genome.fa.s7984.2.7.7.80.10.50.1000.18.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: VEPZ01007984.1 Hibiscus syriacus cultivar Beakdansim tig00110429_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  12923621

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   56   57   58   59   60   61   62   63   64   
          65   

This is table  18  of  65  ( 7696 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)
3568820--3568859	21	1.9	21	94	0	71	40	20	35	5	1.74
3568856--3568896	21	2.0	21	85	0	55	36	21	39	2	1.67
3569237--3569419	43	4.2	42	67	19	108	32	20	22	24	1.98
3569383--3569505	43	2.9	43	85	0	165	27	26	17	29	1.97
3570786--3570863	33	2.4	33	97	0	147	26	23	41	8	1.84
3571933--3571959	2	13.5	2	100	0	54	51	0	0	48	1.00
3575003--3575057	20	2.8	20	88	0	83	40	12	21	25	1.89
3577899--3577951	15	3.5	15	75	17	56	50	1	20	26	1.58
3578014--3578119	28	3.8	28	81	5	117	48	10	7	33	1.66
3578481--3578743	28	9.3	29	72	9	181	47	11	9	32	1.71
3578481--3578683	56	3.6	57	77	7	218	48	11	8	31	1.70
3578482--3578712	113	2.1	112	93	2	392	46	11	9	32	1.72
3578750--3578873	28	4.5	27	81	5	117	42	8	9	38	1.69
3578726--3578873	56	2.7	55	79	9	151	43	9	8	37	1.68
3578964--3579096	29	4.6	28	75	7	106	38	11	11	39	1.77
3578964--3579096	57	2.3	57	82	8	146	38	11	11	39	1.77
3579321--3579374	21	2.6	21	78	0	63	27	20	20	31	1.97
3579383--3579435	20	2.7	20	85	5	72	28	28	18	24	1.98
3579596--3579651	22	2.5	22	83	8	69	23	42	14	19	1.88
3579596--3579659	22	3.0	21	78	14	60	23	42	12	21	1.87
3580026--3580069	20	2.2	20	91	0	70	20	15	25	38	1.92
3580037--3580163	20	6.7	20	74	13	90	14	17	22	45	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3580129--3580172	20	2.2	20	87	0	61	13	13	18	54	1.71
3582076--3582151	20	3.8	20	80	0	98	35	22	22	19	1.96
3582136--3582211	33	2.3	34	90	2	118	47	19	21	11	1.81
3582178--3582215	20	1.9	20	94	0	67	47	18	21	13	1.82
3582211--3582273	19	3.3	19	78	6	74	14	14	23	47	1.80
3582278--3582346	20	3.5	20	84	7	86	18	21	23	36	1.95
3582339--3582377	20	2.0	20	94	0	69	20	10	23	46	1.81
3582862--3582984	21	5.9	21	72	3	86	22	35	17	23	1.95
3582863--3582984	42	2.9	42	79	2	129	22	35	18	23	1.96
3584268--3584304	16	2.2	17	95	4	67	35	0	16	48	1.46
3584297--3584419	36	3.3	35	70	22	106	29	2	15	52	1.55
3584339--3584377	14	2.8	14	92	0	69	35	0	17	46	1.49
3584252--3584419	77	2.1	79	90	5	270	30	2	15	51	1.56
3584339--3584393	14	4.1	13	79	9	65	36	0	18	45	1.49
3584338--3584398	28	2.2	29	82	8	81	36	0	16	47	1.47
3584497--3584574	20	3.9	20	85	6	104	43	24	17	14	1.86
3584497--3584574	40	2.0	40	89	5	122	43	24	17	14	1.86
3584578--3584675	34	2.9	34	90	4	153	18	19	25	36	1.94
3584563--3584703	20	7.7	20	72	18	110	22	17	23	36	1.95
3584674--3584956	140	2.0	140	95	0	512	43	14	12	29	1.82
3585014--3585048	18	1.9	18	94	0	61	17	2	25	54	1.57
3587308--3587361	24	2.2	24	93	0	90	40	20	18	20	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3587308--3587375	24	2.8	24	84	0	64	38	20	17	23	1.93
3588316--3588352	19	1.9	19	88	0	56	21	13	29	35	1.92
3588708--3588799	29	3.2	29	77	9	98	38	7	10	43	1.68
3588802--3588893	28	3.2	28	82	1	103	41	13	9	35	1.77
3590025--3590058	12	2.8	12	87	12	52	58	0	0	41	0.98
3592581--3592725	55	2.6	55	87	2	193	26	17	23	32	1.96
3593255--3593311	21	2.7	21	89	5	80	21	15	29	33	1.94
3593297--3593341	23	2.0	23	86	0	63	22	26	22	28	1.99
3595237--3595282	18	2.6	18	96	0	83	45	4	41	8	1.55
3599863--3599905	12	3.5	12	93	3	68	20	0	6	72	1.08
3600135--3600239	21	4.8	23	76	18	93	19	20	28	31	1.97
3600157--3600239	22	3.8	22	80	13	91	16	21	28	32	1.96
3601114--3601150	3	12.3	3	100	0	74	67	0	0	32	0.91
3614324--3614355	10	3.4	10	87	12	50	65	0	0	34	0.93
3615206--3615231	13	2.0	13	100	0	52	53	0	0	46	1.00
3615767--3615809	17	2.5	18	81	11	54	65	0	4	30	1.13
3616307--3616348	10	4.1	10	77	17	50	11	26	0	61	1.30
3618382--3618421	20	2.1	19	85	4	53	52	2	17	27	1.57
3618557--3618591	15	2.3	15	100	0	70	14	22	34	28	1.93
3624393--3624432	20	2.1	19	85	4	53	52	2	17	27	1.57
3624568--3624602	15	2.3	15	100	0	70	14	22	34	28	1.93
3626971--3627021	3	17.7	3	88	8	79	72	0	0	27	0.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3635516--3635645	42	3.1	42	68	16	135	26	10	20	43	1.83
3635493--3635619	40	3.1	41	68	17	127	24	11	18	45	1.82
3635493--3635657	82	2.0	82	100	0	330	24	10	19	45	1.82
3638750--3638778	7	4.1	7	100	0	58	13	58	0	27	1.36
3643340--3643382	20	2.2	20	95	0	77	27	20	11	39	1.88
3653903--3653961	30	2.0	30	89	0	91	30	25	22	22	1.99
3656749--3656803	28	2.0	27	86	10	76	25	21	38	14	1.92
3657643--3657712	26	2.7	26	97	0	131	37	17	17	28	1.92
3664639--3664686	22	2.2	22	84	0	60	18	12	27	41	1.86
3665492--3665530	2	19.5	2	100	0	78	51	0	0	48	1.00
3666698--3666738	19	2.2	19	86	8	57	48	2	4	43	1.37
3667194--3667279	29	2.9	31	77	14	85	19	13	6	59	1.57
3667903--3667943	19	2.2	19	86	8	57	48	2	4	43	1.37
3669962--3669999	20	2.0	19	90	10	60	47	10	23	18	1.79
3670145--3670211	35	1.9	35	85	11	93	47	4	0	47	1.22
3675389--3675436	20	2.3	20	85	3	60	52	2	4	41	1.32
3685414--3685458	15	3.0	15	86	0	63	24	6	0	68	1.13
3685413--3685456	20	2.3	19	92	4	70	22	6	0	70	1.11
3685415--3685459	5	9.0	5	85	0	54	22	6	0	71	1.09
3688604--3688636	16	2.0	17	88	5	50	24	3	0	72	0.98
3691661--3691696	17	2.1	17	89	0	54	80	5	8	5	1.01
3692736--3693242	219	2.3	224	80	5	557	29	18	20	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3692872--3693340	223	2.1	219	81	5	534	30	18	20	31	1.96
3695510--3695558	20	2.5	20	100	0	98	20	30	14	34	1.92
3702440--3702490	22	2.5	21	76	14	54	31	19	19	29	1.97
3707515--3708150	322	2.0	322	97	0	1200	38	18	14	27	1.90
3711134--3711195	30	2.0	30	87	3	88	61	4	3	30	1.33
3711723--3711764	18	2.2	18	87	8	57	21	14	26	38	1.91
3712973--3713023	20	2.5	20	79	17	61	39	0	1	58	1.09
3713590--3713681	48	1.9	48	86	0	130	20	10	14	54	1.69
3713655--3713706	16	3.2	16	83	2	59	25	3	11	59	1.49
3715947--3715979	16	2.0	17	94	5	59	30	27	12	30	1.92
3718578--3718653	25	3.2	25	64	27	65	39	7	9	43	1.66
3718573--3718664	46	2.0	46	93	0	157	40	6	9	43	1.64
3718940--3719018	39	2.0	39	97	0	149	48	5	8	37	1.57
3719491--3719521	14	2.2	14	94	0	53	64	0	0	35	0.94
3719557--3719602	23	2.0	23	91	0	74	43	2	0	54	1.12
3719564--3719610	23	2.0	23	83	4	58	48	0	2	48	1.13
3720194--3720233	21	1.9	21	89	0	62	32	27	15	25	1.95
3720259--3720297	19	2.1	19	90	0	60	17	38	15	28	1.91
3720270--3720387	45	2.6	44	75	12	114	28	24	15	31	1.95
3720356--3720404	19	2.6	19	84	9	57	24	30	18	26	1.98
3726203--3726284	24	3.6	23	76	14	98	21	28	21	28	1.99
3728728--3728767	21	1.9	21	89	0	62	35	30	12	22	1.91
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3728752--3728820	28	2.4	28	95	2	120	42	15	17	24	1.88
3728821--3728859	19	2.1	19	95	0	69	20	38	15	25	1.92
3728801--3728920	64	1.9	64	85	0	168	31	25	15	27	1.95
3728806--3728965	64	2.5	62	79	8	162	31	26	14	27	1.95
3732019--3732070	23	2.3	23	89	0	86	44	15	13	26	1.84
3733460--3733508	24	2.0	24	92	0	80	30	20	12	36	1.89
3736894--3736942	23	2.1	23	92	0	80	38	8	26	26	1.84
3740316--3740347	2	16.0	2	100	0	64	50	0	0	50	1.00
3743262--3743315	20	2.7	20	82	5	65	31	9	31	27	1.88
3744733--3744825	30	3.1	30	90	1	143	32	26	20	20	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   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   56   57   58   59   60   61   62   63   64   
          65