genome.fa.s9462.2.7.7.80.10.50.1000.18.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: VEPZ01009462.1 Hibiscus syriacus cultivar Beakdansim tig00113725_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  20687664

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   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91   

This is table  18  of  91  ( 10815 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)
3570864--3570943	2	42.0	2	87	9	123	47	0	0	52	1.00
3570918--3571015	42	2.3	43	77	5	110	43	3	3	50	1.33
3570959--3571005	19	2.5	19	80	16	53	44	0	6	48	1.28
3570962--3571000	17	2.2	18	86	4	53	43	0	7	48	1.31
3570997--3571129	68	2.0	67	85	5	178	42	9	0	46	1.42
3571569--3571909	88	3.9	88	84	3	434	31	18	20	29	1.96
3571910--3571966	29	2.0	29	89	0	87	29	21	21	28	1.98
3571907--3572541	67	9.5	66	77	6	562	34	16	20	28	1.94
3571907--3572528	134	4.6	134	82	4	648	34	16	20	28	1.94
3571907--3572528	201	3.1	198	83	3	715	34	16	20	28	1.94
3573722--3573909	43	4.4	43	75	4	148	35	21	12	29	1.91
3573726--3573888	86	1.9	85	82	1	200	36	20	13	29	1.91
3576952--3576989	19	2.0	19	100	0	76	36	21	5	36	1.76
3577585--3577630	20	2.3	19	85	14	58	50	8	15	26	1.73
3583503--3583685	87	2.1	85	82	10	215	41	8	2	47	1.47
3583570--3583661	37	2.4	37	92	3	148	41	9	1	47	1.43
3584113--3584362	88	2.8	88	84	1	313	29	19	22	28	1.98
3584402--3584768	67	5.5	67	81	1	358	35	18	20	25	1.95
3584402--3584767	134	2.7	134	83	2	414	35	18	20	25	1.95
3585233--3585421	43	4.4	43	84	4	247	36	21	14	27	1.92
3588676--3588712	15	2.5	15	86	4	58	59	0	0	40	0.97
3588725--3588832	37	2.9	36	90	4	162	59	5	3	31	1.38
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3588767--3588826	19	3.2	19	72	13	70	65	5	0	30	1.14
3588761--3588816	18	3.1	18	68	14	51	55	5	1	37	1.33
3588767--3588825	18	3.2	18	69	21	59	64	5	0	30	1.15
3588830--3588874	20	2.2	20	88	0	63	60	13	8	17	1.58
3590879--3590921	20	2.2	20	95	0	77	25	27	30	16	1.97
3591407--3591726	88	3.7	87	80	5	325	31	18	20	28	1.97
3591774--3591829	29	1.9	29	89	7	87	28	21	23	26	1.99
3591771--3592338	67	8.5	66	82	3	625	32	17	23	27	1.96
3591908--3592017	29	3.5	29	71	21	87	28	15	23	32	1.95
3592138--3592336	38	5.7	37	63	22	99	31	19	23	26	1.98
3593481--3593686	43	4.8	42	84	0	214	34	20	12	32	1.90
3593509--3593685	43	4.1	43	84	3	232	35	20	13	30	1.92
3593509--3593686	86	2.1	85	87	1	257	35	20	13	30	1.91
3595776--3595843	32	2.1	33	83	8	86	45	8	22	23	1.80
3603146--3603172	8	3.4	8	100	0	54	11	25	0	62	1.28
3603576--3603626	3	17.0	3	95	0	57	66	9	0	23	1.21
3603752--3603858	12	8.4	13	66	21	57	42	11	0	46	1.39
3603729--3603882	38	4.1	37	88	6	204	40	9	0	48	1.41
3603729--3603882	75	2.1	74	86	6	213	40	9	0	48	1.41
3607342--3607384	13	3.3	13	80	0	50	27	16	11	44	1.82
3607537--3607608	35	2.1	35	86	0	99	43	12	11	33	1.78
3609537--3609629	21	4.3	21	74	15	91	32	26	18	22	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3618083--3618129	24	2.0	22	84	8	58	38	14	10	36	1.81
3624448--3624504	3	19.7	3	73	20	50	59	0	0	40	0.97
3631229--3631253	13	1.9	13	100	0	50	44	16	8	32	1.76
3632672--3632696	5	5.0	5	100	0	50	40	20	0	40	1.52
3633491--3633727	117	2.0	118	89	4	361	28	13	5	52	1.63
3647395--3647506	36	3.1	36	90	0	179	30	18	16	34	1.93
3647724--3647882	20	8.0	20	82	6	153	35	22	17	24	1.95
3647721--3647881	40	4.1	39	81	4	169	35	22	18	24	1.95
3647753--3647882	60	2.2	60	86	4	181	35	22	16	25	1.95
3657558--3657585	12	2.3	12	100	0	56	35	14	32	17	1.90
3657649--3657713	24	2.8	22	79	11	67	52	1	0	46	1.10
3657658--3657713	24	2.3	23	82	11	69	57	1	0	41	1.09
3657663--3657704	22	1.9	22	90	9	68	57	0	0	42	0.99
3658257--3658341	2	42.5	2	100	0	170	49	0	0	50	1.00
3658512--3658553	8	5.4	8	86	8	52	33	0	9	57	1.31
3658502--3658555	16	3.5	15	78	14	56	35	0	7	57	1.27
3658517--3658564	24	2.0	24	84	8	62	39	0	6	54	1.26
3660289--3660350	24	2.5	24	81	2	70	17	25	17	38	1.92
3660331--3660382	20	2.6	20	93	0	86	15	21	19	44	1.87
3667676--3667708	17	1.9	17	100	0	66	30	6	24	39	1.79
3669126--3669171	20	2.3	20	85	7	58	32	6	23	36	1.81
3673890--3674107	97	2.2	97	79	4	235	42	18	8	30	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3677075--3677111	18	2.1	18	100	0	74	0	35	16	48	1.46
3677341--3677389	23	2.1	23	85	7	64	26	2	14	57	1.48
3690275--3690333	31	1.9	31	82	0	73	18	10	16	54	1.70
3696908--3696956	23	2.1	23	85	7	64	26	2	14	57	1.48
3703798--3703842	17	2.6	17	89	3	72	35	6	15	42	1.73
3703783--3703842	18	3.4	18	83	4	68	38	6	15	40	1.73
3718232--3718275	23	1.9	23	85	0	61	72	6	6	13	1.25
3739721--3739768	24	2.0	24	87	0	69	31	16	25	27	1.97
3750514--3750562	22	2.2	22	92	0	80	40	12	16	30	1.85
3751562--3751669	41	2.6	42	74	8	114	26	15	20	37	1.93
3751567--3751723	81	1.9	82	84	5	210	29	18	19	33	1.95
3753721--3753754	16	2.1	16	89	10	52	44	2	2	50	1.32
3759205--3759244	21	1.9	21	89	0	62	47	15	35	2	1.58
3759647--3759765	43	2.7	42	82	6	139	25	21	19	34	1.96
3762050--3762074	12	2.1	12	100	0	50	64	8	0	28	1.22
3762617--3762648	9	3.4	9	95	4	55	9	0	0	90	0.45
3762617--3762648	10	3.3	10	91	8	57	9	0	0	90	0.45
3762709--3762762	3	18.0	3	100	0	108	0	33	0	66	0.92
3764844--3764938	33	2.9	34	95	3	167	40	25	13	21	1.90
3774710--3774739	11	2.8	11	95	5	53	56	0	26	16	1.40
3777038--3777111	31	2.4	31	79	4	87	27	18	18	35	1.95
3786343--3786384	11	3.9	11	93	3	68	19	30	28	21	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3787503--3787536	16	2.1	16	89	10	52	35	0	2	61	1.11
3787513--3787580	35	2.0	33	86	11	93	38	1	0	60	1.06
3787499--3787585	35	2.4	36	76	17	92	40	1	1	57	1.14
3788792--3788898	30	3.6	30	72	9	92	37	10	10	42	1.73
3788974--3789032	28	2.1	28	83	0	73	38	15	8	37	1.78
3789557--3789660	24	4.2	24	77	17	97	44	2	0	52	1.15
3789535--3789570	2	18.0	2	100	0	72	50	0	0	50	1.00
3789624--3789681	20	2.8	21	76	10	66	41	1	1	55	1.20
3789862--3789958	28	3.4	28	77	11	106	41	10	6	42	1.64
3790435--3790489	24	2.2	25	83	3	67	47	3	0	49	1.19
3790416--3790448	2	17.0	2	93	6	59	48	0	0	51	1.00
3790505--3790559	20	2.8	20	74	0	56	45	0	3	50	1.19
3790695--3790720	2	13.0	2	100	0	52	50	0	0	50	1.00
3790721--3790815	25	3.7	25	74	16	88	57	0	3	38	1.14
3790756--3790811	24	2.3	25	84	3	69	60	0	0	39	0.97
3790776--3790828	26	2.0	25	82	7	61	54	0	3	41	1.18
3792336--3792396	30	2.0	30	100	0	122	32	16	3	47	1.63
3803091--3803554	233	2.0	228	95	2	831	42	12	5	39	1.67
3803581--3803618	20	1.9	20	100	0	76	23	28	10	36	1.88
3803982--3804043	16	4.0	15	81	10	63	17	0	4	77	0.94
3804001--3804040	21	1.9	21	85	10	55	12	0	5	82	0.82
3805429--3805465	18	2.1	18	89	0	56	29	24	13	32	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3806317--3806348	3	10.7	3	100	0	64	34	0	0	65	0.93
3807076--3807116	21	1.9	22	90	5	66	39	17	19	24	1.92
3811043--3811099	23	2.7	20	77	17	60	36	15	0	47	1.46
3811622--3811753	35	3.7	36	85	3	178	40	26	1	31	1.65
3811622--3811753	71	1.9	70	85	1	183	40	26	1	31	1.65
3812236--3812523	148	1.9	148	91	2	472	45	10	7	36	1.66
3812708--3812789	35	2.3	35	87	4	121	26	1	28	43	1.62
3814964--3815004	14	2.9	14	92	0	73	39	0	24	36	1.56
3816012--3816265	138	1.8	138	87	0	382	39	18	14	28	1.89
3820893--3820927	16	2.2	16	100	0	70	42	11	20	25	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   52   53   54   55   56   57   58   59   60   61   62   63   64   
          65   66   67   68   69   70   71   72   73   74   75   76   77   78   79   80   
          81   82   83   84   85   86   87   88   89   90   91