genome.fa.s1465.2.7.7.80.10.50.1000.19.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: VEPZ01001465.1 Hibiscus syriacus cultivar Beakdansim tig00002840_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  11160956

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   

This is table  19  of  55  ( 6520 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)
3589628--3589657	15	1.9	16	93	6	53	0	16	23	60	1.36
3591593--3591640	22	2.2	22	92	0	78	37	16	18	27	1.92
3596464--3596512	20	2.5	20	81	15	59	30	18	24	26	1.98
3604375--3604410	2	18.5	2	94	5	65	50	0	0	50	1.00
3607941--3607999	31	1.9	31	89	0	91	40	5	10	44	1.60
3608072--3608291	32	7.7	32	71	25	206	52	12	0	34	1.40
3608055--3608290	54	4.3	54	89	4	364	52	12	0	34	1.42
3608104--3608146	22	2.0	22	100	0	86	51	9	0	39	1.34
3608106--3608154	22	2.2	22	88	3	71	55	10	0	34	1.34
3608077--3608311	112	2.1	112	95	0	425	54	12	0	33	1.39
3608216--3608258	22	2.0	22	100	0	86	51	13	0	34	1.42
3608014--3608453	134	3.2	140	79	15	402	52	11	0	35	1.40
3608218--3608266	22	2.2	22	88	3	71	57	12	0	30	1.36
3608077--3608370	112	2.6	110	87	6	360	53	12	0	33	1.39
3608350--3608392	22	2.0	22	95	0	77	51	11	0	37	1.39
3608352--3608400	22	2.2	22	85	3	62	55	12	0	32	1.37
3608395--3608528	15	8.5	15	84	11	178	51	1	0	47	1.10
3608301--3608468	54	3.1	55	86	6	213	51	8	0	40	1.32
3608424--3608528	45	2.3	45	98	0	201	50	0	0	49	1.00
3608997--3609175	29	6.2	28	75	10	137	46	15	16	22	1.83
3608993--3609178	87	2.1	87	80	9	218	46	15	17	21	1.84
3608997--3609204	29	7.2	29	75	12	133	46	14	16	22	1.84
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3612927--3612968	19	2.2	19	86	0	57	35	14	21	28	1.92
3617270--3617314	20	2.2	20	84	0	54	28	8	22	40	1.84
3617679--3617723	9	5.0	9	80	0	54	55	0	13	31	1.38
3620436--3620473	18	2.1	18	90	0	58	15	39	15	28	1.89
3632359--3632435	2	39.5	2	82	14	90	46	0	5	48	1.24
3632359--3632477	50	2.4	50	87	2	159	49	0	6	42	1.35
3632704--3632746	22	2.0	23	86	9	63	51	20	0	27	1.48
3638864--3638902	19	2.1	19	90	0	60	43	25	0	30	1.55
3642504--3642551	15	3.2	15	90	0	69	25	0	39	35	1.56
3653078--3653115	19	2.0	20	89	5	60	44	18	13	23	1.85
3660712--3660752	20	2.2	18	86	8	55	48	9	0	41	1.36
3661545--3661574	9	3.2	9	90	9	51	53	20	0	26	1.46
3665611--3665666	27	2.1	27	86	0	76	55	12	7	25	1.62
3668130--3668156	3	9.0	3	100	0	54	66	0	0	33	0.92
3668522--3668568	25	1.9	24	86	4	67	61	6	0	31	1.21
3669344--3669412	26	3.0	22	76	21	61	31	0	2	65	1.08
3669371--3669424	9	6.3	9	77	12	60	33	0	1	64	1.04
3669373--3669422	17	3.1	16	91	2	73	36	0	2	62	1.07
3671622--3671669	25	1.9	25	86	0	69	16	4	14	64	1.43
3683669--3683711	22	2.0	22	90	0	68	27	9	23	39	1.85
3686817--3686848	16	2.0	16	100	0	64	31	25	12	31	1.92
3702902--3702981	40	2.0	40	87	0	115	41	16	18	23	1.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3706330--3706360	10	3.0	10	95	4	53	22	9	0	67	1.19
3706341--3706378	16	2.5	15	87	8	51	21	5	0	73	1.02
3706331--3706378	24	2.0	23	84	15	62	20	6	0	72	1.05
3706458--3706506	19	2.6	19	100	0	98	34	10	0	55	1.34
3710256--3710351	46	2.1	47	96	2	176	37	19	6	36	1.77
3716322--3716361	20	2.0	21	85	5	55	25	17	10	47	1.78
3716470--3716509	21	1.9	21	90	10	64	30	5	7	57	1.48
3720038--3720062	11	2.3	11	100	0	50	68	0	0	32	0.90
3722412--3722445	15	2.3	15	95	5	61	55	0	5	38	1.24
3722407--3722445	15	2.6	14	88	11	60	48	2	5	43	1.38
3723976--3724081	3	36.0	3	82	3	81	56	1	0	41	1.10
3724319--3724378	17	3.4	17	68	17	50	18	23	8	50	1.74
3724278--3724857	123	4.8	122	86	5	706	26	19	14	39	1.90
3724278--3724855	247	2.4	240	84	7	730	26	19	14	39	1.90
3724668--3724886	112	1.9	113	92	0	368	27	20	15	36	1.93
3732600--3732677	14	5.7	14	67	11	54	64	7	10	17	1.48
3732600--3732676	28	2.8	28	73	7	70	64	7	10	16	1.46
3732614--3732651	20	1.9	20	88	0	58	55	10	15	18	1.68
3733357--3733428	36	2.0	36	86	0	99	29	11	16	43	1.82
3734975--3735032	27	2.2	27	82	11	68	65	1	0	32	1.03
3735244--3735281	3	12.7	3	100	0	76	65	0	0	34	0.93
3736304--3736478	87	2.0	87	94	0	305	17	18	44	20	1.88
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3736691--3736760	3	24.0	3	82	5	72	61	2	0	35	1.11
3738417--3738531	34	3.5	34	81	11	132	26	14	13	46	1.81
3739957--3740016	30	2.0	31	96	3	113	40	10	11	38	1.75
3741423--3741924	231	2.2	229	86	6	683	40	18	11	29	1.86
3744780--3744838	16	3.7	16	90	0	100	57	20	11	10	1.63
3744790--3744854	10	6.3	10	76	13	69	56	20	12	10	1.65
3745909--3745959	14	3.9	14	80	19	74	50	21	11	15	1.76
3745921--3745945	10	2.5	10	100	0	50	48	24	12	16	1.79
3745909--3745961	24	2.2	24	100	0	106	50	20	11	16	1.76
3746480--3746549	35	1.9	37	88	5	108	45	5	8	40	1.58
3746539--3746635	35	2.7	35	85	4	133	45	0	6	48	1.27
3748055--3748163	31	3.4	31	71	18	82	21	8	1	68	1.25
3750199--3750269	31	2.2	31	80	11	81	18	11	0	70	1.16
3755228--3755271	22	2.0	22	90	0	70	59	9	9	22	1.56
3756737--3756931	97	2.0	97	87	0	282	34	22	17	25	1.95
3757325--3757550	35	6.4	36	74	18	158	41	3	10	44	1.57
3757453--3757518	26	2.5	28	85	12	102	43	3	7	45	1.47
3757416--3757547	63	2.1	64	92	7	225	42	2	8	46	1.46
3757380--3757588	37	6.0	35	76	15	184	42	2	9	45	1.50
3757481--3757616	37	3.6	37	82	11	170	41	2	8	47	1.45
3757490--3757635	38	3.9	36	77	16	113	42	2	7	47	1.46
3759102--3759185	35	2.4	36	82	9	93	15	10	1	72	1.17
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3768597--3768636	22	1.9	22	90	10	66	60	0	0	40	0.97
3769230--3769322	8	12.0	8	71	15	79	34	31	4	30	1.77
3769271--3769322	22	2.4	22	100	0	104	36	32	3	26	1.75
3769230--3769309	30	2.6	32	78	9	94	33	31	3	31	1.76
3770970--3771011	20	2.0	21	86	4	59	54	16	0	28	1.42
3772144--3772187	2	22.0	2	100	0	88	50	0	0	50	1.00
3772358--3772395	20	1.9	20	89	10	60	52	10	0	36	1.36
3773143--3773267	64	1.9	65	84	7	166	29	21	20	28	1.98
3778979--3779070	44	2.1	42	84	7	114	29	26	20	23	1.99
3780586--3780630	21	2.1	21	87	0	63	11	40	15	33	1.83
3780980--3781036	28	2.0	28	83	10	71	21	5	21	52	1.66
3781728--3781888	65	2.5	65	97	0	304	32	19	18	29	1.96
3781829--3781934	45	2.3	45	84	7	126	31	18	18	31	1.96
3781911--3781953	19	2.4	19	84	7	54	23	27	20	27	1.99
3783808--3783873	28	2.4	28	89	0	96	25	0	24	50	1.50
3783948--3783995	13	3.4	13	76	20	51	39	0	6	54	1.26
3783948--3783995	15	3.2	15	85	11	71	39	0	6	54	1.26
3784045--3784083	21	1.9	21	89	5	62	23	0	43	33	1.54
3784048--3784100	21	2.5	21	81	0	61	24	1	35	37	1.67
3784043--3784105	14	4.5	14	73	0	54	22	1	39	36	1.64
3784155--3784311	2	81.0	2	68	17	91	46	3	3	47	1.34
3784270--3784305	15	2.4	15	95	0	63	41	2	5	50	1.40
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3784532--3784588	19	3.0	20	84	7	82	26	33	0	40	1.56
3784679--3784732	24	2.2	25	90	3	83	37	3	5	53	1.42
3784705--3784843	15	9.3	15	70	17	83	42	4	6	46	1.49
3784705--3784760	28	2.0	28	85	0	76	35	3	8	51	1.51
3784792--3784851	2	29.5	2	74	15	52	46	1	3	48	1.28
3784793--3784843	17	2.9	17	85	8	68	49	1	3	45	1.32
3784777--3784845	37	1.9	37	85	11	99	47	2	4	44	1.37
3784790--3784851	19	3.4	17	74	12	61	46	1	3	48	1.28
3785757--3785819	32	2.0	32	90	3	101	28	7	9	53	1.61
3786604--3786634	15	2.1	15	94	5	55	29	3	0	67	1.06

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