genome.fa.s9639.2.7.7.80.10.50.1000.49.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: VEPZ01009639.1 Hibiscus syriacus cultivar Beakdansim tig00117048_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  15077257

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   56   57   58   59   60   61   62   

This is table  49  of  62  ( 7398 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)
11052907--11053212	115	2.7	115	80	4	303	35	15	22	26	1.94
11055016--11055058	21	2.0	22	90	4	70	20	2	4	72	1.14
11058375--11058508	45	2.9	47	82	6	159	24	21	6	47	1.75
11058924--11059062	60	2.3	60	92	0	233	30	17	15	35	1.91
11059324--11059375	14	3.7	14	79	5	52	38	26	7	26	1.83
11059445--11059897	59	7.7	59	93	0	771	32	20	15	32	1.93
11060320--11060373	22	2.6	20	77	11	63	29	25	14	29	1.95
11060271--11060464	95	2.1	93	88	1	280	25	23	17	33	1.96
11060413--11060464	20	2.6	20	96	0	95	25	21	19	34	1.96
11063191--11063368	90	2.0	90	92	0	293	43	7	12	36	1.70
11064491--11064530	2	20.5	2	94	5	73	50	0	0	50	1.00
11066612--11067076	59	7.9	59	92	0	750	31	20	15	33	1.93
11067431--11067618	95	2.0	95	87	2	270	26	23	15	34	1.94
11068631--11068962	166	2.0	166	100	0	664	39	19	20	20	1.92
11078042--11078066	2	12.5	2	100	0	50	52	0	0	48	1.00
11082222--11082373	32	4.8	31	70	13	103	32	14	15	38	1.87
11085271--11085350	2	40.5	2	97	2	153	50	0	0	50	1.00
11085431--11085491	17	3.4	17	84	8	68	45	4	4	44	1.46
11085411--11085541	65	2.0	64	81	11	153	44	4	6	44	1.51
11089164--11089214	27	1.9	27	96	4	95	45	15	11	27	1.81
11090311--11090396	35	2.4	36	82	5	104	29	20	17	32	1.96
11091168--11091213	22	2.0	25	83	12	62	21	10	8	58	1.58
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11094488--11094554	31	2.1	31	89	8	100	28	17	16	37	1.92
11100546--11100587	20	2.1	20	86	0	57	33	19	14	33	1.91
11118687--11118718	16	2.0	16	100	0	64	25	0	18	56	1.42
11128878--11128936	26	2.4	24	72	10	64	40	3	10	45	1.54
11128924--11128990	2	34.0	2	95	3	118	47	0	1	50	1.10
11130100--11130158	30	2.0	30	83	3	75	30	3	0	66	1.08
11135997--11136285	81	3.6	80	84	2	373	37	11	19	32	1.87
11146572--11146749	94	1.9	95	86	5	254	38	13	24	23	1.91
11148395--11148727	59	5.7	59	93	0	551	33	14	20	32	1.92
11148947--11149130	68	2.7	68	87	0	251	30	14	23	30	1.95
11149080--11149318	81	3.0	80	84	1	282	36	10	25	27	1.89
11149287--11149343	29	2.0	29	85	0	78	43	5	26	24	1.75
11149481--11149505	2	12.5	2	100	0	50	52	48	0	0	1.00
11150269--11150707	81	5.4	81	84	1	520	37	13	20	28	1.91
11158126--11158226	50	2.0	50	100	0	202	22	23	11	41	1.87
11160533--11160579	23	2.0	23	95	0	85	27	19	27	25	1.99
11163461--11163506	23	2.0	23	91	0	74	45	28	2	23	1.65
11163895--11163953	27	2.2	27	87	0	91	35	27	13	23	1.92
11164114--11164142	12	2.5	12	94	5	51	55	24	0	20	1.44
11169633--11169672	20	2.0	20	100	0	80	40	10	15	35	1.80
11172226--11172276	20	2.6	19	87	6	66	35	15	31	17	1.92
11172693--11172983	55	5.3	55	84	2	379	35	18	19	26	1.94
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11173275--11173390	45	2.5	45	84	4	142	43	7	20	27	1.79
11179962--11180026	28	2.4	28	78	17	73	63	1	4	30	1.24
11182616--11182657	20	2.1	20	95	0	75	16	40	28	14	1.88
11183935--11183982	19	2.5	20	82	3	62	52	6	10	31	1.60
11183986--11184031	23	2.0	23	82	0	56	54	4	10	30	1.55
11185418--11185515	22	4.8	21	79	12	107	23	36	24	15	1.93
11185415--11185515	21	5.0	21	79	9	84	23	36	24	14	1.93
11185455--11185514	18	3.2	18	79	9	75	25	38	23	13	1.91
11185418--11185515	20	4.8	20	80	10	103	23	36	24	15	1.93
11189673--11189930	53	5.0	52	87	4	335	40	20	13	25	1.89
11189671--11189930	103	2.5	105	86	5	350	40	20	14	25	1.90
11196894--11197146	53	4.8	53	87	1	346	39	18	15	26	1.90
11200642--11200819	90	2.0	90	90	0	284	37	11	6	44	1.67
11202501--11202547	21	2.2	21	96	0	85	27	23	21	27	1.99
11208113--11208164	27	1.9	27	84	7	70	48	9	11	30	1.72
11209591--11209907	55	5.8	55	88	1	458	35	17	11	35	1.85
11221989--11222065	38	2.0	38	97	0	145	37	10	27	24	1.88
11226567--11226846	61	4.6	61	75	4	249	36	8	12	42	1.74
11226570--11226846	123	2.3	123	79	5	285	35	8	12	43	1.73
11226903--11227046	69	2.1	71	82	5	177	36	13	12	36	1.83
11227604--11227668	27	2.4	26	78	12	69	49	4	1	44	1.32
11227654--11227723	24	3.1	22	75	8	61	52	1	0	45	1.09
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11232460--11232589	36	3.6	36	69	13	108	40	4	7	46	1.53
11234286--11234331	20	2.3	20	96	0	83	41	17	13	28	1.86
11243439--11243563	47	2.8	45	85	7	164	40	7	20	32	1.79
11246087--11246258	47	3.8	45	84	6	229	33	22	6	37	1.81
11246366--11246524	40	4.0	40	94	0	282	33	25	16	23	1.96
11253097--11253150	20	2.7	20	97	2	99	11	16	42	29	1.83
11254199--11254370	47	3.8	45	84	6	229	33	22	6	37	1.81
11254478--11254636	40	4.0	40	95	0	291	33	25	16	23	1.96
11261732--11261766	10	3.4	10	88	4	52	28	11	2	57	1.48
11262148--11262178	16	1.9	16	93	0	53	64	6	19	9	1.45
11264670--11264704	18	1.9	18	88	0	52	60	5	0	34	1.21
11270832--11270975	77	1.9	78	82	7	186	40	5	10	43	1.62
11271557--11271668	12	9.5	12	73	11	97	43	12	15	28	1.83
11271557--11271668	24	4.8	24	74	12	115	43	12	15	28	1.83
11271557--11271702	70	2.1	70	98	0	283	44	14	14	26	1.83
11271700--11271724	7	3.6	7	100	0	50	48	36	0	16	1.46
11272742--11272780	16	2.4	16	87	8	53	33	0	2	64	1.08
11282141--11282185	21	2.2	20	84	4	54	35	0	0	64	0.94
11282150--11282194	21	2.1	21	88	8	65	31	0	2	66	1.04
11285239--11285280	19	2.2	19	91	0	66	11	38	11	38	1.79
11286530--11288021	55	27.8	54	84	8	1332	26	25	17	31	1.97
11286871--11288022	587	2.0	588	87	7	1680	25	25	17	30	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11293155--11293187	7	4.9	7	85	7	50	51	15	18	15	1.77
11293444--11293540	21	4.6	21	92	2	142	17	18	18	45	1.86
11295584--11295636	2	27.0	2	96	3	99	50	0	0	49	1.00
11295727--11295764	19	2.0	19	100	0	76	47	26	0	26	1.52
11296727--11296768	19	2.2	19	100	0	84	9	40	14	35	1.78
11297741--11297776	3	12.7	3	88	11	58	66	0	0	33	0.92
11301377--11301465	39	2.3	39	84	0	115	32	23	25	17	1.97
11301592--11301657	29	2.3	26	78	17	62	51	12	13	22	1.74
11303543--11303858	41	7.6	42	89	1	469	22	19	25	32	1.97
11303602--11303712	20	5.4	20	64	19	59	22	21	22	33	1.97
11303938--11303970	6	5.5	6	100	0	66	33	51	15	0	1.43
11304649--11304688	6	6.7	6	88	0	53	0	22	47	30	1.52
11320437--11320507	9	7.3	9	78	10	70	0	4	12	83	0.79
11320437--11320507	20	3.7	19	74	9	72	0	4	12	83	0.79
11320444--11320470	12	2.2	12	100	0	54	0	0	14	85	0.61
11323598--11323643	21	2.2	21	84	0	56	17	2	21	58	1.49
11323611--11323653	21	2.1	21	91	4	70	13	4	18	62	1.48
11325262--11325365	31	3.4	31	95	0	181	34	17	7	40	1.78
11345024--11345067	19	2.4	19	82	14	56	25	20	4	50	1.67
11350710--11350739	14	2.1	14	93	0	51	10	13	16	60	1.59
11351421--11351446	12	2.2	12	100	0	52	53	7	0	38	1.30
11353213--11353257	20	2.2	20	96	0	81	24	20	20	35	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
11355253--11355305	19	2.8	19	94	0	88	33	3	22	39	1.72
11358272--11358320	21	2.3	21	82	0	62	34	18	24	22	1.96
11366249--11366296	20	2.4	20	82	0	60	62	10	10	16	1.53
11366288--11366326	20	2.0	20	100	0	78	46	7	25	20	1.77
11374063--11374170	2	54.0	2	100	0	216	50	0	0	50	1.00
11375961--11376008	23	2.1	23	84	7	62	20	6	2	70	1.19
11379240--11379288	22	2.2	22	92	0	80	34	24	22	18	1.96
11380801--11380843	16	2.7	16	81	0	50	48	30	13	6	1.69
11381090--11381218	64	2.0	64	81	3	152	38	30	13	17	1.88
11384558--11384778	110	2.0	111	89	0	336	48	7	8	36	1.61

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   56   57   58   59   60   61   62