genome.fa.s8364.2.7.7.80.10.50.1000.14.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: VEPZ01008364.1 Hibiscus syriacus cultivar Beakdansim tig00111105_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  5892847

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   

This is table  14  of  27  ( 3136 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)
3207045--3207084	14	2.9	14	84	0	53	52	5	0	42	1.23
3214658--3214682	2	12.5	2	100	0	50	52	0	0	48	1.00
3214682--3214715	2	17.0	2	100	0	68	50	0	50	0	1.00
3216223--3216282	28	2.1	28	96	0	111	21	41	18	18	1.90
3217866--3218053	84	2.2	87	88	2	274	55	9	2	31	1.46
3218993--3219034	18	2.3	18	91	0	66	23	4	9	61	1.45
3221495--3221543	21	2.4	20	79	3	53	34	0	2	63	1.06
3221578--3221686	29	3.8	28	80	3	110	39	4	4	51	1.43
3222065--3222100	15	2.3	16	90	4	56	75	0	2	22	0.94
3224268--3224301	10	3.4	10	100	0	68	73	0	0	26	0.83
3225198--3225248	15	3.3	15	79	12	50	50	0	1	47	1.12
3228245--3228269	2	12.5	2	100	0	50	52	48	0	0	1.00
3230611--3230657	17	2.8	17	93	0	76	25	12	25	36	1.92
3231346--3231378	17	2.0	17	94	5	59	63	0	6	30	1.18
3231378--3231419	15	2.5	17	81	14	52	38	0	0	61	0.96
3231380--3231409	15	1.9	16	93	6	53	40	0	0	60	0.97
3233806--3234180	187	2.0	188	99	0	743	33	21	17	27	1.96
3234230--3234263	2	17.5	2	93	6	61	50	0	0	50	1.00
3234277--3234522	37	6.4	36	73	18	115	44	2	9	43	1.47
3234333--3234534	38	5.2	36	79	14	208	45	1	8	44	1.43
3235297--3235335	20	1.9	20	85	15	53	43	12	5	38	1.65
3235036--3235310	155	1.8	155	83	10	352	46	1	6	44	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3235003--3235388	37	10.3	36	78	12	295	46	3	7	42	1.47
3235184--3235425	69	3.4	68	77	11	204	47	4	6	41	1.47
3235418--3235461	16	2.7	16	82	3	61	31	2	2	63	1.19
3236614--3236660	25	1.9	25	87	12	71	21	10	0	68	1.20
3236718--3236798	15	5.6	14	83	12	85	27	2	1	69	1.09
3236746--3236798	3	17.7	3	92	7	90	30	1	0	67	1.01
3242842--3242921	29	2.8	29	71	9	74	31	21	5	42	1.74
3243154--3243189	15	2.5	15	90	4	56	16	2	0	80	0.83
3264394--3264535	67	2.1	67	88	0	203	40	8	20	30	1.82
3277865--3277987	64	1.9	65	81	8	153	34	30	18	17	1.94
3278001--3278087	16	5.4	16	85	0	102	21	21	13	42	1.88
3278005--3278087	32	2.6	32	84	3	114	21	20	13	44	1.85
3278349--3278395	14	3.7	14	71	26	50	44	0	4	51	1.21
3278348--3278396	23	2.1	24	96	3	91	46	0	4	48	1.20
3278691--3278727	15	2.4	15	95	4	65	40	2	5	51	1.39
3278747--3278773	13	2.1	13	100	0	54	55	0	0	44	0.99
3278747--3278789	13	3.1	14	86	6	52	55	0	2	41	1.12
3279276--3279300	13	1.9	13	100	0	50	56	0	0	44	0.99
3279608--3279687	21	3.8	20	78	6	79	22	0	25	52	1.47
3279642--3279695	14	3.9	14	87	0	72	25	0	22	51	1.48
3279775--3279859	2	42.0	2	90	6	136	48	1	1	49	1.16
3279227--3280384	610	1.9	592	90	5	1853	36	8	12	43	1.72
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3280222--3280248	7	3.9	7	100	0	54	14	0	29	55	1.40
3280212--3280288	41	1.9	40	86	7	111	24	0	25	49	1.51
3280760--3280814	26	2.1	26	93	0	92	29	0	21	49	1.50
3279818--3281309	548	2.7	537	89	7	2155	37	9	11	42	1.73
3280897--3280938	2	21.0	2	100	0	84	50	0	0	50	1.00
3281732--3281871	64	2.2	64	85	2	192	28	28	17	25	1.98
3292320--3292382	33	1.9	33	90	0	99	17	41	17	23	1.90
3292813--3292858	13	3.7	12	80	11	56	17	4	10	67	1.37
3298512--3298547	15	2.4	15	90	0	54	69	5	0	25	1.10
3312801--3312836	19	2.0	17	89	10	54	25	0	13	61	1.33
3316491--3316528	17	2.3	16	86	8	58	39	0	2	57	1.12
3319438--3319479	11	4.1	10	85	8	50	26	2	0	71	0.98
3320667--3320742	16	4.9	16	75	18	79	18	19	13	48	1.80
3327937--3327994	2	29.0	2	100	0	116	50	0	0	50	1.00
3333414--3333694	144	2.0	143	86	4	397	32	18	19	29	1.95
3335454--3335688	41	5.7	41	86	1	283	36	21	10	31	1.87
3335542--3335709	82	2.0	82	83	2	212	39	20	8	31	1.83
3338502--3338540	20	1.9	20	84	5	51	43	5	0	51	1.24
3338664--3338710	20	2.4	19	80	16	51	59	0	0	40	0.97
3339000--3339026	6	4.5	6	100	0	54	70	0	0	29	0.88
3339148--3339190	14	2.9	14	80	19	52	62	6	4	25	1.40
3341904--3341979	40	1.9	40	97	2	145	36	32	15	14	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3344388--3344528	30	4.7	31	73	12	107	53	2	6	38	1.39
3352216--3352267	23	2.2	24	89	6	79	30	23	23	23	1.99
3352247--3352281	18	1.9	18	100	0	70	22	34	28	14	1.93
3352586--3352643	2	29.0	2	100	0	116	50	0	0	50	1.00
3353756--3353798	21	2.0	21	91	8	70	74	0	25	0	0.82
3353755--3353798	18	2.4	18	96	0	79	72	0	27	0	0.85
3355756--3355819	23	2.8	23	85	0	83	28	25	26	20	1.99
3355835--3356150	103	3.1	103	97	0	587	36	23	13	26	1.92
3359568--3359613	23	2.0	23	83	8	58	28	17	0	54	1.43
3360188--3360264	2	39.0	2	97	2	147	50	0	0	49	1.00
3366057--3366097	22	1.9	21	90	5	64	29	2	2	65	1.18
3366134--3366165	10	3.3	10	95	4	57	25	0	0	75	0.81
3367333--3367469	39	3.5	38	88	4	202	32	7	33	27	1.84
3368958--3369222	95	2.7	96	86	5	356	32	17	18	31	1.94
3370320--3371210	84	10.6	84	84	1	1106	32	24	18	24	1.97
3370320--3371210	419	2.1	419	86	2	1232	32	24	18	24	1.97
3373952--3373986	18	1.9	18	88	0	52	54	0	17	28	1.43
3376310--3376356	8	6.5	8	72	22	50	14	40	25	19	1.90
3376292--3376349	13	4.3	13	91	4	89	15	44	22	17	1.86
3376297--3376356	13	4.3	14	89	4	61	15	41	23	20	1.89
3377665--3377699	18	1.9	18	88	0	52	54	0	17	28	1.43
3378786--3378895	47	2.3	49	80	12	129	21	12	17	48	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3378798--3378893	24	4.0	24	81	5	106	21	12	17	47	1.81
3379056--3379114	2	29.5	2	84	6	75	47	3	1	47	1.29
3381063--3381120	13	4.3	13	86	4	80	15	43	22	18	1.88
3381081--3381127	15	3.3	15	85	5	62	14	38	25	21	1.92
3382435--3382469	18	1.9	18	88	0	52	54	0	17	28	1.43
3383559--3383654	47	2.0	47	82	7	115	20	13	16	48	1.80
3383567--3383662	24	4.0	24	81	5	97	20	13	15	50	1.78
3383825--3383867	2	21.5	2	83	9	52	46	2	2	48	1.27
3385284--3385328	23	2.0	22	82	4	54	20	44	17	17	1.87
3387167--3387201	18	1.9	18	88	0	52	54	0	17	28	1.43
3388323--3388394	24	3.0	23	84	6	90	22	9	18	50	1.76
3388574--3388609	2	18.0	2	100	0	72	50	0	0	50	1.00
3391830--3391864	18	1.9	18	88	0	52	54	0	17	28	1.43
3392962--3393053	12	7.8	12	71	16	57	19	14	18	47	1.82
3392962--3393057	24	4.0	24	80	8	99	20	13	17	47	1.81
3396477--3396503	12	2.2	12	100	0	54	25	11	14	48	1.77
3406055--3406093	21	1.9	20	84	5	51	30	12	5	51	1.62
3407101--3407134	16	2.1	16	94	0	59	32	8	26	32	1.87
3407884--3407916	15	2.1	16	88	5	50	51	15	24	9	1.72
3415931--3415970	21	2.0	20	85	5	53	47	5	0	47	1.24
3417882--3417934	25	2.1	26	82	10	65	75	3	11	9	1.16
3417882--3417934	26	2.0	26	82	7	63	75	3	11	9	1.16
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3417944--3417998	19	2.9	19	86	2	67	76	1	7	14	1.08
3420188--3420225	17	2.2	17	100	0	76	18	18	18	44	1.87
3421017--3421045	6	4.8	6	100	0	58	68	0	0	31	0.89
3421303--3421342	20	2.0	21	90	5	64	67	2	7	22	1.28
3422616--3422658	3	13.7	3	85	9	59	67	2	0	30	1.03
3422609--3422658	25	2.0	26	84	4	66	66	2	4	28	1.21
3422657--3422993	39	8.9	37	79	11	285	46	6	3	43	1.46
3422657--3422991	37	8.9	35	76	17	257	46	6	3	42	1.46
3422840--3422865	12	2.2	12	100	0	52	46	7	7	38	1.61
3441545--3441580	12	3.0	12	87	0	54	30	8	25	36	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