genome.fa.s8645.2.7.7.80.10.50.1000.18.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: 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  18  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)
3315127--3315211	20	4.2	21	84	4	104	50	5	7	36	1.54
3315128--3315203	40	1.9	40	89	5	118	47	5	7	39	1.55
3315540--3315706	28	5.9	28	69	23	102	51	1	0	46	1.13
3315655--3315698	22	2.0	23	86	4	63	54	0	0	45	0.99
3315632--3315705	34	2.1	36	82	5	89	52	0	1	45	1.09
3315678--3315766	22	3.8	23	76	15	92	51	0	3	44	1.18
3315908--3316020	42	2.7	42	86	6	142	53	14	10	21	1.70
3316515--3316557	22	2.0	22	100	0	86	51	13	0	34	1.42
3316517--3316565	22	2.2	22	88	3	71	55	14	0	30	1.40
3316505--3317188	54	12.4	55	77	13	419	52	13	0	33	1.42
3316537--3317188	32	23.4	31	67	29	356	52	13	0	33	1.42
3316520--3317143	80	7.9	79	78	15	538	52	14	0	32	1.43
3316573--3316646	22	3.2	22	70	16	60	55	17	0	27	1.42
3316681--3316723	22	2.0	22	100	0	86	51	13	0	34	1.42
3316683--3316731	22	2.2	22	88	3	71	55	14	0	30	1.40
3316766--3316850	22	3.5	22	77	20	98	54	12	0	32	1.39
3316814--3316862	22	2.2	22	85	3	62	55	12	0	32	1.37
3316866--3316908	22	2.0	22	100	0	86	51	13	0	34	1.42
3316868--3316985	22	5.2	22	66	14	69	53	15	0	31	1.42
3316684--3317034	123	2.8	123	87	4	470	53	13	0	32	1.41
3316989--3317031	22	2.0	22	100	0	86	51	13	0	34	1.42
3316817--3317064	123	2.0	119	89	9	374	52	14	0	32	1.43
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3317069--3317111	22	2.0	22	100	0	86	51	13	0	34	1.42
3317071--3317119	22	2.2	22	88	3	71	55	14	0	30	1.40
3316684--3317223	257	2.1	250	89	6	816	52	13	0	33	1.40
3317123--3317223	22	4.5	22	71	7	94	51	9	0	38	1.35
3317168--3317315	15	9.5	15	83	10	190	51	2	0	46	1.12
3316839--3317223	203	1.9	200	85	9	539	52	13	0	34	1.41
3317114--3317270	69	2.3	67	86	5	210	51	6	0	42	1.27
3318168--3318206	20	2.0	20	95	5	71	56	5	0	38	1.22
3319146--3319218	22	3.4	22	78	14	80	42	0	1	56	1.08
3319175--3319208	14	2.3	15	90	5	52	41	0	0	58	0.98
3319146--3319227	21	3.8	21	76	13	78	43	0	1	54	1.07
3319180--3319230	22	2.3	23	83	10	70	43	0	1	54	1.11
3319276--3319327	15	3.1	15	73	21	50	42	0	0	57	0.98
3319213--3319327	19	5.9	19	71	22	80	40	2	0	56	1.19
3319464--3319541	33	2.4	33	79	8	90	41	2	1	55	1.22
3319465--3319540	32	2.4	32	77	10	86	39	2	1	56	1.21
3320743--3320815	30	2.4	30	80	13	80	36	0	1	61	1.05
3320954--3321007	17	3.2	17	72	0	54	31	0	3	64	1.11
3322527--3322574	21	2.3	21	85	0	60	25	39	12	22	1.89
3322578--3322671	21	4.5	21	92	5	129	18	35	26	20	1.95
3324565--3324593	14	2.1	14	100	0	58	34	6	31	27	1.83
3324579--3344002	650	29.9	640	79	9	17603	26	17	19	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3335522--3335721	99	2.0	100	95	4	361	24	14	23	38	1.92
3344763--3344900	64	2.2	64	85	5	181	33	18	19	28	1.96
3345446--3345497	2	26.5	2	96	3	97	48	0	0	51	1.00
3345759--3345801	21	2.0	21	82	8	52	32	4	13	48	1.63
3348309--3348518	64	3.3	65	81	7	207	34	20	18	27	1.96
3349288--3349330	21	2.0	21	82	8	52	32	4	13	48	1.63
3349444--3352323	650	4.4	650	93	1	4874	25	17	19	37	1.93
3352731--3352771	20	2.0	20	86	9	57	39	9	7	43	1.65
3353291--3353331	19	2.2	19	100	0	82	53	9	0	36	1.34
3353295--3353338	19	2.3	19	92	0	70	52	13	0	34	1.41
3354009--3354060	27	2.0	27	84	3	70	32	17	1	48	1.58
3354416--3357452	650	4.7	650	94	0	5341	25	18	19	36	1.95
3357517--3357569	22	2.5	21	90	3	79	43	18	7	30	1.78
3358915--3358955	21	2.0	21	90	0	64	17	26	17	39	1.91
3358916--3358962	21	2.2	21	84	0	58	21	25	19	34	1.96
3358952--3359045	20	4.7	20	86	2	134	38	21	21	19	1.94
3358952--3359045	41	2.3	40	85	3	134	38	21	21	19	1.94
3359618--3359724	19	6.2	19	68	24	83	48	21	21	8	1.76
3359618--3359711	33	2.8	33	88	3	145	47	20	23	8	1.77
3359720--3359865	19	8.1	19	76	17	150	10	23	19	45	1.82
3359720--3359857	52	2.6	52	93	2	222	10	23	21	44	1.84
3361565--3361940	94	4.1	93	89	2	544	22	11	18	47	1.80
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3362031--3362093	19	3.3	19	86	4	90	50	25	17	6	1.69
3362037--3362093	20	2.9	20	89	2	89	50	28	15	5	1.65
3362099--3362162	19	3.7	18	66	21	55	12	20	21	45	1.84
3362637--3362703	21	3.2	21	66	6	55	23	35	20	19	1.95
3362585--3362703	42	2.8	42	81	5	107	22	36	18	22	1.95
3364052--3364087	14	2.6	14	95	0	63	33	0	22	44	1.53
3364194--3364269	19	4.0	20	91	5	113	48	22	17	11	1.79
3364274--3364399	33	3.8	33	94	1	218	11	23	19	46	1.82
3364308--3364419	19	6.4	19	72	20	100	13	22	19	44	1.85
3364327--3364381	14	3.6	14	73	21	56	10	23	20	45	1.82
3364386--3364426	20	2.0	20	90	0	64	19	19	21	39	1.93
3366936--3366989	24	2.2	24	93	0	90	40	20	18	20	1.91
3369337--3369411	35	2.1	35	92	0	123	33	0	24	42	1.55
3383088--3383275	21	8.9	20	78	13	141	20	19	23	37	1.94
3383081--3383275	42	4.6	42	88	3	259	20	19	23	36	1.95
3383901--3383937	11	3.3	11	96	3	65	0	16	54	29	1.43
3383901--3383937	6	6.5	6	90	9	60	0	16	54	29	1.43
3383898--3383933	17	2.2	16	95	5	63	0	19	52	27	1.46
3384027--3384067	21	2.0	21	100	0	82	29	21	24	24	1.99
3384076--3384124	21	2.3	21	96	0	89	24	24	22	28	1.99
3384177--3384291	21	5.5	21	83	10	155	23	23	22	30	1.99
3384451--3384501	26	2.0	26	92	0	84	39	15	0	45	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3384545--3384604	24	2.4	25	83	5	86	38	15	3	43	1.63
3384667--3384696	2	15.0	2	100	0	60	50	0	0	50	1.00
3385830--3385902	31	2.4	31	88	0	110	45	13	10	30	1.78
3387246--3387317	31	2.3	31	85	0	99	37	12	12	37	1.81
3388416--3388462	20	2.3	20	92	0	76	38	23	17	21	1.93
3388456--3388518	20	3.2	20	77	8	74	41	22	15	20	1.90
3388436--3388527	40	2.3	41	81	9	109	40	21	17	20	1.92
3391030--3391075	4	11.5	4	80	0	56	26	2	4	67	1.21
3391224--3391317	21	4.5	22	73	12	65	26	32	19	21	1.97
3392620--3392780	66	2.4	67	84	10	197	27	2	17	52	1.57
3392652--3392780	66	2.0	65	90	3	206	28	1	18	51	1.56
3392836--3392902	20	3.3	20	91	0	107	41	23	17	16	1.89
3392924--3392962	20	2.0	20	89	0	60	17	15	23	43	1.87
3395572--3395625	24	2.2	24	93	0	90	40	16	18	24	1.90
3395752--3395785	12	2.8	12	90	0	50	14	5	29	50	1.67
3396381--3396418	16	2.5	15	84	12	51	65	0	5	28	1.14
3396575--3396666	19	4.7	20	80	8	91	29	9	22	38	1.86
3396575--3396686	20	5.6	21	77	10	92	27	11	23	37	1.89
3396575--3396683	39	2.8	40	77	8	98	27	11	22	37	1.90
3396633--3396717	20	4.2	20	79	13	77	18	15	24	41	1.89
3396633--3396717	40	2.1	41	82	10	104	18	15	24	41	1.89
3402293--3402322	14	2.1	14	93	0	51	16	0	0	83	0.65
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3402482--3402531	14	3.8	13	80	12	50	40	0	0	60	0.97
3402487--3402531	22	2.0	22	83	8	56	40	0	0	60	0.97
3405939--3405983	21	2.1	22	95	4	83	42	4	22	31	1.73
3407570--3407885	160	2.0	159	99	0	623	31	20	20	27	1.97
3408371--3408399	3	9.7	3	100	0	58	34	0	0	65	0.93
3412935--3413089	75	2.1	75	92	3	260	21	13	6	58	1.57
3413145--3413183	19	2.0	21	90	10	64	28	5	0	66	1.12
3413140--3413183	22	2.0	21	86	4	61	29	6	0	63	1.20
3419797--3419877	37	2.2	37	95	0	144	39	16	32	12	1.85
3424643--3424957	157	2.0	157	98	1	614	32	25	18	24	1.97

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