.35
6597996--6598064	2	37.5	2	80	16	87	50	0	0	49	1.00
6597985--6598067	29	2.8	32	83	12	113	53	0	0	46	1.00
6598720--6598763	20	2.2	20	91	0	70	40	18	18	22	1.91
6604062--6604100	15	2.6	15	87	0	60	20	23	12	43	1.86
6605415--6605456	18	2.3	19	84	12	52	52	4	2	40	1.35
6606702--6606762	14	4.0	14	76	21	52	50	0	1	47	1.10
6606702--6606750	17	2.9	17	85	8	66	51	0	0	48	1.00
6606703--6606762	17	3.5	16	82	15	59	51	0	1	46	1.10
6606738--6606764	14	1.9	14	100	0	54	51	0	3	44	1.19
6615763--6615827	33	1.9	35	81	6	80	49	4	1	44	1.32
6616871--6616900	15	2.0	15	93	0	51	23	40	16	20	1.91
6619052--6619120	2	34.5	2	97	0	129	49	0	1	49	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6620712--6621015	53	5.8	53	85	2	364	23	26	19	30	1.98
6621508--6621595	42	2.1	42	82	2	106	32	23	17	26	1.96
6621542--6621601	22	2.9	20	75	18	68	30	21	25	23	1.99
6621373--6621723	121	2.9	122	84	1	447	31	20	18	30	1.96
6621640--6621732	42	2.2	42	82	0	123	33	19	20	26	1.96
6621852--6621952	42	2.4	41	86	3	148	30	21	20	26	1.98
6629097--6629249	68	2.2	69	87	2	211	27	26	27	18	1.98
6629552--6629623	29	2.5	29	93	0	117	38	9	12	38	1.76
6629916--6629980	22	3.0	22	97	0	121	18	24	27	29	1.98
6636046--6636197	68	2.2	68	87	3	209	27	26	27	17	1.98
6636500--6636571	29	2.5	29	93	0	117	38	9	12	38	1.76
6636865--6636931	22	3.0	22	100	0	134	19	26	26	26	1.99
6638822--6638868	17	2.8	17	96	0	85	57	0	0	42	0.98
6641583--6641679	42	2.4	40	79	12	108	37	10	17	35	1.84
6641586--6641690	39	2.6	41	79	8	108	39	11	17	32	1.85
6653104--6653133	2	15.0	2	100	0	60	50	0	0	50	1.00
6654543--6654588	18	2.6	18	93	3	76	28	28	8	34	1.87
6654749--6654778	2	15.5	2	93	6	53	50	0	0	50	1.00
6654991--6655041	25	2.0	26	88	3	77	33	1	0	64	1.05
6654993--6655058	26	2.6	25	76	7	69	31	4	1	62	1.25
6657831--6657885	3	18.3	3	81	7	67	63	1	3	30	1.22
6659715--6660240	201	2.6	199	82	6	580	36	9	19	33	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6659773--6660240	200	2.3	201	84	5	547	35	10	20	33	1.87
6660905--6660956	21	2.7	21	75	25	69	67	3	0	28	1.08
6660915--6660953	16	2.4	17	91	8	64	69	5	0	25	1.09
6663327--6663389	31	2.0	31	87	0	90	23	19	20	36	1.95
6663375--6663446	29	2.4	30	83	2	83	19	19	29	31	1.96
6665955--6665991	16	2.3	16	95	0	65	37	10	10	40	1.75
6667578--6667640	31	2.1	31	84	3	83	20	20	26	31	1.98
6667957--6667992	2	18.0	2	100	0	72	50	0	0	50	1.00
6668742--6668868	50	2.5	51	84	8	161	39	1	7	51	1.41
6668793--6668875	18	4.7	17	71	12	69	34	1	8	55	1.38
6668807--6668887	18	4.4	18	71	18	60	34	1	7	56	1.35
6672462--6672521	26	2.3	27	81	13	72	41	0	3	55	1.16
6674099--6674164	21	3.2	21	84	2	80	19	30	22	27	1.98
6674854--6674896	14	3.1	14	100	0	86	58	13	0	27	1.37
6674963--6675153	63	3.0	63	94	0	328	36	23	1	39	1.62
6674982--6675147	23	7.8	22	63	18	73	36	21	1	41	1.61
6675289--6675970	233	2.9	234	87	3	906	32	23	23	21	1.98
6675397--6675954	117	4.8	116	90	0	812	32	22	23	21	1.98
6679137--6679178	21	2.0	21	85	0	57	50	0	0	50	1.00
6679836--6679868	16	2.1	16	94	0	57	57	18	3	21	1.53
6679906--6679961	22	2.5	22	85	2	76	30	21	14	33	1.93
6681541--6681647	7	15.4	7	75	5	83	18	0	34	45	1.56
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6681771--6681833	11	5.9	11	69	14	51	38	1	3	57	1.24
6682155--6682287	60	2.2	61	89	1	205	28	30	23	17	1.97
6694176--6694261	25	3.4	25	82	6	102	54	3	26	15	1.57
6704409--6704590	91	2.0	91	85	2	249	36	16	23	23	1.94
6708803--6708851	25	1.9	26	83	4	64	32	32	2	32	1.70
6711557--6711640	34	2.5	33	84	11	100	58	7	8	26	1.53
6714014--6714053	10	4.0	10	86	0	62	32	0	40	27	1.57
6714011--6714050	20	2.0	20	100	0	80	35	0	40	25	1.56
6715062--6715112	19	2.9	17	82	8	59	72	0	9	17	1.11
6715601--6715650	23	2.2	23	85	7	66	64	2	2	32	1.16
6716840--6716870	15	2.1	15	93	0	53	54	3	0	41	1.16
6717771--6718941	106	11.0	106	92	1	1776	22	18	25	34	1.96
6720501--6720545	22	2.2	19	84	11	54	4	8	8	77	1.10
6720523--6720570	15	3.4	13	83	11	51	0	10	6	83	0.81
6720524--6720578	18	3.0	18	82	10	67	1	9	7	81	0.93
6723997--6724034	19	2.0	20	89	5	60	68	0	23	7	1.16
6725130--6725180	19	2.9	17	82	8	59	72	0	9	17	1.11
6725621--6725670	23	2.2	23	85	7	66	64	2	2	32	1.16
6732723--6733115	55	7.1	55	93	0	606	27	28	15	29	1.96
6734120--6734179	8	7.9	8	74	23	58	15	10	0	75	1.05
6737692--6737719	8	3.5	8	100	0	56	50	10	0	39	1.37
6744170--6744207	16	2.3	16	90	4	58	34	28	10	26	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6747516--6747564	2	24.5	2	100	0	98	48	0	0	51	1.00
6748423--6748462	18	2.2	19	90	4	64	57	0	0	42	0.98
6749945--6749974	11	2.6	12	89	10	53	0	33	0	66	0.92
6751421--6751540	31	3.9	30	72	18	88	30	18	20	30	1.96
6751529--6751600	30	2.4	30	90	0	108	23	19	25	31	1.98
6752604--6752667	27	2.4	27	94	0	110	26	15	17	40	1.89
6753792--6753829	15	2.5	15	100	0	76	68	0	21	10	1.19
6762391--6762438	21	2.3	21	100	0	96	45	10	4	39	1.58
6766373--6766420	20	2.4	20	71	0	51	64	16	8	10	1.48
6770298--6770626	20	16.5	20	86	3	430	34	26	19	20	1.96

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   55