genome.fa.s1465.2.7.7.80.10.50.1000.37.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  37  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)
7378447--7378501	25	2.2	25	83	3	67	29	14	27	29	1.95
7382862--7382886	11	2.3	11	100	0	50	24	0	16	60	1.36
7384362--7384394	15	2.2	15	100	0	66	33	33	18	15	1.92
7384506--7384574	24	2.8	26	83	12	85	31	24	5	37	1.79
7384539--7384574	12	3.0	12	91	0	63	36	25	5	33	1.79
7384898--7385050	64	2.4	64	82	6	168	30	17	19	32	1.95
7390602--7390670	24	2.8	26	83	12	85	31	24	5	37	1.79
7390635--7390670	12	3.0	12	91	0	63	36	25	5	33	1.79
7390978--7391134	64	2.5	63	84	6	183	29	18	19	32	1.96
7392061--7392127	35	1.9	35	87	0	98	29	13	8	47	1.73
7392527--7392693	29	5.9	28	79	5	165	32	4	12	50	1.59
7392527--7392710	85	2.1	87	82	4	212	32	4	11	51	1.59
7392522--7392719	58	3.5	57	80	6	213	33	5	11	50	1.60
7392555--7392710	29	5.4	29	80	4	156	32	5	10	51	1.61
7402554--7402605	25	2.0	26	82	14	63	28	23	1	46	1.63
7403233--7403290	20	2.9	20	94	0	107	24	25	20	29	1.99
7406974--7407021	24	2.0	23	84	4	60	39	4	2	54	1.32
7412478--7412519	2	21.0	2	90	9	68	50	0	2	47	1.14
7414643--7414689	19	2.5	19	96	3	87	0	14	31	53	1.42
7415825--7416104	140	2.0	140	98	0	542	35	22	10	30	1.89
7417176--7417216	18	2.4	17	84	8	55	21	4	0	73	1.02
7431414--7431489	3	25.0	3	84	12	102	34	0	0	65	0.93
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7431417--7431489	19	3.9	19	84	10	98	34	0	0	65	0.93
7431415--7431489	31	2.4	32	89	6	120	34	0	0	65	0.93
7432905--7432933	12	2.4	12	100	0	58	31	6	0	62	1.22
7433119--7433161	20	2.2	20	86	0	59	32	0	2	65	1.06
7433017--7433252	121	2.0	118	80	5	271	38	7	7	47	1.60
7441638--7441761	44	3.0	44	88	8	172	41	16	9	33	1.81
7441694--7441797	37	2.8	37	86	0	136	41	14	11	32	1.82
7442217--7442263	15	3.4	14	77	19	53	27	0	0	72	0.85
7442217--7442263	23	2.0	23	88	8	69	27	0	0	72	0.85
7442295--7442327	2	16.5	2	100	0	66	48	0	0	51	1.00
7442348--7442372	12	2.1	12	100	0	50	24	8	0	68	1.16
7443879--7443915	19	1.9	19	89	10	58	8	24	0	67	1.17
7445873--7445927	16	3.5	15	76	16	58	80	5	12	1	0.97
7447539--7448272	106	7.0	106	89	4	1089	34	25	18	22	1.96
7448043--7448198	43	3.4	43	69	13	132	35	24	18	21	1.95
7449022--7449118	37	2.6	37	85	0	131	42	14	11	31	1.81
7449545--7449590	14	3.4	14	77	22	53	28	0	0	71	0.86
7449545--7449590	22	2.0	23	88	12	69	28	0	0	71	0.86
7449572--7449653	33	2.6	31	81	9	85	30	2	2	64	1.19
7449667--7449692	13	2.0	13	100	0	52	23	7	0	69	1.14
7449832--7449877	22	2.2	20	84	7	56	28	4	0	67	1.10
7449843--7449902	29	2.1	28	84	9	77	23	1	0	75	0.90
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7449842--7449897	25	2.1	27	83	6	71	25	1	0	73	0.93
7449842--7449902	27	2.2	28	85	11	81	24	1	0	73	0.92
7464866--7464895	15	2.0	15	93	0	51	66	3	16	13	1.37
7468308--7468347	19	2.1	19	90	9	64	40	20	10	30	1.85
7469389--7469438	20	2.6	20	81	15	61	24	26	20	30	1.98
7475808--7475858	23	2.2	23	89	0	75	49	19	7	23	1.74
7481428--7481518	30	2.9	31	83	4	121	31	16	18	32	1.93
7483814--7483864	19	2.7	19	96	3	95	27	11	15	45	1.81
7487576--7487615	20	2.1	19	90	4	62	35	7	32	25	1.84
7490172--7490458	93	3.2	93	86	6	378	34	18	25	21	1.96
7490304--7490615	157	2.0	159	85	3	434	33	19	25	22	1.97
7502746--7502801	29	2.0	27	86	6	76	25	16	17	41	1.89
7503216--7503258	19	2.2	20	91	4	70	32	25	4	37	1.77
7507576--7507636	31	2.0	31	86	0	86	37	9	24	27	1.87
7510505--7510543	20	2.0	20	89	0	60	33	10	23	33	1.88
7519009--7519047	20	2.0	20	89	0	60	33	10	23	33	1.88
7520817--7520927	12	9.2	12	76	0	87	12	6	49	31	1.66
7520817--7520927	36	3.1	36	77	0	114	12	6	49	31	1.66
7520829--7520940	36	3.1	35	74	7	100	13	6	47	33	1.68
7520901--7521056	75	2.0	77	83	3	199	19	8	37	33	1.83
7535905--7536306	205	2.0	200	95	2	723	25	21	18	34	1.96
7550594--7550657	21	3.0	21	90	0	101	31	26	25	17	1.97
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7554899--7554924	6	4.3	6	100	0	52	34	50	15	0	1.45
7556149--7556195	19	2.5	19	82	0	58	63	0	4	31	1.13
7556164--7556199	19	2.0	18	89	10	56	55	0	5	38	1.23
7557366--7557409	19	2.2	20	88	4	63	27	20	27	25	1.99
7558660--7558724	23	2.8	22	84	13	78	52	15	18	13	1.75
7560535--7560576	19	2.2	19	95	0	75	28	0	21	50	1.49
7561584--7561679	28	3.5	28	84	2	122	17	14	18	48	1.80
7561588--7561664	27	2.8	28	86	4	102	19	16	15	48	1.82
7567168--7567211	17	2.6	17	82	10	54	52	0	0	47	1.00
7578250--7578402	77	2.0	77	96	2	281	41	15	14	28	1.87
7578583--7578640	6	9.7	6	88	0	89	5	0	79	15	0.90
7578583--7578640	18	3.2	18	92	0	98	5	0	79	15	0.90
7586045--7586081	19	1.9	19	94	0	65	37	21	24	16	1.93
7587311--7587508	75	2.6	75	84	3	238	51	14	6	27	1.66
7587428--7587456	12	2.5	12	94	5	51	62	13	0	24	1.32
7595091--7595144	24	2.2	24	84	12	67	50	1	0	48	1.11
7597515--7597539	2	12.5	2	100	0	50	52	0	0	48	1.00
7601500--7601574	29	2.7	29	82	12	102	38	0	4	57	1.18
7602000--7602077	27	3.0	26	78	10	79	47	1	0	51	1.09
7605279--7605403	29	4.3	29	73	8	112	40	24	7	28	1.81
7605440--7605492	18	3.0	18	88	2	81	15	20	47	16	1.83
7612492--7612674	29	6.3	29	78	1	161	41	23	6	28	1.78
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7612503--7612669	87	1.9	85	89	2	253	41	21	5	31	1.75
7612682--7612745	18	3.6	18	91	2	94	17	20	46	15	1.83
7613735--7613787	19	2.8	20	83	11	67	66	3	1	28	1.20
7617731--7617790	23	2.6	23	97	0	111	40	18	8	33	1.80
7621924--7621988	29	2.2	30	83	2	78	41	23	7	27	1.81
7622868--7622931	29	2.2	29	91	0	101	37	7	7	46	1.62
7622677--7623060	139	2.9	127	81	8	416	34	10	11	42	1.76
7623007--7623070	29	2.2	29	85	0	83	35	7	9	46	1.65
7622800--7623107	139	2.2	141	89	1	467	35	11	11	41	1.77
7625160--7625212	14	3.4	15	78	19	63	26	5	0	67	1.12
7629182--7629535	183	1.9	183	93	0	609	27	21	22	29	1.99
7630733--7630807	37	2.0	38	84	2	98	29	22	14	33	1.94
7630814--7630900	37	2.4	37	82	1	95	24	20	12	42	1.87
7630916--7631000	36	2.4	36	89	0	125	21	21	16	41	1.90
7630721--7631220	102	4.9	102	90	2	774	30	19	12	36	1.90
7631030--7631105	39	1.9	39	84	5	100	28	19	13	38	1.90
7630721--7631220	205	2.5	203	91	2	788	30	19	12	36	1.90
7631362--7631589	109	2.1	108	92	0	375	32	27	18	21	1.97
7634623--7634705	29	2.9	29	90	0	121	16	34	28	19	1.94
7634726--7634785	23	2.6	23	86	0	84	10	31	30	28	1.89
7634767--7634799	14	2.4	14	94	0	57	6	30	39	24	1.79
7634789--7634826	20	1.9	20	88	0	58	15	26	26	31	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
7634789--7634832	20	2.2	20	83	0	52	18	25	27	29	1.98
7636693--7636731	2	19.5	2	94	0	69	0	51	0	48	1.00
7638265--7638319	23	2.4	23	90	0	83	23	14	10	50	1.74
7642289--7642359	21	3.4	21	70	18	76	15	21	26	36	1.93
7642286--7642597	41	7.4	41	73	12	224	19	19	24	36	1.95
7642350--7642490	69	2.0	70	91	2	230	20	18	25	35	1.95
7642265--7642573	103	2.9	102	77	13	293	19	19	24	35	1.95
7642543--7642597	19	2.8	19	77	5	65	21	20	21	36	1.95
7643196--7643222	6	4.5	6	100	0	54	0	14	51	33	1.43
7643295--7643469	20	8.6	20	68	10	113	40	22	21	16	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   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