genome.fa.s8209.2.7.7.80.10.50.1000.15.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: VEPZ01008209.1 Hibiscus syriacus cultivar Beakdansim tig00110831_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6561538

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   

This is table  15  of  30  ( 3569 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)
3525242--3525435	81	2.4	80	87	5	266	20	18	24	36	1.95
3525421--3525473	20	2.7	20	85	5	72	15	18	22	43	1.87
3525242--3525473	81	2.9	81	83	5	229	19	18	24	37	1.94
3525502--3525558	20	2.8	20	75	17	64	19	14	28	38	1.90
3528852--3528895	19	2.3	19	84	7	54	36	9	25	29	1.86
3535007--3535117	42	2.7	41	76	8	125	23	19	25	31	1.98
3534373--3535331	258	3.7	258	87	1	1354	32	15	17	34	1.91
3535473--3535524	3	18.0	3	81	15	65	30	0	0	69	0.89
3542060--3542102	18	2.3	18	88	11	61	53	0	0	46	1.00
3542166--3542222	25	2.3	25	96	0	105	15	38	17	28	1.91
3542813--3542874	26	2.4	26	94	0	106	38	29	20	11	1.88
3544150--3544191	22	2.0	21	86	9	59	33	7	0	59	1.25
3544383--3544439	22	2.6	22	97	0	105	54	14	3	28	1.56
3545459--3545491	13	2.5	13	90	9	50	51	0	6	42	1.26
3545440--3545767	38	8.9	37	81	11	347	49	2	4	43	1.38
3545479--3545767	112	2.7	106	83	8	322	48	3	4	43	1.40
3545843--3545892	3	15.7	3	80	12	55	26	2	0	72	0.96
3545839--3545895	16	3.5	16	81	9	71	24	1	0	73	0.92
3546242--3546309	30	2.2	31	79	10	77	57	32	7	2	1.41
3546964--3547078	54	2.2	51	87	6	160	19	11	3	66	1.38
3547064--3547139	14	5.4	14	72	16	50	19	5	1	73	1.09
3553702--3554024	36	8.9	35	82	11	336	47	3	5	43	1.44
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3553710--3554024	106	2.9	107	84	7	408	47	3	5	42	1.44
3554090--3554146	16	3.5	17	83	9	75	22	3	0	73	0.98
3554079--3554148	32	2.2	32	82	5	88	20	5	0	74	1.02
3554492--3554551	28	2.1	30	90	6	97	55	33	6	5	1.48
3555108--3555214	48	2.2	48	82	11	121	21	11	1	65	1.34
3555186--3555256	25	2.8	25	72	16	74	21	4	1	73	1.08
3558297--3558336	21	1.9	21	89	0	62	22	2	30	45	1.66
3573576--3573620	24	2.0	22	82	8	54	37	8	13	40	1.76
3576357--3576435	2	41.0	2	92	7	137	51	0	0	48	1.00
3583468--3583520	22	2.4	22	78	12	63	30	7	20	41	1.80
3600182--3600222	20	2.0	21	95	4	75	34	19	21	24	1.97
3600184--3600227	20	2.2	20	88	8	63	29	18	25	27	1.98
3601551--3601596	20	2.3	20	92	0	74	23	13	13	50	1.76
3602335--3602368	17	2.0	17	94	0	59	50	23	20	5	1.70
3608609--3608653	21	2.1	21	87	0	63	33	8	4	53	1.52
3609049--3609083	17	2.1	17	94	0	61	48	2	20	28	1.63
3613426--3613529	51	2.0	51	96	0	190	31	22	4	41	1.74
3614116--3614154	20	2.0	20	89	0	60	43	0	2	53	1.14
3617340--3617388	18	2.8	18	79	11	57	24	0	6	69	1.11
3618437--3618466	12	2.6	12	94	5	53	70	10	0	20	1.16
3620896--3620948	3	17.7	3	92	0	88	64	1	32	1	1.15
3629098--3629128	13	2.4	13	94	0	53	16	19	48	16	1.81
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3629141--3629182	9	4.4	10	79	8	52	35	28	21	14	1.92
3631182--3631282	51	2.0	51	94	0	175	30	19	12	36	1.90
3633508--3633551	16	2.9	16	80	6	56	18	18	11	52	1.74
3652089--3652626	216	2.5	215	92	1	911	35	14	18	31	1.91
3653111--3653423	53	5.9	53	85	2	405	29	21	26	21	1.99
3682549--3682573	5	5.0	5	100	0	50	40	0	20	40	1.52
3683707--3683918	114	1.8	116	85	4	304	38	10	14	36	1.80
3692608--3692645	20	1.9	20	88	0	58	23	13	36	26	1.91
3693868--3694177	104	2.9	108	84	6	355	44	3	9	42	1.54
3693856--3694245	35	10.8	36	80	9	350	43	3	10	42	1.55
3696456--3696535	32	2.4	34	93	4	137	38	0	0	61	0.96
3701698--3701956	133	2.0	132	96	3	477	25	17	24	31	1.97
3704354--3704395	3	14.0	3	84	0	57	0	40	0	59	0.97
3704355--3704395	12	3.4	12	93	0	64	0	41	0	58	0.98
3705979--3706074	32	3.1	31	88	5	149	23	18	25	32	1.97
3708844--3709308	59	7.9	58	76	7	305	30	20	11	38	1.87
3712001--3712203	35	5.8	36	83	5	254	46	3	8	41	1.51
3711933--3712202	35	7.5	35	79	6	229	45	3	8	42	1.51
3712001--3712203	71	2.9	71	85	2	277	46	3	8	41	1.51
3715603--3715781	94	1.9	96	84	4	247	26	25	10	37	1.88
3719591--3719630	20	2.0	21	85	5	55	72	2	2	22	1.09
3719611--3719649	20	2.0	19	85	5	51	71	7	0	20	1.10
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3719666--3719709	22	2.0	22	90	0	70	34	6	6	52	1.55
3719707--3720136	104	4.0	105	84	4	468	42	8	3	45	1.53
3719638--3720136	35	13.9	35	77	8	443	42	8	4	45	1.53
3726431--3726472	18	2.3	19	87	4	59	50	7	14	28	1.69
3727579--3727612	17	2.0	17	100	0	68	35	17	5	41	1.74
3733092--3733165	36	2.2	33	85	7	94	32	0	21	45	1.52
3734822--3734943	64	1.9	64	84	3	165	24	16	22	36	1.94
3739071--3739120	21	2.4	21	96	3	93	44	12	10	34	1.75
3743009--3743034	2	13.0	2	100	0	52	50	0	0	50	1.00
3743614--3743735	64	1.9	64	84	3	165	27	18	18	35	1.95
3744288--3744342	21	2.6	21	100	0	110	27	27	23	21	1.99
3751957--3751992	18	2.0	18	100	0	72	44	16	33	5	1.71
3756278--3756369	28	3.2	30	80	18	90	28	2	1	68	1.08
3756308--3756372	25	2.4	27	82	7	80	30	3	0	66	1.07
3756513--3756592	29	2.8	28	83	5	97	60	0	6	33	1.22
3756753--3756810	27	2.1	27	87	0	80	68	3	1	25	1.14
3757754--3757779	2	13.0	2	100	0	52	50	0	0	50	1.00
3762361--3762406	19	2.4	19	96	0	83	45	13	4	36	1.63
3765694--3765839	74	2.0	73	86	1	202	39	15	21	22	1.91
3779356--3779449	37	2.4	40	82	12	106	43	2	1	53	1.19
3779375--3779443	11	5.8	11	75	14	66	44	1	1	52	1.19
3783460--3783535	26	2.7	29	82	16	104	59	10	5	25	1.51
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3785130--3785163	2	18.0	2	88	11	54	50	0	0	50	1.00
3785690--3786050	22	16.5	22	88	2	521	41	0	10	47	1.40
3795732--3795916	43	4.4	41	81	12	198	32	20	20	26	1.97
3795732--3795916	86	2.2	85	85	4	241	32	20	20	26	1.97
3796325--3796356	16	2.0	16	93	0	55	25	25	9	40	1.85
3797068--3797183	33	3.5	32	74	15	119	59	20	6	12	1.56
3797065--3797206	66	2.2	66	92	2	232	60	18	8	12	1.57
3797520--3797605	14	5.7	14	67	20	57	63	11	8	16	1.49
3798494--3798570	33	2.2	33	84	6	100	51	9	10	28	1.66
3798494--3798648	36	4.3	36	81	7	145	50	7	12	29	1.68
3798709--3798879	44	4.0	44	77	13	160	30	15	23	30	1.95
3801911--3802065	41	3.7	41	92	3	247	35	23	21	19	1.96
3802989--3803146	29	5.5	28	75	11	133	39	23	6	29	1.81
3803181--3803221	17	2.4	17	91	0	64	12	26	43	17	1.84
3809311--3809479	42	4.0	42	92	1	248	35	23	21	19	1.96
3810405--3810562	29	5.5	28	74	11	90	39	23	6	30	1.81
3810597--3810650	17	3.4	17	75	19	62	14	22	46	16	1.84
3810591--3810650	30	2.0	30	93	0	102	16	21	45	16	1.86
3810591--3810649	13	4.3	13	82	17	75	16	22	44	16	1.87
3816846--3816914	29	2.4	28	79	11	77	66	1	1	30	1.09
3816839--3816897	18	3.3	16	76	21	55	69	1	1	27	1.07
3818113--3818554	137	3.2	132	83	7	487	27	19	16	37	1.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
3818728--3818984	113	2.3	112	89	3	383	28	19	15	37	1.92
3819030--3819228	102	1.9	104	86	2	285	28	20	12	38	1.89
3819615--3819690	22	3.5	22	96	1	136	38	13	15	32	1.86
3820090--3820282	54	3.6	54	83	2	208	29	19	13	37	1.90
3826355--3826393	20	2.0	20	84	0	51	64	7	10	17	1.48
3831244--3831354	56	2.1	52	89	6	168	61	4	2	31	1.30
3831315--3831357	21	2.1	21	91	4	70	62	2	0	34	1.08
3831244--3831375	56	2.4	55	85	10	144	58	4	2	34	1.31
3831663--3831714	22	2.3	23	78	18	56	30	3	3	61	1.32
3839496--3839608	60	1.9	60	88	0	172	33	13	21	31	1.92

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