genome.fa.s8747.2.7.7.80.10.50.1000.23.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: VEPZ01008747.1 Hibiscus syriacus cultivar Beakdansim tig00111837_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12616935

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   

This is table  23  of  51  ( 6054 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)
6024539--6024574	15	2.4	15	90	0	54	55	0	25	19	1.43
6024716--6024786	25	3.0	23	80	17	65	30	2	33	32	1.72
6024735--6024783	13	3.8	13	79	15	57	30	2	34	32	1.69
6024733--6024786	25	2.2	25	90	3	83	31	1	33	33	1.69
6026767--6027122	177	2.0	178	98	1	687	31	17	15	36	1.90
6030783--6030984	45	4.5	45	96	0	370	30	23	7	38	1.82
6032664--6032703	20	2.0	20	100	0	80	35	0	45	20	1.51
6034736--6034809	24	3.2	24	61	24	59	33	22	2	40	1.69
6034707--6034921	45	4.8	45	91	1	342	32	22	6	38	1.81
6035002--6035082	40	2.0	40	83	4	101	25	24	24	24	2.00
6043544--6043733	45	4.2	45	97	0	353	32	24	5	37	1.79
6045208--6045292	11	7.2	11	72	22	66	31	36	3	28	1.74
6045205--6045309	36	2.9	36	94	1	176	30	37	4	27	1.77
6049703--6049787	11	7.2	11	72	22	66	31	36	3	28	1.74
6049700--6049804	36	2.9	36	94	1	176	30	37	4	27	1.77
6060071--6060155	11	7.2	11	72	22	66	31	36	3	28	1.74
6060068--6060172	36	2.9	36	94	1	176	30	37	4	27	1.77
6064567--6064651	11	7.2	11	72	22	66	31	36	3	28	1.74
6064564--6064668	36	2.9	36	94	1	176	30	37	4	27	1.77
6065347--6065383	16	2.4	16	90	4	58	40	16	8	35	1.78
6073911--6074112	45	4.5	45	95	0	361	31	23	6	38	1.81
6081251--6081407	45	3.5	45	96	0	271	31	24	7	36	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6097364--6097421	17	3.6	15	81	9	62	74	5	17	3	1.15
6097374--6097437	25	2.5	26	83	14	80	70	4	17	7	1.29
6100264--6100384	23	5.1	23	68	24	65	30	35	4	29	1.76
6100261--6100401	36	3.9	36	93	0	239	29	35	4	29	1.79
6100264--6100384	11	10.2	11	69	23	68	30	35	4	29	1.76
6100794--6100829	12	3.1	11	88	11	54	77	0	22	0	0.76
6100794--6100826	17	1.9	17	88	11	50	78	0	21	0	0.75
6100851--6100897	14	3.1	15	75	12	51	72	6	19	2	1.17
6105604--6105639	2	18.5	2	88	5	56	50	0	0	50	1.00
6111420--6111448	15	2.0	15	93	6	51	0	20	3	75	0.94
6111520--6111549	12	2.5	12	94	0	51	16	26	10	46	1.78
6118685--6118756	20	3.7	19	76	20	69	9	12	4	73	1.22
6118685--6118756	21	3.7	20	73	14	62	9	12	4	73	1.22
6121376--6121417	18	2.2	20	80	16	54	76	0	21	2	0.90
6122665--6122818	11	13.0	11	74	22	118	29	2	35	32	1.71
6122688--6122791	23	4.4	23	69	27	83	28	2	36	31	1.72
6122675--6122829	72	2.2	72	97	0	292	29	2	35	32	1.71
6122675--6122830	36	4.3	36	93	0	258	29	3	35	32	1.74
6127236--6127380	11	12.2	11	73	22	100	28	3	35	31	1.74
6127250--6127353	23	4.4	23	67	27	74	28	3	36	30	1.75
6127216--6127392	36	4.9	36	94	0	293	28	4	35	31	1.77
6143804--6143908	33	3.1	33	82	9	97	30	36	1	31	1.69
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6148221--6148324	33	3.1	33	82	9	95	30	36	1	30	1.69
6150234--6150295	25	2.5	25	100	0	124	25	20	12	40	1.89
6161374--6161425	21	2.6	21	90	6	81	34	13	5	46	1.67
6165312--6165363	21	2.6	21	90	6	81	34	13	5	46	1.67
6196258--6196362	36	2.9	36	92	1	167	29	37	5	27	1.80
6197805--6197867	10	6.5	10	80	10	69	74	14	11	0	1.07
6197806--6197867	29	2.1	30	90	3	99	75	12	11	0	1.04
6207105--6207154	19	2.6	20	84	12	61	64	0	12	24	1.27
6207937--6207996	25	2.3	27	81	13	74	6	15	5	73	1.22
6209836--6209885	19	2.6	19	84	12	59	62	0	14	24	1.32
6210304--6210355	19	2.6	21	90	6	81	46	7	13	32	1.72
6213766--6213815	19	2.6	20	84	12	61	64	0	12	24	1.27
6214234--6214277	21	2.2	21	92	8	74	47	6	11	34	1.66
6219135--6219220	13	7.2	12	72	22	58	29	3	37	30	1.74
6219117--6219221	36	2.9	36	94	1	176	27	4	37	30	1.77
6221530--6221581	19	2.6	21	90	6	81	46	7	13	32	1.72
6225624--6225675	19	2.6	21	90	6	81	46	7	13	32	1.72
6228668--6228702	17	2.1	17	100	0	70	54	17	17	11	1.71
6231749--6231833	11	7.2	11	69	22	57	30	36	3	29	1.74
6231746--6231850	36	2.9	36	90	4	160	29	37	4	28	1.78
6232297--6232337	17	2.4	17	100	0	82	68	9	12	9	1.40
6234121--6234205	11	7.2	11	72	22	66	31	35	3	29	1.75
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6234118--6234222	36	2.9	36	92	1	167	30	36	4	28	1.78
6234667--6234713	14	3.1	15	75	12	51	72	6	19	2	1.17
6239826--6239994	36	4.7	36	94	0	295	30	34	4	29	1.78
6239887--6239983	13	8.0	12	68	25	53	30	35	3	30	1.73
6245048--6245152	36	2.9	36	92	1	167	30	36	4	28	1.78
6248294--6248348	24	2.3	24	96	0	101	16	30	16	36	1.91
6248908--6249012	36	2.9	36	92	1	167	30	36	4	28	1.78
6252156--6252210	24	2.3	24	96	0	101	16	30	16	36	1.91
6252770--6252874	36	2.9	36	92	1	167	30	36	4	28	1.78
6256016--6256070	24	2.3	24	96	0	101	16	30	16	36	1.91
6256627--6256731	36	2.9	36	92	1	167	30	36	4	28	1.78
6259873--6259927	24	2.3	24	100	0	110	16	29	16	38	1.90
6260487--6260591	36	2.9	36	92	1	167	30	36	4	28	1.78
6263730--6263784	24	2.3	24	96	0	101	16	30	16	36	1.91
6264344--6264448	36	2.9	36	92	1	167	30	36	4	28	1.78
6267584--6267638	24	2.3	24	96	0	101	16	30	16	36	1.91
6268198--6268282	11	7.2	11	72	22	66	31	36	3	28	1.74
6268195--6268299	36	2.9	36	94	1	176	30	37	4	27	1.77
6272087--6272169	11	7.1	11	74	22	71	32	34	3	28	1.75
6272065--6272169	36	2.9	36	91	1	158	29	36	5	28	1.80
6272070--6272169	24	4.3	22	71	25	64	31	36	4	29	1.76
6280828--6280873	19	2.3	19	85	11	56	80	6	13	0	0.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6296373--6296428	10	5.5	10	81	10	60	0	5	12	82	0.83
6296373--6296428	21	2.8	21	89	5	89	0	5	12	82	0.83
6296561--6296657	50	1.9	50	91	0	158	35	25	19	19	1.96
6306845--6306899	23	2.3	25	84	6	78	60	12	18	9	1.58
6313819--6313859	18	2.3	18	82	0	55	4	9	12	73	1.24
6313835--6313877	8	4.9	8	79	20	50	2	4	9	83	0.87
6313835--6313879	20	2.4	18	85	7	63	2	4	8	84	0.84
6317373--6317418	23	2.0	23	87	4	67	56	15	15	13	1.68
6321677--6321731	23	2.3	25	84	6	78	60	12	18	9	1.58
6331844--6331880	15	2.4	16	90	4	58	13	10	5	70	1.32
6332233--6332295	8	8.0	8	76	16	69	82	11	6	0	0.83
6332252--6332292	14	2.8	14	92	7	64	80	9	9	0	0.91
6332269--6332306	20	1.9	20	88	0	58	78	10	10	0	0.95
6339410--6339513	23	4.4	23	65	27	65	27	3	36	31	1.75
6339348--6339516	36	4.7	36	92	0	286	27	5	36	30	1.79
6352859--6352902	22	2.0	23	90	4	72	13	18	11	56	1.66
6354677--6354711	15	2.3	15	100	0	70	28	11	34	25	1.91
6354829--6354868	19	2.0	20	90	4	64	20	15	0	65	1.28
6355158--6355182	8	3.1	8	100	0	50	76	0	24	0	0.80
6355124--6355195	35	2.1	35	84	10	94	75	2	19	2	1.06
6355123--6355195	13	5.7	12	72	23	51	75	2	19	2	1.05
6355124--6355190	27	2.6	26	71	21	68	76	2	19	1	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6364082--6364141	11	5.5	11	84	7	77	85	8	5	1	0.81
6364082--6364147	33	2.1	30	91	8	105	83	9	6	1	0.87
6368803--6368863	1	61.0	1	78	0	50	86	8	4	0	0.69
6368803--6368870	11	6.4	11	89	1	95	83	10	5	0	0.79
6368803--6368863	10	5.8	10	88	7	86	86	8	4	0	0.69
6373441--6373474	13	2.6	13	85	0	50	32	0	35	32	1.58
6378814--6378843	13	2.4	13	94	5	53	43	0	30	26	1.55
6384081--6384120	20	1.9	20	85	10	53	32	7	32	27	1.85
6385453--6385482	13	2.4	13	94	5	53	26	30	0	43	1.55
6389634--6389673	20	1.9	20	85	10	53	32	7	32	27	1.85

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