genome.fa.s1547.2.7.7.80.10.50.1000.30.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: VEPZ01001547.1 Hibiscus syriacus cultivar Beakdansim tig00003041_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Length:  10425128

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   

This is table  30  of  51  ( 6083 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)
5990939--5991005	7	9.7	7	79	10	68	82	1	16	0	0.75
5992137--5992648	83	6.2	83	95	0	918	29	14	21	34	1.93
5993457--5994080	113	5.5	113	90	3	934	38	14	19	27	1.91
5993984--5994171	93	2.1	89	83	7	227	36	15	17	29	1.91
5994445--5994534	3	30.0	3	83	0	117	38	2	0	58	1.10
5994445--5994534	21	4.3	21	92	0	135	38	2	0	58	1.10
5997973--5998055	23	3.8	22	83	13	100	24	22	27	25	2.00
6000525--6000561	18	2.1	18	100	0	74	43	5	27	24	1.76
6003764--6003815	18	2.9	18	88	0	77	19	19	32	28	1.96
6004404--6004443	2	20.0	2	100	0	80	50	0	0	50	1.00
6006907--6006981	35	2.1	35	92	0	123	33	29	28	9	1.88
6007057--6007139	23	3.5	24	83	4	116	36	20	16	26	1.94
6009577--6009650	13	5.5	13	74	15	60	16	20	44	18	1.87
6009585--6009623	17	2.3	17	86	8	53	7	23	48	20	1.75
6011639--6011712	35	2.1	34	90	2	112	33	28	28	9	1.88
6011789--6011871	23	3.5	24	83	4	116	36	20	16	26	1.94
6014243--6014274	13	2.5	13	100	0	64	12	25	46	15	1.81
6014128--6014442	159	2.0	156	96	3	587	26	19	31	22	1.98
6014369--6014416	10	5.6	9	85	14	50	22	22	35	18	1.96
6014370--6014429	8	7.5	8	77	21	56	21	23	38	16	1.93
6014403--6014434	13	2.5	13	100	0	64	12	25	46	15	1.81
6014397--6014451	18	2.9	18	89	8	74	14	21	45	18	1.85
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6014403--6014464	31	2.0	31	90	0	97	14	19	46	19	1.83
6014403--6014478	13	5.5	13	72	20	55	17	19	44	18	1.87
6027044--6027077	17	2.1	16	88	5	50	76	0	8	14	1.01
6027552--6027598	24	2.0	24	83	8	60	57	12	2	27	1.47
6030872--6030922	20	2.6	20	79	14	61	64	0	15	19	1.29
6030878--6030926	20	2.6	19	84	9	64	69	0	12	18	1.19
6044724--6044798	37	2.0	37	82	10	91	49	4	1	45	1.29
6049482--6049542	30	2.0	30	90	3	95	62	4	3	29	1.32
6050543--6050573	15	2.1	15	93	0	53	32	16	22	29	1.95
6050595--6050670	29	2.6	29	85	6	100	18	35	32	13	1.89
6050681--6050730	22	2.3	21	89	3	82	6	50	22	22	1.70
6051324--6051357	15	2.2	16	94	5	61	38	0	5	55	1.24
6051380--6051406	4	6.8	4	100	0	54	25	0	22	51	1.48
6051910--6051977	30	2.3	29	80	9	75	39	1	11	47	1.49
6052032--6052065	15	2.2	16	94	5	61	38	0	5	55	1.24
6050745--6052867	704	3.0	706	98	0	4088	34	6	17	40	1.76
6052616--6052683	30	2.3	29	80	9	75	39	1	13	45	1.52
6052738--6052771	15	2.2	16	94	5	61	38	0	5	55	1.24
6054980--6055066	10	8.7	10	72	22	58	43	14	0	41	1.46
6054900--6055115	59	4.0	53	86	12	241	45	11	0	42	1.40
6054930--6055123	60	3.2	60	97	1	372	45	12	0	41	1.42
6055197--6055244	14	3.6	14	81	16	66	47	16	0	35	1.47
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6055196--6055244	25	2.0	25	95	0	89	46	16	0	36	1.47
6055196--6055254	25	2.6	22	86	10	75	49	13	0	37	1.43
6055265--6055291	10	2.7	10	100	0	54	40	18	0	40	1.51
6055212--6055598	58	6.6	60	92	2	633	46	11	0	41	1.44
6055212--6055598	118	3.3	118	92	2	652	46	11	0	41	1.44
6055383--6055467	10	8.7	10	72	27	58	44	14	0	41	1.45
6055212--6055598	176	2.2	178	94	1	688	46	11	0	41	1.44
6055500--6055587	21	4.3	21	67	18	60	45	13	0	40	1.44
6055555--6055788	14	17.5	13	73	19	146	42	9	2	45	1.48
6055570--6055788	26	8.6	26	79	10	211	43	8	2	45	1.47
6055566--6055847	124	2.3	124	90	3	442	43	9	1	45	1.46
6055810--6055847	12	3.2	12	88	3	60	42	5	0	52	1.24
6056043--6056077	17	2.0	18	94	5	63	37	5	0	57	1.23
6059091--6059230	65	2.2	62	81	6	156	40	4	6	48	1.48
6059733--6059794	28	2.1	30	94	5	110	56	12	0	30	1.37
6060220--6060263	23	1.9	23	100	0	88	27	27	22	22	1.99
6060279--6060321	22	2.0	22	95	0	77	20	16	37	25	1.93
6060239--6060411	90	1.9	90	96	2	321	24	23	32	19	1.98
6060369--6060414	22	2.1	22	88	8	67	23	17	36	21	1.94
6060427--6060502	29	2.6	29	89	0	107	15	22	39	22	1.92
6066970--6067073	16	6.1	16	65	20	59	13	25	21	39	1.90
6066982--6067070	35	2.5	35	92	0	151	12	28	21	38	1.89
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6067003--6067064	19	3.4	19	68	20	60	6	27	24	41	1.79
6070674--6070727	20	2.7	20	97	0	99	20	24	35	20	1.96
6072871--6072927	20	2.8	20	80	15	64	57	14	1	26	1.46
6073339--6073395	21	2.6	22	88	2	80	33	15	28	22	1.95
6084553--6084614	2	31.0	2	93	0	106	48	1	1	48	1.21
6087222--6087271	2	25.5	2	95	4	93	50	0	0	50	1.00
6088547--6088634	14	6.5	14	82	11	112	31	23	20	23	1.98
6088547--6088641	27	3.5	27	94	0	163	30	24	21	24	1.99
6090490--6090583	18	4.8	18	77	19	89	19	20	31	28	1.97
6092021--6092332	156	2.0	156	98	1	599	39	10	21	29	1.86
6093695--6093731	18	2.1	18	100	0	74	32	5	24	37	1.78
6094865--6094931	13	5.1	13	81	15	84	35	1	17	44	1.58
6094864--6094938	26	2.9	25	81	16	84	36	1	17	45	1.57
6097420--6097509	32	2.8	31	88	3	126	17	26	28	26	1.98
6097885--6097911	14	1.9	14	100	0	54	59	3	0	37	1.15
6097842--6098177	10	32.6	10	67	18	131	61	3	5	30	1.35
6097885--6098107	25	9.4	23	68	20	97	60	3	5	30	1.36
6098010--6098085	14	5.7	13	70	25	52	59	1	7	31	1.34
6098081--6098121	21	2.0	21	85	9	57	70	4	0	24	1.06
6098012--6098125	53	2.2	52	80	6	122	63	2	5	28	1.30
6097843--6098091	3	82.7	3	67	17	115	60	2	6	30	1.35
6099101--6099146	16	2.9	16	90	0	65	34	19	21	23	1.96
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6102572--6102699	65	2.0	64	81	1	148	35	21	14	27	1.93
6104635--6104674	21	1.9	21	90	10	64	55	5	7	32	1.50
6108456--6108533	23	3.5	22	78	7	86	26	28	21	23	1.99
6110221--6110282	20	3.0	20	90	4	88	16	27	38	17	1.91
6111794--6111822	13	2.3	13	94	5	51	44	6	3	44	1.47
6112130--6112171	20	2.1	20	90	0	66	30	21	19	28	1.97
6112277--6112327	19	2.7	19	96	0	93	33	29	21	15	1.94
6116107--6116136	15	2.0	15	93	0	51	30	0	0	70	0.88
6117249--6117801	221	2.5	222	88	2	810	39	14	13	32	1.85
6117249--6117799	295	1.9	295	86	3	788	39	14	13	33	1.85
6117249--6117802	73	7.5	74	86	3	742	38	14	13	32	1.85
6118050--6118101	20	2.6	20	87	0	77	46	15	7	30	1.74
6120033--6120081	21	2.3	21	82	3	53	26	0	6	67	1.14
6122410--6122456	22	2.1	22	96	0	85	29	8	14	46	1.74
6122508--6122554	19	2.5	19	96	0	85	6	34	17	42	1.74
6123245--6123274	2	15.5	2	93	6	53	50	0	0	50	1.00
6130867--6130903	19	1.9	19	89	10	58	21	8	18	51	1.72
6131788--6131924	59	2.3	60	85	6	181	40	5	21	31	1.77
6132371--6132519	59	2.5	59	85	8	196	31	23	4	40	1.75
6135725--6135840	58	2.0	58	93	0	196	19	21	14	43	1.87
6136390--6136428	12	3.4	11	85	7	51	33	0	0	66	0.92
6137839--6137868	2	15.0	2	100	0	60	50	0	0	50	1.00
Indices	Period Size	Copy Number	Consensus Size	Percent Matches	Percent Indels	Score	A	C	G	T	Entropy (0-2)
6137973--6138012	21	1.9	21	84	0	53	35	5	2	57	1.34
6141829--6141880	20	2.6	21	84	9	72	19	11	34	34	1.88
6146333--6146417	2	42.5	2	100	0	170	50	0	0	49	1.00
6150954--6150978	3	8.3	3	100	0	50	68	0	0	32	0.90
6151632--6151684	22	2.5	22	84	3	63	32	28	5	33	1.81
6153210--6153255	15	3.0	16	75	9	51	32	8	17	41	1.80
6153204--6153265	30	2.1	29	85	8	81	33	9	19	37	1.84
6153344--6153440	23	4.2	23	85	0	122	17	22	24	35	1.95
6155190--6155232	15	2.9	15	80	13	52	18	20	34	25	1.96
6155386--6155487	5	20.4	5	100	0	204	40	0	0	59	0.97

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