genome.fa.s7926.2.7.7.80.10.50.1000.16.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: VEPZ01007926.1 Hibiscus syriacus cultivar Beakdansim tig00110332_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10075380

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   

This is table  16  of  42  ( 5024 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)
3372685--3372722	19	2.1	18	95	5	67	73	0	0	26	0.83
3373241--3373387	37	4.0	37	94	0	258	31	16	11	40	1.84
3373824--3373952	35	3.7	35	91	2	197	32	11	17	38	1.85
3373824--3373952	69	1.9	69	90	0	204	32	11	17	38	1.85
3373926--3374092	67	2.5	65	80	7	178	40	10	19	29	1.86
3373926--3374092	66	2.5	66	82	5	187	40	10	19	29	1.86
3374243--3374491	106	2.3	106	90	0	390	22	18	24	34	1.96
3375188--3375276	33	2.8	32	81	3	115	38	21	7	32	1.82
3376342--3376390	13	3.8	13	79	15	57	4	16	6	73	1.19
3376341--3376392	27	2.0	25	88	7	77	5	15	5	73	1.22
3379333--3379361	7	4.1	7	100	0	58	72	0	0	27	0.85
3379888--3380032	37	3.9	37	89	0	218	32	11	13	42	1.80
3381163--3381202	2	20.5	2	94	5	73	52	0	0	47	1.00
3381817--3381858	21	2.0	20	86	4	57	52	9	0	38	1.34
3387063--3387088	2	13.0	2	100	0	52	50	0	0	50	1.00
3390585--3390636	2	26.0	2	100	0	104	50	0	0	50	1.00
3392429--3392466	18	2.1	18	95	0	67	39	23	15	21	1.92
3394803--3394943	64	2.2	62	80	9	151	33	18	22	25	1.97
3394931--3394988	20	2.7	20	84	10	71	32	18	22	25	1.97
3398669--3398808	64	2.2	63	81	7	158	32	17	23	26	1.97
3398816--3398853	20	1.9	20	100	0	76	31	21	23	23	1.98
3404018--3404083	23	2.9	23	83	0	78	34	27	21	16	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3404239--3404280	19	2.2	20	86	4	59	61	4	2	30	1.29
3404695--3404725	15	2.0	16	93	6	55	29	32	12	25	1.93
3408301--3408380	21	3.8	21	80	9	81	17	25	35	22	1.95
3408321--3408382	20	2.9	21	88	7	81	19	25	33	20	1.96
3411384--3411435	2	26.5	2	92	3	88	48	1	0	50	1.12
3416496--3416535	18	2.2	18	95	0	71	30	30	20	20	1.97
3417555--3417597	22	2.0	22	90	0	68	18	11	13	55	1.68
3419245--3419291	24	2.0	24	95	0	85	55	10	8	25	1.62
3420674--3420797	61	2.0	62	84	9	164	48	4	8	39	1.52
3421270--3421401	60	2.2	59	82	1	156	37	7	15	40	1.75
3421288--3421412	59	2.1	60	81	1	144	35	8	18	37	1.82
3426174--3426233	29	2.1	29	93	3	104	41	1	0	56	1.09
3426554--3426592	17	2.3	17	86	8	53	38	0	2	58	1.12
3430392--3430430	15	2.6	15	100	0	78	17	7	48	25	1.74
3437773--3437807	18	1.9	18	88	0	52	31	5	14	48	1.67
3443121--3443183	2	31.5	2	100	0	126	50	0	0	49	1.00
3444170--3444212	12	3.3	13	81	18	54	25	4	0	69	1.07
3444418--3444451	15	2.3	15	94	0	59	50	8	11	29	1.69
3445230--3445277	24	2.0	24	100	0	96	50	16	4	29	1.64
3456444--3456504	23	2.7	22	89	2	86	22	32	24	19	1.97
3461110--3461154	21	2.1	21	87	0	63	31	28	24	15	1.96
3462283--3462378	32	3.0	32	78	14	117	29	16	18	35	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3462370--3462582	30	7.1	30	95	0	365	22	21	24	31	1.98
3465749--3465793	22	2.0	22	86	4	63	31	33	26	8	1.87
3466848--3466943	32	3.0	32	75	14	108	29	15	18	36	1.92
3466849--3466946	31	3.2	30	76	11	99	29	17	18	34	1.94
3466933--3466985	26	2.2	23	81	18	79	24	16	26	32	1.97
3466935--3467113	30	6.1	30	94	3	296	21	21	25	30	1.98
3468842--3468877	2	18.0	2	100	0	72	50	0	0	50	1.00
3473544--3473616	28	2.5	31	82	10	82	38	10	8	42	1.70
3477082--3477450	20	18.5	20	85	4	458	34	26	18	20	1.96
3478124--3478170	24	2.0	24	87	8	69	25	14	21	38	1.92
3478345--3478369	12	2.1	12	100	0	50	72	0	28	0	0.86
3480675--3480979	19	17.4	19	78	16	338	47	18	20	14	1.83
3480675--3481001	33	9.5	33	71	19	172	46	18	20	14	1.83
3480675--3480927	52	4.8	52	86	5	253	47	18	19	14	1.83
3480741--3481001	52	4.9	53	81	15	269	46	17	20	15	1.84
3481008--3481109	19	5.6	19	85	12	151	14	23	17	44	1.86
3481215--3481251	14	2.6	14	91	0	65	45	21	0	32	1.52
3483210--3483266	14	3.7	14	77	20	60	45	22	21	10	1.82
3483191--3483282	33	2.8	33	94	0	166	46	21	20	10	1.81
3483154--3483282	19	7.3	19	76	17	125	46	24	18	10	1.81
3483283--3483375	33	2.8	33	90	3	152	8	19	25	46	1.78
3483278--3483412	19	7.6	19	72	20	105	9	18	26	45	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3483456--3483928	93	5.1	93	98	0	921	46	19	12	22	1.83
3483456--3483928	185	2.5	186	98	0	921	46	19	12	22	1.83
3485633--3485722	14	5.7	14	72	23	72	43	23	24	8	1.82
3485625--3485739	33	3.5	33	92	0	203	46	20	23	9	1.80
3485680--3485744	19	3.7	19	74	19	77	44	21	23	10	1.83
3485756--3485810	14	3.6	14	73	21	56	9	27	23	40	1.85
3485931--3486001	33	2.2	33	92	0	115	47	18	22	11	1.80
3486183--3486237	22	2.5	22	81	0	74	20	16	40	23	1.91
3486383--3486576	20	9.6	20	82	5	221	19	19	25	35	1.95
3486383--3486576	60	3.2	60	83	0	253	19	19	25	35	1.95
3486569--3486645	21	3.7	20	70	13	57	27	16	23	32	1.96
3486631--3486682	20	2.6	20	96	0	95	21	13	26	38	1.90
3491543--3491640	35	2.8	35	93	3	162	45	7	14	32	1.72
3492319--3492412	24	4.0	23	74	12	91	56	19	12	11	1.66
3492341--3492381	14	2.9	14	88	0	64	63	17	7	12	1.50
3494655--3494779	31	4.0	31	79	13	132	39	22	17	20	1.93
3495666--3495725	20	2.9	21	87	7	86	20	25	23	31	1.98
3496545--3496587	17	2.6	16	78	7	50	39	25	0	34	1.56
3498197--3498307	31	3.6	31	95	0	195	38	21	19	19	1.93
3499194--3499253	20	2.9	21	87	7	86	18	28	23	30	1.98
3503399--3503467	27	2.6	27	90	2	104	33	15	10	40	1.81
3503713--3503871	43	3.7	42	76	8	117	37	22	14	25	1.92
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3503969--3504010	22	2.0	21	90	4	66	40	26	14	19	1.89
3512670--3512710	20	2.0	20	86	9	57	31	17	19	31	1.95
3512762--3512809	20	2.4	20	82	0	60	35	14	14	35	1.87
3513757--3513800	22	1.9	23	81	9	54	20	4	4	70	1.23
3514788--3514825	18	2.1	18	85	9	51	55	0	7	36	1.29
3515574--3515646	23	3.2	23	90	0	110	35	4	20	39	1.72
3516000--3516044	22	2.0	22	83	8	56	42	11	8	37	1.72
3516062--3516134	23	3.2	23	90	0	119	36	5	19	38	1.75
3515145--3518468	488	6.8	489	92	2	5504	41	7	10	40	1.68
3516551--3516624	23	3.2	23	86	0	103	33	4	18	43	1.69
3516551--3516649	46	2.2	46	81	7	112	35	5	15	44	1.68
3517040--3517089	23	2.2	23	88	0	73	34	4	22	40	1.72
3517092--3517131	21	2.0	20	85	5	53	35	15	2	47	1.58
3517443--3517487	22	2.0	22	83	8	56	40	11	11	37	1.76
3517505--3517577	23	3.2	23	92	0	110	35	4	20	39	1.72
3515145--3518468	953	3.4	955	93	2	5596	41	7	10	40	1.68
3517993--3518065	23	3.2	23	90	0	110	34	6	20	38	1.79
3518420--3518465	23	2.0	23	87	4	67	41	8	10	39	1.71
3521368--3521426	2	30.0	2	96	3	111	50	0	0	49	1.00
3522933--3523079	73	2.0	73	86	4	206	44	12	7	35	1.71
3526637--3526690	22	2.5	22	78	0	63	31	5	0	62	1.18
3527600--3527689	31	2.9	32	80	6	96	46	3	7	42	1.49
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3529806--3529839	17	2.1	17	88	5	52	20	20	20	38	1.94
3530216--3530295	40	2.0	39	87	2	115	28	15	18	37	1.91
3530572--3530596	3	8.3	3	100	0	50	36	0	0	64	0.94
3536869--3536996	31	4.1	30	77	11	107	30	19	17	32	1.95
3536980--3537051	30	2.4	30	92	0	117	25	20	25	29	1.99
3542028--3542155	31	4.1	31	76	13	120	30	21	17	30	1.96
3542139--3542210	30	2.4	30	92	0	117	25	20	25	29	1.99
3554415--3554441	2	13.5	2	100	0	54	48	0	0	51	1.00
3556770--3556929	60	2.7	58	76	7	160	38	16	14	30	1.88
3561163--3561227	22	3.0	22	83	0	85	60	15	9	15	1.59

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