genome.fa.s8053.2.7.7.80.10.50.1000.29.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: VEPZ01008053.1 Hibiscus syriacus cultivar Beakdansim tig00110548_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  6772376

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   

This is table  29  of  32  ( 3749 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)
6028995--6029032	7	5.4	7	90	9	60	23	28	31	15	1.96
6029029--6029086	5	10.8	5	78	14	62	6	22	51	18	1.70
6029022--6029086	22	3.0	22	100	0	130	9	23	49	18	1.76
6029084--6029139	19	2.9	19	100	0	112	30	32	26	10	1.90
6029083--6029181	19	5.2	17	84	11	90	29	29	28	13	1.94
6029089--6029201	19	5.8	19	82	10	79	30	28	26	14	1.95
6029083--6029201	10	12.3	9	78	11	103	30	27	27	14	1.95
6030801--6030852	17	3.2	17	75	10	54	32	3	13	50	1.60
6032101--6032127	2	13.5	2	100	0	54	48	0	0	51	1.00
6032245--6032301	29	2.0	29	96	0	105	24	19	12	43	1.85
6033936--6034027	15	6.1	15	98	0	175	33	32	18	15	1.92
6034649--6034813	64	2.6	63	86	3	215	29	18	19	32	1.96
6051984--6052071	14	5.9	14	70	25	65	73	0	17	9	1.07
6051980--6052068	29	3.0	28	80	11	99	75	0	15	8	1.04
6052019--6052071	16	3.6	14	82	17	63	73	0	20	5	1.03
6052033--6052112	41	1.9	42	85	7	110	71	1	21	6	1.15
6052019--6052133	15	7.2	16	70	20	71	70	0	20	7	1.18
6052019--6052110	29	3.5	25	72	25	66	72	1	20	5	1.10
6053534--6054285	55	13.7	55	87	4	864	28	17	24	30	1.97
6057253--6057295	19	2.3	18	81	14	52	41	2	2	53	1.26
6071156--6071184	2	14.5	2	100	0	58	48	0	0	51	1.00
6088951--6088979	14	2.1	14	100	0	58	44	13	13	27	1.82
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6099901--6099940	21	1.9	21	89	0	62	25	40	25	10	1.86
6103900--6103944	20	2.2	20	84	0	63	22	0	28	48	1.50
6105237--6105377	36	3.9	36	85	3	194	37	19	23	19	1.94
6105232--6105377	72	2.0	72	93	0	247	39	18	23	19	1.93
6109859--6109985	42	3.0	42	89	2	184	27	16	25	30	1.97
6119474--6119593	35	3.3	37	86	6	156	44	16	5	34	1.70
6120042--6120120	23	3.2	26	68	14	85	32	20	18	27	1.96
6120029--6120125	48	2.0	48	100	0	194	30	18	23	26	1.98
6120035--6120111	25	3.2	25	67	14	79	32	15	24	27	1.95
6124148--6124267	35	3.3	37	83	6	147	45	16	4	34	1.67
6125662--6125747	19	4.2	19	76	16	82	37	5	26	30	1.80
6125657--6125738	44	1.9	41	85	7	110	34	6	26	32	1.81
6126161--6126268	21	5.3	21	72	8	98	35	25	19	20	1.96
6126149--6126249	19	5.1	19	75	7	94	36	21	20	20	1.95
6126149--6126268	40	3.0	40	93	0	213	35	23	20	20	1.96
6126826--6126861	17	2.1	17	90	10	56	50	11	0	38	1.38
6140374--6140412	17	2.2	18	86	4	53	58	0	0	41	0.98
6143587--6143802	21	10.4	21	77	11	205	31	21	21	25	1.98
6143624--6143781	41	3.8	41	79	9	187	32	21	21	24	1.98
6143597--6143802	83	2.5	83	92	0	340	31	21	21	25	1.98
6143600--6143821	41	5.4	42	72	18	178	31	21	21	25	1.98
6143686--6143828	62	2.3	62	92	2	234	32	22	22	23	1.98
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6143874--6143925	20	2.6	20	100	0	104	23	21	17	38	1.93
6143893--6143986	40	2.3	41	87	5	129	20	21	23	35	1.96
6143835--6143993	61	2.6	60	76	15	164	22	21	22	33	1.97
6143919--6143994	40	1.9	40	91	0	125	22	21	25	31	1.98
6143811--6144000	21	9.2	21	78	5	138	23	21	23	31	1.98
6144579--6144631	5	10.2	5	88	8	79	0	39	20	39	1.53
6144578--6144631	22	2.6	21	88	5	83	0	40	20	38	1.53
6144579--6144638	15	3.9	15	82	8	57	1	36	21	40	1.64
6144746--6144901	21	7.4	21	72	16	135	37	25	17	19	1.93
6144742--6144926	21	8.8	21	70	16	125	36	25	18	19	1.95
6144742--6144920	42	4.3	42	97	0	322	36	25	18	19	1.94
6147367--6147395	12	2.3	13	94	5	51	24	0	3	72	1.00
6150027--6150063	16	2.2	17	90	4	58	40	0	0	59	0.97
6151138--6151178	21	2.0	21	90	0	64	34	0	14	51	1.43
6152860--6152900	16	2.6	16	84	0	55	39	7	4	48	1.52
6153254--6153292	2	21.5	2	80	19	50	43	0	0	56	0.99
6153244--6153280	18	2.1	18	100	0	74	37	0	0	62	0.96
6161150--6161225	32	2.3	33	86	2	109	23	26	38	11	1.89
6161242--6161276	17	2.1	17	94	0	61	17	25	42	14	1.86
6162993--6163061	30	2.3	30	85	5	86	40	2	20	36	1.67
6163276--6163343	23	3.0	23	88	0	91	20	29	23	26	1.99
6164225--6164510	142	2.0	143	99	0	565	34	13	7	43	1.73
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6165233--6165282	19	2.6	19	90	0	82	50	20	0	30	1.49
6165768--6165806	20	2.0	20	90	5	62	10	17	23	48	1.78
6165769--6165819	20	2.5	20	77	0	57	17	15	17	49	1.81
6167141--6167233	42	2.2	42	86	0	123	32	33	17	17	1.93
6167355--6167400	21	2.2	21	84	0	56	17	15	36	30	1.91
6167623--6167664	4	10.5	4	84	0	57	28	0	2	69	1.01
6167814--6167905	42	2.2	42	92	3	150	25	34	18	21	1.96
6167812--6167905	21	4.5	21	79	0	98	24	35	19	21	1.96
6174466--6174534	3	23.3	3	81	8	79	59	0	2	37	1.12
6174763--6175035	84	3.2	84	86	1	377	22	20	26	30	1.98
6175077--6175914	106	7.9	106	94	0	1415	22	18	25	33	1.96
6178577--6178631	16	3.4	16	97	2	101	30	40	5	23	1.77
6180984--6181055	3	24.3	3	84	8	94	61	0	2	36	1.11
6183486--6183528	18	2.3	18	92	4	68	39	0	2	58	1.11
6185561--6185599	19	2.1	19	85	0	51	33	5	25	35	1.78
6185625--6185671	21	2.2	22	84	3	60	44	4	2	48	1.34
6195423--6195467	20	2.2	20	88	0	63	46	2	0	51	1.13
6200955--6201004	2	25.0	2	100	0	100	50	0	0	50	1.00
6203117--6203173	18	3.1	18	72	20	55	66	1	8	22	1.29
6203255--6203322	19	3.4	19	79	20	68	70	0	1	27	0.96
6203256--6203382	22	5.9	21	75	13	89	67	0	3	28	1.11
6203275--6203344	21	3.5	19	78	11	61	65	0	2	31	1.07
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6203256--6203416	30	5.4	30	70	23	78	65	1	3	29	1.20
6203549--6203635	23	3.8	23	80	11	72	66	2	2	28	1.16
6204026--6204130	37	2.8	37	88	0	156	30	15	14	40	1.87
6204861--6207083	106	21.0	106	87	4	3033	23	18	24	33	1.97
6207905--6207960	22	2.5	22	97	0	103	26	12	25	35	1.91
6208569--6208615	14	3.4	14	85	8	69	0	8	6	85	0.75
6208569--6208616	15	3.3	15	78	16	57	0	8	6	85	0.74
6212908--6212963	20	2.9	19	75	19	62	66	1	8	23	1.30
6213046--6213161	21	5.5	20	70	18	76	66	0	3	30	1.08
6213124--6213190	26	2.3	30	73	23	54	64	2	1	31	1.18
6213122--6213185	32	2.0	33	84	9	87	65	3	0	31	1.08
6213060--6213182	43	2.9	41	73	16	108	65	1	2	30	1.15
6213349--6213414	23	2.8	24	81	11	73	69	0	1	28	0.97
6214921--6214973	19	2.9	18	74	20	56	64	1	9	24	1.34
6214958--6214986	13	2.1	14	93	6	51	75	0	3	20	0.94
6215060--6215125	11	6.0	11	70	19	57	68	0	3	28	1.05
6215061--6215128	21	3.2	22	77	10	70	70	0	2	26	1.01
6215078--6215201	26	4.9	24	70	16	65	63	2	3	30	1.23
6215800--6215890	37	2.5	37	88	0	128	31	14	13	40	1.84
6218235--6218281	24	2.0	24	95	0	85	38	38	8	14	1.77
6222044--6222088	21	2.1	21	83	0	54	31	13	6	48	1.68
6227830--6227868	20	1.9	21	89	5	62	74	0	12	12	1.08
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6227959--6227988	2	15.0	2	100	0	60	50	0	0	50	1.00
6228278--6228303	2	13.0	2	100	0	52	50	0	0	50	1.00
6230518--6231501	106	9.3	106	94	0	1650	22	18	25	33	1.97
6230518--6231501	317	3.1	316	92	1	1639	22	18	25	33	1.97
6233352--6233408	26	2.2	25	79	11	62	57	8	17	15	1.63
6238400--6238462	32	1.9	33	96	3	119	46	6	11	36	1.65
6239520--6239683	73	2.2	74	85	3	222	27	17	18	35	1.94
6239698--6239810	44	2.5	44	81	4	118	25	17	24	31	1.97
6239694--6239810	47	2.6	47	80	4	132	25	17	24	32	1.96
6242366--6242434	2	35.0	2	97	2	131	50	0	0	49	1.00

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