genome.fa.s8645.2.7.7.80.10.50.1000.19.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: VEPZ01008645.1 Hibiscus syriacus cultivar Beakdansim tig00111621_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  4138222

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22   

This is table  19  of  22  ( 2605 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)
3424808--3425269	106	4.4	106	92	1	707	32	25	19	22	1.98
3426925--3427072	72	2.0	76	93	6	259	20	13	8	58	1.61
3429465--3429506	15	2.7	16	81	3	50	42	0	7	50	1.30
3429524--3429563	21	1.9	21	85	10	55	57	0	10	32	1.32
3431440--3431484	22	2.0	23	83	12	58	51	2	0	46	1.13
3431547--3431624	29	2.9	27	83	12	99	50	0	1	48	1.09
3431573--3431631	29	2.0	29	87	6	84	54	0	1	44	1.10
3431583--3431668	42	2.0	41	80	12	95	54	0	3	41	1.17
3431825--3431864	12	3.2	12	89	3	53	55	0	5	40	1.22
3432692--3432879	94	2.0	93	98	1	367	43	26	14	15	1.86
3432920--3433047	59	2.2	58	81	12	145	37	25	18	18	1.94
3432919--3433066	39	3.8	39	81	4	138	39	24	16	18	1.91
3432919--3433053	20	6.8	20	80	5	123	38	24	18	18	1.93
3436554--3436668	33	3.5	33	92	0	203	44	21	24	9	1.82
3436562--3436660	14	6.1	17	72	24	81	42	23	25	9	1.83
3436556--3436673	19	7.1	18	67	24	71	43	22	24	10	1.84
3436669--3436713	19	2.4	19	92	0	72	8	17	26	46	1.78
3436711--3436788	20	3.8	21	79	14	74	11	26	16	44	1.82
3436711--3436787	40	1.9	41	91	2	129	11	27	16	44	1.83
3436865--3436935	33	2.2	33	92	0	115	47	15	25	11	1.78
3437117--3437171	22	2.5	22	81	0	74	20	16	40	23	1.91
3437315--3437508	20	9.6	20	82	5	221	19	19	25	35	1.95
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3437315--3437508	60	3.2	60	83	0	253	19	19	25	35	1.95
3437495--3437577	21	4.0	21	73	6	78	25	16	24	33	1.96
3437475--3437573	42	2.4	43	77	11	100	21	18	23	37	1.94
3438242--3438301	26	2.2	26	82	11	68	48	1	1	48	1.21
3438288--3439127	346	2.5	342	90	4	1317	43	6	5	44	1.51
3446881--3446959	22	3.7	21	88	5	113	30	22	26	20	1.98
3448433--3448647	105	2.1	104	84	0	277	23	14	21	39	1.91
3448664--3448709	24	2.0	24	86	4	67	23	26	26	23	2.00
3450331--3450395	25	2.6	25	97	0	121	47	10	13	27	1.76
3450397--3450435	17	2.4	17	95	4	71	43	0	5	51	1.24
3454220--3454297	3	26.0	3	86	0	111	38	1	0	60	1.05
3455684--3455724	22	2.0	21	86	13	59	46	0	0	53	1.00
3455684--3455724	21	1.9	22	90	5	66	46	0	0	53	1.00
3455882--3455950	34	2.0	34	83	5	86	53	0	5	40	1.25
3456399--3456457	16	3.6	16	84	13	68	27	1	0	71	0.96
3456393--3456455	23	2.7	24	80	7	67	26	1	0	71	0.95
3456410--3456458	13	3.8	13	76	10	55	26	0	0	73	0.83
3458041--3458094	14	3.8	14	82	4	63	24	14	9	51	1.71
3461358--3461391	15	2.2	16	94	5	61	85	0	14	0	0.60
3461354--3461392	18	2.1	19	86	13	55	84	0	15	0	0.62
3463619--3463883	83	3.2	83	95	1	460	27	13	21	36	1.92
3466452--3466506	22	2.5	22	96	0	101	34	14	14	36	1.87
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3467262--3467325	20	3.2	20	63	20	53	42	9	23	25	1.84
3467824--3467887	20	3.2	20	63	20	53	42	9	23	25	1.84
3468048--3468111	20	3.2	20	63	20	53	42	9	23	25	1.84
3468397--3468460	19	3.3	19	65	26	53	46	7	26	18	1.76
3468396--3468463	22	3.3	22	66	26	67	48	7	26	17	1.73
3468379--3468483	39	2.7	39	98	0	201	47	7	23	20	1.76
3466975--3468444	112	13.1	112	90	1	2147	37	13	19	29	1.90
3468271--3468595	151	2.1	152	93	0	544	40	12	20	28	1.87
3468423--3469495	113	9.5	112	91	1	1566	38	13	19	28	1.90
3467822--3469045	601	2.0	601	96	0	2270	38	13	19	28	1.89
3468649--3468712	20	3.2	20	63	20	53	42	9	23	25	1.84
3468987--3469050	20	3.2	20	63	20	53	42	9	23	25	1.84
3466975--3469495	562	4.4	561	86	6	3050	37	13	19	29	1.90
3466975--3468444	450	3.3	450	89	2	2053	37	13	19	29	1.90
3469717--3469797	3	27.0	3	87	0	117	38	1	0	60	1.05
3472201--3472225	2	12.5	2	100	0	50	48	0	0	52	1.00
3472248--3472303	28	2.1	28	83	6	71	48	3	5	42	1.43
3472250--3472299	26	2.0	26	84	4	66	48	2	6	44	1.39
3472266--3472521	36	7.1	35	86	6	302	45	4	4	45	1.44
3472266--3472521	73	3.6	72	87	5	333	45	4	4	45	1.44
3476867--3476919	21	2.5	21	87	0	79	20	24	18	35	1.95
3476909--3477001	20	4.7	20	95	0	168	38	20	20	20	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3476928--3477054	40	3.2	40	85	8	145	35	24	19	20	1.96
3476909--3477099	60	3.2	60	84	7	194	34	24	20	20	1.97
3476988--3477134	20	7.3	20	96	0	231	29	27	19	23	1.98
3477976--3478029	24	2.2	24	93	0	90	20	18	20	40	1.91
3480461--3480549	20	4.4	20	85	2	126	40	24	17	16	1.90
3480521--3480616	33	2.9	34	88	3	149	43	19	22	13	1.86
3480627--3480693	20	3.7	19	75	20	81	13	22	17	46	1.83
3480653--3480706	14	3.5	14	73	22	54	11	24	20	44	1.83
3480633--3480726	33	2.8	34	90	3	145	12	23	20	43	1.86
3480832--3480868	14	2.6	14	86	0	56	48	21	0	29	1.50
3482250--3482331	41	2.0	42	85	2	112	20	19	37	21	1.94
3482254--3482339	21	4.1	21	71	3	75	23	19	36	20	1.95
3482818--3482884	20	3.3	20	91	0	98	38	23	17	19	1.93
3482833--3482900	20	3.4	20	87	4	84	35	20	17	26	1.95
3482868--3482909	20	2.1	20	90	0	66	38	16	19	26	1.92
3483036--3483087	20	2.6	20	96	0	95	17	19	25	38	1.93
3482919--3483084	87	1.9	87	87	0	242	15	17	22	44	1.86
3483614--3483660	18	2.6	18	79	0	58	12	14	42	29	1.83
3484981--3485109	20	6.8	20	75	10	110	46	22	17	13	1.83
3485003--3485106	53	1.9	54	82	1	129	43	24	17	15	1.87
3484983--3485157	73	2.4	73	92	0	278	45	23	16	14	1.85
3484983--3485158	20	9.5	19	72	15	93	44	23	17	14	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3485493--3485567	22	3.5	21	83	5	87	20	17	38	24	1.93
3485756--3485808	20	2.7	20	90	0	88	20	20	20	37	1.94
3485798--3485849	20	2.5	20	84	6	68	34	19	25	21	1.96
3485805--3485843	20	2.0	20	94	0	69	38	17	25	17	1.92
3493188--3493236	25	2.0	25	88	8	73	67	4	2	26	1.19
3502042--3502099	27	2.1	28	81	9	66	41	22	12	24	1.87
3504508--3504549	21	2.0	21	95	0	75	30	14	7	47	1.71
3504544--3504646	33	3.2	33	94	2	174	30	7	17	44	1.77
3508121--3508236	58	2.0	58	89	0	178	26	23	24	25	2.00
3508527--3508610	28	3.0	28	98	0	159	42	15	30	10	1.81
3516178--3516239	32	1.9	32	86	0	88	25	12	14	46	1.80
3516866--3516897	2	16.0	2	93	0	55	53	0	0	46	1.00
3518101--3518184	19	4.4	20	70	21	65	32	0	4	63	1.15
3518141--3518173	17	2.0	17	88	5	50	39	0	3	57	1.14
3527146--3527170	12	2.1	12	100	0	50	0	24	0	76	0.80
3527629--3527681	21	2.6	21	93	3	90	30	28	16	24	1.97
3527714--3527763	18	2.7	18	96	3	91	36	22	20	22	1.96
3527728--3527887	63	2.5	63	79	13	161	35	21	18	23	1.96
3528522--3528583	23	2.7	23	84	0	88	20	25	25	27	1.99
3529668--3529749	35	2.4	32	77	20	85	26	8	9	54	1.61
3535076--3535163	38	2.3	38	96	2	158	21	6	11	60	1.54
3535266--3535369	31	3.5	30	78	11	115	44	3	7	44	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3535248--3535362	59	1.9	62	87	5	173	41	3	10	44	1.56
3540592--3540701	55	2.0	55	96	0	202	44	10	10	34	1.73
3545910--3545936	13	2.1	13	100	0	54	40	14	14	29	1.86
3550881--3550933	21	2.5	21	87	0	79	20	24	18	35	1.95
3550923--3551053	20	6.7	20	85	3	158	41	18	16	24	1.90
3551043--3551126	20	4.2	20	84	0	69	32	23	17	26	1.97
3551956--3552002	24	2.0	24	95	0	85	27	21	17	34	1.95
3554456--3554529	20	3.7	19	82	13	96	37	25	17	18	1.93
3554442--3554530	40	2.2	40	90	4	135	37	24	19	19	1.94
3554522--3554575	14	3.5	14	75	22	54	46	20	22	11	1.82

Tables:   1   2   3   4   5   6   7   8   9   10   11   12   13   14   15   16   
          17   18   19   20   21   22