genome.fa.s8826.2.7.7.80.10.50.1000.16.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: VEPZ01008826.1 Hibiscus syriacus cultivar Beakdansim tig00112000_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  3884024

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   

This is table  16  of  18  ( 2089 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)
3420772--3420925	29	5.4	28	83	6	168	40	22	4	32	1.74
3420800--3420924	57	2.2	57	85	2	162	40	21	5	32	1.77
3420933--3420966	18	1.9	18	94	5	61	11	23	47	17	1.81
3420943--3420968	13	2.0	13	100	0	52	15	23	46	15	1.83
3431393--3431482	45	2.0	45	86	0	126	34	13	21	31	1.92
3437087--3437127	3	13.7	3	85	10	57	36	0	0	63	0.95
3437092--3437140	21	2.2	24	82	10	59	44	0	0	55	0.99
3437624--3437648	13	1.9	13	100	0	50	0	24	60	16	1.36
3446415--3446476	27	2.3	27	94	0	106	17	16	14	51	1.76
3447210--3447288	22	3.6	22	96	0	140	32	15	13	37	1.87
3447936--3448341	45	9.0	45	92	0	659	24	22	19	33	1.97
3448273--3448414	75	1.9	74	89	4	223	23	21	22	31	1.98
3448349--3448551	45	4.5	45	93	1	309	24	24	20	31	1.98
3448228--3448459	120	1.9	119	90	2	367	24	23	20	31	1.98
3448138--3448672	210	2.5	210	91	1	863	24	22	19	32	1.97
3448483--3448625	76	1.9	74	86	2	205	24	20	18	35	1.95
3448559--3448672	45	2.5	45	86	2	147	26	21	19	33	1.97
3448444--3448774	121	2.7	121	94	0	572	24	21	20	33	1.97
3448604--3448746	76	1.9	74	88	2	214	23	20	21	34	1.97
3448680--3448774	45	2.1	45	90	0	145	23	21	23	32	1.98
3448930--3448992	3	20.7	3	77	9	65	38	0	0	61	0.96
3453305--3453354	27	2.0	26	84	11	68	16	28	6	50	1.68
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3456283--3456370	43	2.0	43	89	4	133	23	17	28	30	1.97
3456486--3456673	89	2.1	90	92	1	315	46	4	14	35	1.64
3461188--3461219	17	1.9	17	93	6	57	34	0	0	65	0.93
3462249--3462302	19	3.1	17	80	17	51	55	0	7	37	1.28
3469430--3469718	105	2.7	105	78	6	307	41	11	11	35	1.77
3482402--3482452	21	2.4	21	96	0	93	23	15	23	37	1.93
3482418--3482454	11	3.5	11	79	20	51	21	10	27	40	1.86
3483458--3483491	16	2.1	16	100	0	68	41	29	11	17	1.85
3488312--3488341	2	15.0	2	100	0	60	50	0	0	50	1.00
3488992--3489031	20	2.0	20	85	0	53	40	17	10	32	1.83
3492658--3494371	574	3.0	574	94	1	3011	39	9	15	35	1.80
3494807--3494847	21	2.0	20	85	4	55	34	2	24	39	1.69
3497275--3497323	21	2.3	21	79	6	55	40	30	4	24	1.74
3497955--3498365	76	5.7	73	72	16	300	35	8	19	36	1.83
3498072--3498209	65	2.1	65	87	2	206	39	10	21	28	1.86
3498373--3498508	75	1.9	70	89	7	209	40	11	15	32	1.83
3499780--3499842	23	2.7	23	95	0	108	15	33	19	31	1.93
3501132--3501315	75	2.4	77	82	3	237	35	15	9	39	1.79
3501310--3501729	77	5.4	77	86	3	540	35	17	10	36	1.85
3501310--3501729	155	2.7	154	87	2	574	35	17	10	36	1.85
3503921--3503965	22	2.0	21	87	12	63	53	0	2	44	1.13
3507489--3508048	106	5.3	106	93	1	908	21	20	25	32	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3507988--3508092	43	2.4	43	95	0	183	19	20	24	36	1.95
3507890--3508198	149	2.1	149	94	0	537	21	18	25	34	1.96
3507776--3508304	255	2.1	255	92	0	862	21	19	24	34	1.96
3508031--3508408	106	3.7	106	86	8	573	22	18	24	34	1.96
3507670--3508398	361	2.1	349	88	4	1075	21	19	25	33	1.97
3508207--3508403	94	2.1	94	94	0	340	24	16	24	34	1.95
3509079--3509144	6	10.7	6	74	16	55	3	13	1	81	0.87
3509089--3509126	15	2.4	16	91	4	60	5	10	2	81	0.94
3509084--3509146	7	8.7	7	79	17	67	3	14	1	80	0.90
3509079--3509138	16	3.6	17	79	18	65	3	13	1	81	0.89
3509089--3509138	8	6.4	8	75	13	50	4	12	2	82	0.90
3519882--3519914	2	16.5	2	100	0	66	51	0	0	48	1.00
3523331--3523364	17	2.0	17	100	0	68	29	0	0	70	0.87
3525648--3525772	57	2.2	57	92	0	214	48	12	20	18	1.79
3528115--3528203	39	2.3	38	81	9	101	29	0	22	48	1.51
3528237--3528305	22	3.2	21	73	6	66	30	1	23	44	1.62
3531716--3531794	34	2.2	35	91	6	124	34	3	5	56	1.39
3533747--3533792	14	3.3	14	88	11	60	65	0	0	34	0.93
3537052--3537377	171	1.9	172	91	0	537	38	8	13	40	1.75
3538189--3538239	24	2.1	24	100	0	102	35	7	19	37	1.81
3544770--3544902	45	3.0	45	85	1	187	33	23	5	37	1.77
3550020--3550067	23	2.1	22	84	3	60	47	20	12	18	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3549922--3550192	150	1.8	150	95	0	488	38	20	11	29	1.87
3552140--3552206	29	2.3	28	77	10	71	46	7	14	31	1.73
3566710--3566754	24	1.9	23	86	4	63	35	6	6	51	1.55
3577695--3577748	18	3.1	18	72	17	51	64	1	7	25	1.30
3577798--3577833	2	18.5	2	94	5	65	52	0	0	47	1.00
3578243--3578339	37	2.6	37	85	0	131	30	11	16	41	1.84
3579068--3580332	106	12.0	106	87	2	1735	23	18	24	34	1.96
3580347--3580407	21	3.2	21	65	26	62	37	13	22	26	1.91
3580341--3580474	37	3.7	36	82	5	153	39	14	18	26	1.90
3581221--3581297	22	3.5	22	85	0	109	23	10	23	42	1.84
3581899--3581956	17	3.3	17	81	11	64	1	12	6	79	1.00
3581898--3581960	24	2.6	25	80	12	69	3	12	7	76	1.13
3586640--3586685	8	5.6	8	92	2	56	56	0	0	43	0.99
3586642--3586682	2	20.5	2	94	0	73	53	0	0	46	1.00
3587094--3587190	37	2.6	37	86	0	140	31	11	16	40	1.84
3587984--3588035	19	2.8	19	91	8	81	30	13	9	46	1.75
3590640--3591139	167	3.0	166	93	2	833	34	14	16	35	1.89
3599368--3599431	5	12.6	5	77	9	51	18	1	1	78	0.92
3599384--3599422	6	6.5	6	91	8	62	15	0	0	84	0.62
3599364--3599431	30	2.1	30	77	20	75	19	1	1	77	0.92
3599384--3599422	13	3.2	12	89	10	62	15	0	0	84	0.62
3599384--3599422	19	2.1	18	95	4	69	15	0	0	84	0.62
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3603222--3603310	37	2.4	37	88	7	128	24	14	16	43	1.86
3603259--3603578	67	4.8	67	87	1	453	28	15	14	40	1.87
3603452--3603625	37	4.8	37	75	16	150	30	16	14	38	1.89
3603452--3603734	104	2.7	102	80	6	266	32	17	13	36	1.88
3604667--3604725	3	19.0	3	93	6	100	35	0	0	64	0.94
3606472--3606523	17	3.2	16	81	10	52	23	3	0	73	1.00
3607110--3607152	3	14.3	3	100	0	86	67	0	0	32	0.91
3608767--3608804	19	2.0	19	85	10	51	47	2	10	39	1.52
3613545--3613569	13	1.9	13	100	0	50	64	0	0	36	0.94
3618726--3618792	35	1.9	34	84	3	89	13	26	2	56	1.51
3621924--3621987	23	2.8	22	79	9	74	29	25	26	18	1.98
3622006--3622220	103	2.1	103	93	0	367	37	23	12	26	1.91
3627633--3627696	23	2.8	23	82	0	83	29	25	26	18	1.98
3627721--3627929	103	2.0	103	93	0	355	36	21	13	28	1.92
3630229--3630275	24	2.0	23	91	4	76	61	4	0	34	1.15
3636876--3636925	22	2.5	19	77	9	55	72	4	2	22	1.12
3638130--3638174	3	14.7	3	90	4	72	66	0	0	33	0.92
3638129--3638174	19	2.5	19	89	3	76	67	0	0	32	0.91
3638130--3638177	25	1.9	25	100	0	96	66	0	0	33	0.92
3638130--3638195	28	2.5	27	85	11	75	69	0	0	30	0.88
3638203--3638297	43	2.3	40	82	12	120	48	5	2	44	1.37
3638236--3638560	38	8.6	37	82	11	326	45	6	4	44	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3639190--3640271	84	12.9	83	83	3	1213	25	18	24	31	1.97
3639162--3640247	503	2.2	503	86	2	1466	25	18	23	32	1.97
3639190--3640249	335	3.2	334	85	2	1342	24	18	24	31	1.98
3641358--3641619	95	2.7	95	84	7	332	32	17	17	32	1.93
3645067--3645100	10	3.5	10	92	4	52	82	0	17	0	0.67
3645130--3645169	20	1.9	22	90	10	66	67	5	2	25	1.23
3645129--3645169	22	1.9	21	85	14	57	68	4	2	24	1.22
3645130--3645175	20	2.2	20	84	7	56	69	4	2	23	1.17
3645227--3645264	2	19.0	2	100	0	76	50	0	0	50	1.00
3647046--3647167	63	2.0	62	86	4	174	28	18	19	32	1.96

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18