genome.fa.s1465.2.7.7.80.10.50.1000.18.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  18  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)
3472738--3472830	36	2.6	35	89	5	134	41	2	8	47	1.46
3472814--3472881	2	34.5	2	97	2	129	51	0	0	48	1.00
3472864--3472994	38	3.4	39	86	9	155	50	3	6	39	1.45
3473015--3473090	12	6.3	12	70	20	61	27	1	0	71	0.95
3473018--3473091	19	3.9	19	76	22	68	27	1	0	71	0.94
3473029--3473091	4	15.5	4	74	21	51	26	1	0	71	0.95
3475288--3475367	31	2.6	30	80	11	90	42	2	3	51	1.33
3476096--3476182	31	2.8	30	77	10	86	52	3	2	41	1.31
3476480--3476585	20	5.3	20	87	0	149	48	23	11	16	1.79
3476580--3476641	20	3.2	20	86	2	81	24	17	16	41	1.89
3476592--3476641	20	2.5	20	93	0	82	22	14	14	50	1.77
3476751--3476805	22	2.5	22	93	0	92	21	45	16	16	1.85
3477129--3477179	20	2.5	20	83	0	66	49	25	15	9	1.75
3477176--3477259	20	4.2	20	83	3	98	14	17	20	47	1.82
3479231--3479267	19	1.9	19	88	0	56	29	0	5	64	1.15
3479413--3479529	21	5.6	21	82	0	117	22	34	19	23	1.97
3479458--3479551	42	2.2	42	84	0	116	22	36	21	20	1.95
3481111--3481240	40	3.2	40	87	0	170	38	22	16	23	1.93
3481105--3481240	20	6.8	20	75	0	137	39	22	16	22	1.92
3481530--3481570	18	2.3	18	91	0	64	17	2	26	53	1.56
3484801--3484949	19	7.7	19	94	2	244	31	10	22	35	1.88
3484916--3485043	20	6.3	20	93	0	211	17	12	25	43	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3484840--3485043	40	5.2	40	91	3	226	23	11	24	41	1.87
3484799--3485043	60	4.1	61	86	6	244	24	11	23	39	1.89
3485037--3485104	20	3.3	20	81	4	82	22	17	20	39	1.92
3485794--3485882	32	2.7	31	81	8	88	50	21	12	15	1.77
3485829--3485898	16	4.4	16	72	0	59	45	24	14	15	1.83
3485803--3485893	32	2.8	32	84	0	110	50	21	13	14	1.76
3485884--3485953	32	2.2	33	81	2	79	44	20	15	20	1.87
3486285--3486336	19	2.7	19	72	3	50	55	0	3	40	1.18
3486912--3486963	3	17.3	3	77	15	54	32	1	1	63	1.16
3486912--3486962	14	3.6	14	73	26	54	33	1	1	62	1.17
3486911--3486962	17	3.0	17	73	21	54	34	1	1	61	1.18
3486914--3486965	25	2.1	25	85	7	70	30	1	1	65	1.14
3488516--3488576	30	2.0	30	87	0	86	16	9	6	67	1.40
3488897--3488942	5	9.2	5	90	0	56	21	4	2	71	1.14
3490806--3490885	6	12.3	6	71	19	54	76	2	6	15	1.09
3490812--3490885	14	5.0	14	74	18	69	77	2	5	14	1.07
3492123--3492174	5	10.4	5	79	12	54	75	0	1	23	0.91
3492124--3492174	19	2.6	19	84	6	66	74	0	1	23	0.92
3492230--3492348	62	2.0	62	88	6	181	42	8	5	43	1.56
3492290--3492563	37	7.2	38	90	5	391	42	8	4	44	1.54
3492290--3492563	76	3.6	76	91	5	400	42	8	4	44	1.54
3492591--3492623	2	16.5	2	100	0	66	51	0	0	48	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3498769--3498841	29	2.5	29	88	4	103	56	6	4	32	1.45
3498798--3498924	29	4.5	28	80	5	123	51	10	4	33	1.56
3498913--3498982	28	2.5	28	88	6	97	48	14	2	34	1.58
3499753--3499828	33	2.3	33	100	0	152	34	17	14	34	1.90
3500774--3500823	20	2.4	22	86	6	68	46	0	0	54	1.00
3500786--3500835	20	2.4	21	80	6	57	44	2	2	52	1.24
3500855--3500896	18	2.4	17	85	14	59	35	2	0	61	1.09
3500855--3500904	15	3.1	15	83	11	55	42	2	0	56	1.11
3501288--3501355	30	2.3	30	86	0	91	42	1	2	52	1.25
3502880--3502996	39	3.0	39	79	13	125	35	18	0	45	1.56
3504602--3504659	26	2.2	26	81	9	64	51	3	0	44	1.18
3509160--3509328	57	3.0	57	95	0	293	42	17	14	26	1.88
3511023--3511459	218	2.0	218	100	0	874	24	12	14	48	1.79
3513459--3513503	16	2.7	17	80	16	58	42	6	0	51	1.28
3515916--3515962	24	2.0	24	86	0	67	46	2	0	51	1.13
3520758--3520847	17	5.2	17	75	10	58	45	13	21	20	1.84
3520813--3520847	18	1.9	18	88	11	54	45	14	20	20	1.85
3521567--3521643	31	2.4	32	76	8	86	27	28	27	16	1.97
3525869--3525920	25	2.1	25	100	0	104	30	11	15	42	1.82
3526817--3526845	13	2.1	14	93	6	51	68	6	3	20	1.27
3526895--3526930	18	2.1	17	94	5	63	69	2	0	27	1.02
3533189--3533332	65	2.2	64	86	4	191	30	18	22	29	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3535476--3535506	14	2.1	15	94	5	55	45	3	0	51	1.17
3535911--3535978	23	3.0	23	76	6	77	25	20	27	26	1.99
3541743--3541882	65	2.2	65	84	5	176	30	18	21	30	1.97
3542504--3542618	20	5.7	20	77	8	81	21	15	27	34	1.94
3543700--3544066	158	2.3	158	87	1	511	26	18	6	48	1.72
3546526--3546588	24	2.6	24	89	0	90	38	12	19	30	1.89
3550813--3551478	182	3.7	182	88	4	955	39	14	17	28	1.89
3553753--3553796	21	2.1	21	95	0	79	40	11	34	13	1.81
3553830--3553929	33	3.0	33	88	5	157	31	0	43	26	1.55
3554109--3554144	18	2.0	18	100	0	72	55	0	38	5	1.23
3555703--3555751	19	2.6	19	93	0	80	32	2	8	57	1.40
3556067--3556101	15	2.3	15	95	0	61	42	20	11	25	1.85
3556118--3557098	200	4.8	199	79	9	1033	38	14	16	31	1.89
3556515--3556567	21	2.5	21	100	0	106	37	9	16	35	1.82
3556315--3556968	220	3.1	213	78	13	650	37	14	17	30	1.89
3556536--3557104	199	2.8	198	84	4	716	37	14	16	31	1.89
3558562--3558626	6	10.8	6	89	0	67	41	1	27	29	1.65
3559939--3559991	18	2.9	18	88	0	70	33	3	13	49	1.60
3561330--3562298	200	4.8	199	86	3	1286	37	13	16	32	1.88
3563903--3563951	19	2.6	19	83	0	71	34	2	8	55	1.41
3566427--3566843	201	2.1	198	88	5	610	39	14	16	30	1.88
3567028--3567087	31	1.9	31	89	0	93	41	6	8	43	1.61
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3567445--3567537	21	4.5	21	73	9	84	40	18	22	18	1.91
3567445--3567537	41	2.3	41	96	0	168	40	18	22	18	1.91
3567526--3567620	20	4.7	20	77	2	82	35	24	16	23	1.95
3567808--3567851	22	2.0	22	95	0	79	20	45	15	18	1.85
3568095--3568138	20	2.2	20	87	0	61	11	18	20	50	1.77
3569429--3569473	18	2.5	18	88	0	72	26	44	15	13	1.83
3569949--3570015	20	3.4	20	81	2	73	38	23	22	14	1.92
3570004--3570061	14	3.9	14	79	16	71	48	24	17	10	1.78
3569988--3570078	32	2.8	33	94	3	166	47	21	18	12	1.81
3571342--3571377	14	2.6	14	90	0	54	30	0	22	47	1.52
3571463--3571500	20	1.9	20	88	0	58	36	23	23	15	1.94
3571497--3571562	19	3.7	19	84	15	97	46	18	21	13	1.83
3571588--3571638	20	2.5	20	100	0	102	15	23	27	33	1.95
3572725--3572778	24	2.2	24	86	0	72	25	16	18	38	1.92
3575266--3575431	33	5.0	33	86	5	219	42	19	21	17	1.90
3575609--3575645	14	2.6	14	91	0	65	45	24	0	29	1.53
3576997--3577063	21	3.2	21	68	4	55	19	20	35	23	1.95
3576997--3577119	42	2.9	41	80	7	113	22	17	36	22	1.95
3579105--3579256	19	8.1	19	82	11	188	46	20	21	11	1.83
3579105--3579256	39	4.1	38	80	11	170	46	20	21	11	1.83
3579246--3579296	19	2.7	19	84	0	66	13	17	23	45	1.84
3579847--3579899	20	2.7	20	87	0	79	28	20	26	24	1.99
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3579912--3579961	20	2.5	20	96	0	91	26	18	26	30	1.98
3579848--3579982	61	2.2	61	78	2	146	22	19	23	34	1.97
3579950--3580001	21	2.5	21	81	3	61	15	25	19	40	1.90
3580717--3580773	20	2.8	21	73	21	57	59	1	0	38	1.08
3580711--3580773	21	3.0	20	70	6	54	60	1	0	38	1.07
3580763--3580873	36	3.3	35	63	24	85	53	0	0	45	1.13
3580717--3580891	64	2.7	65	91	5	282	55	1	0	42	1.14
3580787--3580873	12	6.9	12	73	19	79	56	1	0	42	1.07
3580789--3580873	24	3.3	26	81	14	106	55	1	0	43	1.07
3584427--3584499	30	2.4	30	95	0	128	26	20	15	38	1.92

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